Origin IGS: cgcatcaagaatagttttaacttttcagaaagcggatgaaatccttgcaatttctagctaaataaggtataatgataacaataatttgtcgtgtgctttatttgaaatattgtccaaatagaagcttacagcagttaaatcaaacttgaataagtcagatttagctgctctttttgtgcctatttttaggaaaaatggattatgtaaccataatttaatttttctgaaaattgaacaaaagggactgattgtggctgttttgcagcattgtaaatgacagaggattttcctctgaaaacatttcacagaactcgccctcaaagcgttgagaaaaagatacgtcttttctcactttatcaagggcttagtatcttatcataaaggagtaaaaacttggcaggacatgaagttcgatacgggaaacaccgtacccgtcgtagtttttcaagaattaaggaagttcttgatttaccaaatttgattgaaatccaaacggattcgttccaagatttcttggatcatggtctgaaggaagtctttgaagatgtacttcctatttcaaactttaccaacacc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ggtgttggtaaagtttgaaataggaagtacatcttcaaagacttccttcagaccatgatccaagaaatcttggaacgaatccgtttggatttcaatcaaatttggtaaatcaagaacttccttaattcttgaaaaactacgacgggtacggtgtttcccgtatcgaacttcatgtcctgccaagtttttactcctttatgataagatactaagcccttgataaagtgagaaaagacgtatctttttctcaacgctttgagggcgagttctgtgaaatgttttcagaggaaaatcctctgtcatttacaatgctgcaaaacagccacaatcagtcccttttgttcaattttcagaaaaattaaattatggttacataatccatttttcctaaaaataggcacaaaaagagcagctaaatctgacttattcaagtttgatttaactgctgtaagcttctatttggacaatatttcaaataaagcacacgacaaattattgttatcattataccttatttagctagaaattgcaaggatttcatccgctttctgaaaagttaaaactattcttgatgcg Mask Tandem Repeat Region ================================================ cgcatcaagaatagttttaacttttcagaaagcggatgaaatccttgcaatttctagctaaataaggtataatgataacaataatttgtcgtgtgctttatttgaaatattgtccaaatagaagcttacagcagttaaatcaaacttgaataagtcagatttagctgctctttttgtgcctatttttaggaaaaatggattatgtaaccataatttaatttttctgaaaattgaacaaaagggactgattgtggctgttttgcagcattgtaaatgacagaggattttcctctgaaaacatttcacagaactcgccctcaaagcgttgagaaaaagatacgtcttttctcactttatcaagggcttagtatcttatcataaaggagtaaaaacttggcaggacatgaagttcgatacgggaaacaccgtacccgtcgtagtttttcaagaattaaggaagttcttgatttaccaaatttgattgaaatccaaacggattcgttccaagatttcttggatcatggtctgaaggaagtctttgaagatgtacttcctatttcaaactttaccaacacc Find is-nt database================================================ Query_seq: SSA_0175:SSA_0176|SSA_0175:SSA_0176:Penicillin-binding protein 1B, putative:DNA-directed RNA polymerase I, beta chain (140 kDa subunit), putative:->->:174545..175120 576 cgcatcaagaatagttttaacttttcagaaagcggatgaaatccttgcaatttctagctaaataaggtataatgataacaataatttgtcgtgtgctttatttgaaatattgtccaaatagaagcttacagcagttaaatcaaacttgaataagtcagatttagctgctctttttgtgcctatttttaggaaaaatggattatgtaaccataatttaatttttctgaaaattgaacaaaagggactgattgtggctgttttgcagcattgtaaatgacagaggattttcctctgaaaacatttcacagaactcgccctcaaagcgttgagaaaaagatacgtcttttctcactttatcaagggcttagtatcttatcataaaggagtaaaaacttggcaggacatgaagttcgatacgggaaacaccgtacccgtcgtagtttttcaagaattaaggaagttcttgatttaccaaatttgattgaaatccaaacggattcgttccaagatttcttggatcatggtctgaaggaagtctttgaagatgtacttcctatttcaaactttaccaacacc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_0175:SSA_0176|SSA_0175:SSA_0176:Penicillin-binding protein 1B, putative:DNA-directed RNA polymerase I, beta chain (140 kDa subunit), putative:->->:174545..175120 576 cgcatcaagaatagttttaacttttcagaaagcggatgaaatccttgcaatttctagctaaataaggtataatgataacaataatttgtcgtgtgctttatttgaaatattgtccaaatagaagcttacagcagttaaatcaaacttgaataagtcagatttagctgctctttttgtgcctatttttaggaaaaatggattatgtaaccataatttaatttttctgaaaattgaacaaaagggactgattgtggctgttttgcagcattgtaaatgacagaggattttcctctgaaaacatttcacagaactcgccctcaaagcgttgagaaaaagatacgtcttttctcactttatcaagggcttagtatcttatcataaaggagtaaaaacttggcaggacatgaagttcgatacgggaaacaccgtacccgtcgtagtttttcaagaattaaggaagttcttgatttaccaaatttgattgaaatccaaacggattcgttccaagatttcttggatcatggtctgaaggaagtctttgaagatgtacttcctatttcaaactttaccaacacc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_0175:SSA_0176|SSA_0175:SSA_0176:Penicillin-binding protein 1B, putative:DNA-directed RNA polymerase I, beta chain (140 kDa subunit), putative:->->:174545..175120 576 cgcatcaagaatagttttaacttttcagaaagcggatgaaatccttgcaatttctagctaaataaggtataatgataacaataatttgtcgtgtgctttatttgaaatattgtccaaatagaagcttacagcagttaaatcaaacttgaataagtcagatttagctgctctttttgtgcctatttttaggaaaaatggattatgtaaccataatttaatttttctgaaaattgaacaaaagggactgattgtggctgttttgcagcattgtaaatgacagaggattttcctctgaaaacatttcacagaactcgccctcaaagcgttgagaaaaagatacgtcttttctcactttatcaagggcttagtatcttatcataaaggagtaaaaacttggcaggacatgaagttcgatacgggaaacaccgtacccgtcgtagtttttcaagaattaaggaagttcttgatttaccaaatttgattgaaatccaaacggattcgttccaagatttcttggatcatggtctgaaggaagtctttgaagatgtacttcctatttcaaactttaccaacacc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 50 Min: 388 Max: 576 Len: 189 Subject: UniRef90_Q97NQ7 Cluster: DNA-directed RNA polymerase beta chain; n=230; Streptococcus|Rep: DNA-directed RNA polymerase beta chain - Streptococcus pneumoniae HSP 1 e-value: 5.0E-25 bit: 116.0 Len: 183 Query Start:394 Query End:576 Subject Strand: null Subject Start: 1 Subject End: 61 ......................................................................................................................................................................................................................................................................................................................................................................................................... L A G H E V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F T N T ......................................................................................................................................................................................................................................................................................................................................................................................................... M A G H D V Q Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F K A F L D H G L K E V F E D V L P I S N F T D T Subject: UniRef90_Q88XZ3 Cluster: DNA-directed RNA polymerase beta chain; n=3; Lactobacillus|Rep: DNA-directed RNA polymerase beta chain - Lactobacillus plantarum HSP 1 e-value: 2.0E-20 bit: 100.0 Len: 177 Query Start:391 Query End:567 Subject Strand: null Subject Start: 3 Subject End: 61 ...................................................................................................................................................................................................................................................................................................................................................................................................... N L A G H E V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F ......... ...................................................................................................................................................................................................................................................................................................................................................................................................... N L A G H L V K Y G K H R T R R S Y A R I K E V L D L P N L I E I Q T D S Y Q W F L D E G L R E M F E D I M P I D D F ......... Subject: UniRef90_Q82Z40 Cluster: DNA-directed RNA polymerase beta chain; n=12; Enterococcus|Rep: DNA-directed RNA polymerase beta chain - Enterococcus faecalis (Streptococcus faecalis) HSP 1 e-value: 2.0E-19 bit: 97.4 Len: 180 Query Start:388 Query End:567 Subject Strand: null Subject Start: 2 Subject End: 61 ................................................................................................................................................................................................................................................................................................................................................................................................... K N L A G H E V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F ......... ................................................................................................................................................................................................................................................................................................................................................................................................... K S L A G H V V K Y G K H R E R R S F A R I S E V L E L P N L I E I Q T D S Y Q W F L D E G L R E M F E D I L P I D D F ......... Subject: UniRef90_Q1WVA5 Cluster: DNA-directed RNA polymerase beta chain; n=1; Lactobacillus salivarius subsp. salivarius UCC118|Rep: DNA-directed RNA polymerase beta chain - Lactobacillus salivarius subsp. salivarius (strain UCC118) HSP 1 e-value: 3.0E-19 bit: 97.1 Len: 177 Query Start:391 Query End:567 Subject Strand: null Subject Start: 3 Subject End: 61 ...................................................................................................................................................................................................................................................................................................................................................................................................... N L A G H E V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F ......... ...................................................................................................................................................................................................................................................................................................................................................................................................... N L A G H L V K Y G K H R V R R S Y S R I K E V L D L P N L I E V Q T D S Y K W F L D E G L R E M F D D I M P I E D F ......... Subject: UniRef90_Q034X0 Cluster: DNA-directed RNA polymerase, beta subunit/140 kD subunit; n=1; Lactobacillus casei ATCC 334|Rep: DNA-directed RNA polymerase, beta subunit/140 kD subunit - Lactobacillus casei (strain ATCC 334) HSP 1 e-value: 1.0E-18 bit: 95.1 Len: 174 Query Start:394 Query End:567 Subject Strand: null Subject Start: 1 Subject End: 58 ......................................................................................................................................................................................................................................................................................................................................................................................................... L A G H E V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F ......... ......................................................................................................................................................................................................................................................................................................................................................................................................... M A G H L V N Y G K H R T R R S Y A R I K E V L D L P N L I E I Q T N S Y Q W F L D E G L K E M F D D I M P I D D F ......... Subject: UniRef90_Q9CEN6 Cluster: DNA-directed RNA polymerase beta chain; n=8; Lactobacillales|Rep: DNA-directed RNA polymerase beta chain - Lactococcus lactis subsp. lactis (Streptococcus lactis) HSP 1 e-value: 1.0E-17 bit: 92.0 Len: 183 Query Start:394 Query End:576 Subject Strand: null Subject Start: 1 Subject End: 61 ......................................................................................................................................................................................................................................................................................................................................................................................................... L A G H E V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F T N T ......................................................................................................................................................................................................................................................................................................................................................................................................... M A G H D V K Y G K H R T R R S F S R I K E V I G L P N L I E V Q T L S Y K N F L D E G L A N V F K E M F P I D N F A G T Subject: UniRef90_Q1U8K4 Cluster: DNA-directed RNA polymerase, beta subunit; n=2; Lactobacillus reuteri|Rep: DNA-directed RNA polymerase, beta subunit - Lactobacillus reuteri 100-23 HSP 1 e-value: 1.0E-17 bit: 91.7 Len: 174 Query Start:394 Query End:567 Subject Strand: null Subject Start: 1 Subject End: 58 ......................................................................................................................................................................................................................................................................................................................................................................................................... L A G H E V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F ......... ......................................................................................................................................................................................................................................................................................................................................................................................................... M A G H L V K Y G K H R T R R S Y S R I K E V L E L P N L I E I Q T D S Y N W F M E K G L R E M F D D I M P I D D F ......... Subject: UniRef90_Q38UQ2 Cluster: DNA-directed RNA polymerase beta chain; n=4; Lactobacillus|Rep: DNA-directed RNA polymerase beta chain - Lactobacillus sakei subsp. sakei (strain 23K) HSP 1 e-value: 2.0E-17 bit: 90.9 Len: 174 Query Start:394 Query End:567 Subject Strand: null Subject Start: 1 Subject End: 58 ......................................................................................................................................................................................................................................................................................................................................................................................................... L A G H E V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F ......... ......................................................................................................................................................................................................................................................................................................................................................................................................... M A G H L V N Y G K H R T R R S Y A R I K E V L E L P N L I E I Q S N S Y Q W F L D E G L R E M F D D I M P I D D F ......... Subject: UniRef90_Q5FM97 Cluster: DNA-directed RNA polymerase beta chain; n=2; Lactobacillus|Rep: DNA-directed RNA polymerase beta chain - Lactobacillus acidophilus HSP 1 e-value: 2.0E-17 bit: 90.9 Len: 177 Query Start:394 Query End:570 Subject Strand: null Subject Start: 2 Subject End: 60 ......................................................................................................................................................................................................................................................................................................................................................................................................... L A G H E V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F T ...... ......................................................................................................................................................................................................................................................................................................................................................................................................... L N G H V V N Y G K H R T R R S F S R I K E V L K L P N L T D V Q T E S Y K W F L D K G I K E V F D D I M P I S D F S ...... Subject: UniRef90_Q92F22 Cluster: DNA-directed RNA polymerase beta chain; n=19; Bacilli|Rep: DNA-directed RNA polymerase beta chain - Listeria innocua HSP 1 e-value: 2.0E-16 bit: 87.8 Len: 171 Query Start:397 Query End:567 Subject Strand: null Subject Start: 5 Subject End: 61 ............................................................................................................................................................................................................................................................................................................................................................................................................ A G H E V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F ......... ............................................................................................................................................................................................................................................................................................................................................................................................................ S G H D V K Y G R H R T R R S F A R I S E V L E L P N L I E I Q T A S Y Q W F L D E G L R E M F R D I S P I E D F ......... Subject: UniRef90_Q1GBM5 Cluster: DNA-directed RNA polymerase beta chain; n=5; Lactobacillus delbrueckii|Rep: DNA-directed RNA polymerase beta chain - Lactobacillus delbrueckii subsp. bulgaricus (strain ATCC 11842 / DSM20081) HSP 1 e-value: 3.0E-16 bit: 87.0 Len: 171 Query Start:394 Query End:564 Subject Strand: null Subject Start: 2 Subject End: 58 ......................................................................................................................................................................................................................................................................................................................................................................................................... L A G H E V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N ............ ......................................................................................................................................................................................................................................................................................................................................................................................................... L N G H V V N Y G Q H R T R R S F S R I K E I L P L P N L T D V Q T E S Y K W F L D E G V K E V F D D I L P I S D ............ Subject: UniRef90_Q74L95 Cluster: DNA-directed RNA polymerase beta chain; n=2; Lactobacillus|Rep: DNA-directed RNA polymerase beta chain - Lactobacillus johnsonii HSP 1 e-value: 2.0E-15 bit: 84.3 Len: 177 Query Start:394 Query End:570 Subject Strand: null Subject Start: 1 Subject End: 59 ......................................................................................................................................................................................................................................................................................................................................................................................................... L A G H E V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F T ...... ......................................................................................................................................................................................................................................................................................................................................................................................................... M L G H A V N Y G S H R T R R S F S R I K E V L K L P N L T D V Q T Q S Y K W F L N E G I R E M F D D I M P I S D F S ...... Subject: UniRef90_P37870 Cluster: DNA-directed RNA polymerase beta chain; n=19; Bacillus|Rep: DNA-directed RNA polymerase beta chain - Bacillus subtilis HSP 1 e-value: 6.0E-15 bit: 82.8 Len: 177 Query Start:394 Query End:570 Subject Strand: null Subject Start: 1 Subject End: 59 ......................................................................................................................................................................................................................................................................................................................................................................................................... L A G H E V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F T ...... ......................................................................................................................................................................................................................................................................................................................................................................................................... M T G Q L V Q Y G R H R Q R R S Y A R I S E V L E L P N L I E I Q T S S Y Q W F L D E G L R E M F Q D I S P I E D F T ...... Subject: UniRef90_Q81VT8 Cluster: DNA-directed RNA polymerase beta chain; n=89; Bacillaceae|Rep: DNA-directed RNA polymerase beta chain - Bacillus anthracis HSP 1 e-value: 6.0E-15 bit: 82.8 Len: 177 Query Start:394 Query End:570 Subject Strand: null Subject Start: 1 Subject End: 59 ......................................................................................................................................................................................................................................................................................................................................................................................................... L A G H E V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F T ...... ......................................................................................................................................................................................................................................................................................................................................................................................................... M T G Q L V Q Y G R H R Q R R S Y A R I S E V L E L P N L I E I Q T S S Y Q W F L D E G L R E M F Q D I S P I E D F T ...... Subject: UniRef90_A3IG45 Cluster: DNA-directed RNA polymerase subunit beta; n=2; Firmicutes|Rep: DNA-directed RNA polymerase subunit beta - Bacillus sp. B14905 HSP 1 e-value: 1.0E-14 bit: 82.0 Len: 177 Query Start:394 Query End:570 Subject Strand: null Subject Start: 4 Subject End: 62 ......................................................................................................................................................................................................................................................................................................................................................................................................... L A G H E V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F T ...... ......................................................................................................................................................................................................................................................................................................................................................................................................... L T G Q L V Q Y G Q H R Q R R S F A R I K E V L E L P N L I E I Q T A S Y E W F L E E G L R E M F R D I S P I E D F T ...... Subject: UniRef90_Q9Z9M2 Cluster: DNA-directed RNA polymerase beta chain; n=3; Bacillus|Rep: DNA-directed RNA polymerase beta chain - Bacillus halodurans HSP 1 e-value: 1.0E-14 bit: 81.6 Len: 177 Query Start:394 Query End:570 Subject Strand: null Subject Start: 1 Subject End: 59 ......................................................................................................................................................................................................................................................................................................................................................................................................... L A G H E V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F T ...... ......................................................................................................................................................................................................................................................................................................................................................................................................... M T G Q L I Q Y G R H R Q R R S Y A R I N E V L E L P N L I E I Q T A S Y Q W F L D E G L R E M F Q D I S P I Q D F T ...... Subject: UniRef90_Q5L405 Cluster: DNA-directed RNA polymerase beta chain; n=7; Geobacillus|Rep: DNA-directed RNA polymerase beta chain - Geobacillus kaustophilus HSP 1 e-value: 9.0E-14 bit: 79.0 Len: 177 Query Start:394 Query End:570 Subject Strand: null Subject Start: 1 Subject End: 59 ......................................................................................................................................................................................................................................................................................................................................................................................................... L A G H E V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F T ...... ......................................................................................................................................................................................................................................................................................................................................................................................................... M T G R L V Q Y G R H R Q R R S Y A R I S E V L E L P N L I E I Q T S S Y Q W F L D E G L R E M F R E I S P I E D F S ...... Subject: UniRef90_Q8ETY8 Cluster: DNA-directed RNA polymerase beta chain; n=1; Oceanobacillus iheyensis|Rep: DNA-directed RNA polymerase beta chain - Oceanobacillus iheyensis HSP 1 e-value: 1.0E-13 bit: 78.6 Len: 177 Query Start:394 Query End:570 Subject Strand: null Subject Start: 1 Subject End: 59 ......................................................................................................................................................................................................................................................................................................................................................................................................... L A G H E V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F T ...... ......................................................................................................................................................................................................................................................................................................................................................................................................... M T G Q L V Q Y G R H R Q R R S Y A R I N E V L E L P N L I E I Q T A S Y D W F L E E G L R E M F Q D I S P I E D F T ...... Subject: UniRef90_Q4L3K3 Cluster: DNA-directed RNA polymerase beta chain; n=67; Bacteria|Rep: DNA-directed RNA polymerase beta chain - Staphylococcus haemolyticus (strain JCSC1435) HSP 1 e-value: 6.0E-13 bit: 76.3 Len: 177 Query Start:394 Query End:570 Subject Strand: null Subject Start: 1 Subject End: 59 ......................................................................................................................................................................................................................................................................................................................................................................................................... L A G H E V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F T ...... ......................................................................................................................................................................................................................................................................................................................................................................................................... M A G Q V V Q Y G R H R K R R N Y A R I S E V L E L P N L I E I Q T K S Y D W F L K E G L L E M F R D I S P I E D F T ...... Subject: UniRef90_Q18CF1 Cluster: DNA-directed RNA polymerase beta chain; n=2; Clostridium difficile|Rep: DNA-directed RNA polymerase beta chain - Clostridium difficile (strain 630) HSP 1 e-value: 1.0E-11 bit: 72.0 Len: 168 Query Start:403 Query End:570 Subject Strand: null Subject Start: 3 Subject End: 57 .................................................................................................................................................................................................................................................................................................................................................................................................................. H E V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F T ...... .................................................................................................................................................................................................................................................................................................................................................................................................................. H P V T I G K - R T R M S F S K I K E I A D V P N L I E I Q V D S Y E W F L K E G L K E V F D D I S P I E D Y T ...... Subject: UniRef90_P0C2E7 Cluster: DNA-directed RNA polymerase beta chain; n=3; Clostridium perfringens|Rep: DNA-directed RNA polymerase beta chain - Clostridium perfringens HSP 1 e-value: 1.0E-11 bit: 72.0 Len: 168 Query Start:403 Query End:570 Subject Strand: null Subject Start: 3 Subject End: 57 .................................................................................................................................................................................................................................................................................................................................................................................................................. H E V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F T ...... .................................................................................................................................................................................................................................................................................................................................................................................................................. H P V Q V G K - R T R M S F A K V K D V A E M P N L I E I Q L D S Y K W F L D A G L Y E V F D D I N P I S N F T ...... Subject: UniRef90_Q1ETQ0 Cluster: DNA-directed RNA polymerase, beta subunit; n=1; Clostridium sp. OhILAs|Rep: DNA-directed RNA polymerase, beta subunit - Clostridium sp. OhILAs HSP 1 e-value: 2.0E-11 bit: 70.9 Len: 168 Query Start:403 Query End:570 Subject Strand: null Subject Start: 4 Subject End: 58 .................................................................................................................................................................................................................................................................................................................................................................................................................. H E V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F T ...... .................................................................................................................................................................................................................................................................................................................................................................................................................. H P V Q L G K - K T R M S Y S Q I D E V L E M P N L I D L Q K D S Y Q W F L D E G L K E V F D D V S P I E D Y T ...... Subject: UniRef90_Q04E85 Cluster: DNA-directed RNA polymerase, beta subunit/140 kD subunit; n=2; Oenococcus|Rep: DNA-directed RNA polymerase, beta subunit/140 kD subunit - Oenococcus oeni (strain BAA-331 / PSU-1) HSP 1 e-value: 2.0E-10 bit: 67.8 Len: 165 Query Start:403 Query End:567 Subject Strand: null Subject Start: 4 Subject End: 58 .................................................................................................................................................................................................................................................................................................................................................................................................................. H E V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F ......... .................................................................................................................................................................................................................................................................................................................................................................................................................. H N V K I N K H V T R R S Y S S A K E V L E I P P L T E V Q T A S Y K W F M D K G I K E M F N D I M P I E D F ......... Subject: UniRef90_Q2WIG9 Cluster: DNA-directed RNA polymerase, beta subunit; n=1; Clostridium beijerincki NCIMB 8052|Rep: DNA-directed RNA polymerase, beta subunit - Clostridium beijerincki NCIMB 8052 HSP 1 e-value: 5.0E-10 bit: 66.6 Len: 168 Query Start:403 Query End:570 Subject Strand: null Subject Start: 3 Subject End: 57 .................................................................................................................................................................................................................................................................................................................................................................................................................. H E V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F T ...... .................................................................................................................................................................................................................................................................................................................................................................................................................. H P V Q V G K - R T R M S F G K V N D V T E M P N L I E V Q L D S Y E W F L R E G L H E V F D D I N P I T N F T ...... Subject: UniRef90_Q890N4 Cluster: DNA-directed RNA polymerase beta chain; n=1; Clostridium tetani|Rep: DNA-directed RNA polymerase beta chain - Clostridium tetani HSP 1 e-value: 5.0E-10 bit: 66.6 Len: 168 Query Start:403 Query End:570 Subject Strand: null Subject Start: 3 Subject End: 57 .................................................................................................................................................................................................................................................................................................................................................................................................................. H E V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F T ...... .................................................................................................................................................................................................................................................................................................................................................................................................................. H P V Q V G K - R T R M S F S K I K E V C E M S N L I E V Q L D S Y E W F L Q E G L Q E V F D D I N P I Q D Y T ...... Subject: UniRef90_Q97EG9 Cluster: DNA-directed RNA polymerase beta chain; n=1; Clostridium acetobutylicum|Rep: DNA-directed RNA polymerase beta chain - Clostridium acetobutylicum HSP 1 e-value: 5.0E-10 bit: 66.6 Len: 168 Query Start:403 Query End:570 Subject Strand: null Subject Start: 3 Subject End: 57 .................................................................................................................................................................................................................................................................................................................................................................................................................. H E V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F T ...... .................................................................................................................................................................................................................................................................................................................................................................................................................. H P V Q V G K - R T R M S F S K L D E I G V M P N L I E V Q L D S Y Q W F L D N G L Q E I F D D I N P I Q D Y T ...... Subject: UniRef90_A0V001 Cluster: DNA-directed RNA polymerase, beta subunit; n=1; Clostridium cellulolyticum H10|Rep: DNA-directed RNA polymerase, beta subunit - Clostridium cellulolyticum H10 HSP 1 e-value: 6.0E-10 bit: 66.2 Len: 162 Query Start:409 Query End:570 Subject Strand: null Subject Start: 5 Subject End: 57 ........................................................................................................................................................................................................................................................................................................................................................................................................................ V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F T ...... ........................................................................................................................................................................................................................................................................................................................................................................................................................ V K L G R N - T R M S Y S K I R E V L E M P N L I E V Q K N S Y Q W F L D E G L R E V F R D I S P I T D Y T ...... Subject: UniRef90_Q3C3G7 Cluster: DNA-directed RNA polymerase, beta subunit; n=1; Alkaliphilus metalliredigenes QYMF|Rep: DNA-directed RNA polymerase, beta subunit - Alkaliphilus metalliredigenes QYMF HSP 1 e-value: 1.0E-9 bit: 65.1 Len: 168 Query Start:403 Query End:570 Subject Strand: null Subject Start: 3 Subject End: 57 .................................................................................................................................................................................................................................................................................................................................................................................................................. H E V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F T ...... .................................................................................................................................................................................................................................................................................................................................................................................................................. H P V Q L G K - K V R M S Y S Q I N E V L D M P N L I E L Q K E A Y D W F L D E G L R E V F N D I S P I Q D Y T ...... Subject: UniRef90_A3DIZ4 Cluster: DNA-directed RNA polymerase, beta subunit; n=1; Clostridium thermocellum ATCC 27405|Rep: DNA-directed RNA polymerase, beta subunit - Clostridium thermocellum (strain ATCC 27405 / DSM 1237) HSP 1 e-value: 2.0E-9 bit: 64.7 Len: 168 Query Start:403 Query End:570 Subject Strand: null Subject Start: 3 Subject End: 57 .................................................................................................................................................................................................................................................................................................................................................................................................................. H E V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F T ...... .................................................................................................................................................................................................................................................................................................................................................................................................................. H P V K L G R N - V R M S Y S K I D E V I D M P N L I E I Q K N S Y E Q F L K E G F K E V F K D V N P I T D Y T ...... Subject: UniRef90_Q1WYN3 Cluster: DNA-directed RNA polymerase beta subunit/140 kD subunit; n=1; Pelotomaculum thermopropionicum SI|Rep: DNA-directed RNA polymerase beta subunit/140 kD subunit - Pelotomaculum thermopropionicum SI HSP 1 e-value: 2.0E-9 bit: 64.7 Len: 144 Query Start:427 Query End:570 Subject Strand: null Subject Start: 10 Subject End: 57 .......................................................................................................................................................................................................................................................................................................................................................................................................................................... R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F T ...... .......................................................................................................................................................................................................................................................................................................................................................................................................................................... R V R Y N F G R L R E V L D L P N L I E V Q R N S Y K W F L E E G L R E V F Q D I S P I Q D F T ...... Subject: UniRef90_Q8R7U6 Cluster: DNA-directed RNA polymerase beta chain; n=3; Thermoanaerobacter|Rep: DNA-directed RNA polymerase beta chain - Thermoanaerobacter tengcongensis HSP 1 e-value: 5.0E-9 bit: 63.2 Len: 144 Query Start:427 Query End:570 Subject Strand: null Subject Start: 10 Subject End: 57 .......................................................................................................................................................................................................................................................................................................................................................................................................................................... R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F T ...... .......................................................................................................................................................................................................................................................................................................................................................................................................................................... R T R M S F A K I D E V L E I P D L I E V Q K K S Y Q W F L E E G L K E V F Q E I S P I E S F T ...... Subject: UniRef90_Q67JT3 Cluster: DNA-directed RNA polymerase beta chain; n=1; Symbiobacterium thermophilum|Rep: DNA-directed RNA polymerase beta chain - Symbiobacterium thermophilum HSP 1 e-value: 9.0E-9 bit: 62.4 Len: 144 Query Start:427 Query End:570 Subject Strand: null Subject Start: 10 Subject End: 57 .......................................................................................................................................................................................................................................................................................................................................................................................................................................... R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F T ...... .......................................................................................................................................................................................................................................................................................................................................................................................................................................... R Q R L S F S R I D E V L E M P N L I E L Q R N S Y Q W F L R E G L Q E M F Q D I S P I Q D F T ...... Subject: UniRef90_Q6YQW3 Cluster: DNA-directed RNA polymerase beta chain; n=2; Candidatus Phytoplasma asteris|Rep: DNA-directed RNA polymerase beta chain - Onion yellows phytoplasma HSP 1 e-value: 1.0E-8 bit: 62.0 Len: 165 Query Start:403 Query End:567 Subject Strand: null Subject Start: 4 Subject End: 58 .................................................................................................................................................................................................................................................................................................................................................................................................................. H E V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F ......... .................................................................................................................................................................................................................................................................................................................................................................................................................. H N V K Y G K K A Q R R N Y S K T I Y D V D L P N L I E I Q N Q S F D W F L K H G I K E L L Q D F C P I E S Y ......... Subject: UniRef90_Q2RFN9 Cluster: DNA-directed RNA polymerase beta chain; n=1; Moorella thermoacetica ATCC 39073|Rep: DNA-directed RNA polymerase beta chain - Moorella thermoacetica (strain ATCC 39073) HSP 1 e-value: 1.0E-8 bit: 62.0 Len: 144 Query Start:427 Query End:570 Subject Strand: null Subject Start: 10 Subject End: 57 .......................................................................................................................................................................................................................................................................................................................................................................................................................................... R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F T ...... .......................................................................................................................................................................................................................................................................................................................................................................................................................................... R E R W T F A K I K E T L E L P N L I E I Q R N S Y Q W F I D T G L R E L F H D I S P I Q D F T ...... Subject: UniRef90_A4J103 Cluster: DNA-directed RNA polymerase, beta subunit; n=1; Desulfotomaculum reducens MI-1|Rep: DNA-directed RNA polymerase, beta subunit - Desulfotomaculum reducens MI-1 HSP 1 e-value: 2.0E-8 bit: 61.2 Len: 147 Query Start:424 Query End:570 Subject Strand: null Subject Start: 9 Subject End: 57 ....................................................................................................................................................................................................................................................................................................................................................................................................................................... H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F T ...... ....................................................................................................................................................................................................................................................................................................................................................................................................................................... N R V R W N Y G K L R E V L D L P N L I E V Q R N S Y E W F L Q E G L R E V F H D I S P I Q D F T ...... Subject: UniRef90_A0PXT8 Cluster: DNA-directed RNA polymerase, beta subunit; n=1; Clostridium novyi NT|Rep: DNA-directed RNA polymerase, beta subunit - Clostridium novyi (strain NT) HSP 1 e-value: 2.0E-8 bit: 61.2 Len: 168 Query Start:403 Query End:570 Subject Strand: null Subject Start: 3 Subject End: 57 .................................................................................................................................................................................................................................................................................................................................................................................................................. H E V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F T ...... .................................................................................................................................................................................................................................................................................................................................................................................................................. H P I Q I G K - R T R M S F S K V K E M C P M P N L I E V Q L N S Y D W F W K E G L N E V F D D V N P I Q D Y T ...... Subject: UniRef90_Q1FGU4 Cluster: DNA-directed RNA polymerase, beta subunit; n=1; Clostridium phytofermentans ISDg|Rep: DNA-directed RNA polymerase, beta subunit - Clostridium phytofermentans ISDg HSP 1 e-value: 2.0E-8 bit: 61.2 Len: 165 Query Start:409 Query End:573 Subject Strand: null Subject Start: 9 Subject End: 62 ........................................................................................................................................................................................................................................................................................................................................................................................................................ V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F T N ... ........................................................................................................................................................................................................................................................................................................................................................................................................................ I K V G K G - V R M S Y S K Q K E V L E M P N L I E V Q K D S Y Q W F L E E G L N E V F D D I S P I E D Y S D ... Subject: UniRef90_Q2ZE92 Cluster: DNA-directed RNA polymerase, beta subunit; n=1; Caldicellulosiruptor saccharolyticus DSM 8903|Rep: DNA-directed RNA polymerase, beta subunit - Caldicellulosiruptor saccharolyticus DSM 8903 HSP 1 e-value: 2.0E-8 bit: 61.2 Len: 162 Query Start:409 Query End:570 Subject Strand: null Subject Start: 7 Subject End: 59 ........................................................................................................................................................................................................................................................................................................................................................................................................................ V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F T ...... ........................................................................................................................................................................................................................................................................................................................................................................................................................ V Q Y G K V Q - R M S Y G K V K E V L D L P Y L L E I Q K K S F Q W F L D E G L R E V L R E I S P I K D Y T ...... Subject: UniRef90_Q0AUH2 Cluster: DNA-directed RNA polymerase; n=1; Syntrophomonas wolfei subsp. wolfei str. Goettingen|Rep: DNA-directed RNA polymerase - Syntrophomonas wolfei subsp. wolfei (strain Goettingen) HSP 1 e-value: 3.0E-8 bit: 60.8 Len: 141 Query Start:430 Query End:570 Subject Strand: null Subject Start: 11 Subject End: 57 ............................................................................................................................................................................................................................................................................................................................................................................................................................................. T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F T ...... ............................................................................................................................................................................................................................................................................................................................................................................................................................................. S R L S Y S R I K E P V E L P N L I Q I Q K N S Y D W F L E H G L R E A L Q E V F P I S D F T ...... Subject: UniRef90_A1HQK2 Cluster: DNA-directed RNA polymerase, beta subunit; n=1; Thermosinus carboxydivorans Nor1|Rep: DNA-directed RNA polymerase, beta subunit - Thermosinus carboxydivorans Nor1 HSP 1 e-value: 3.0E-8 bit: 60.5 Len: 144 Query Start:427 Query End:570 Subject Strand: null Subject Start: 10 Subject End: 57 .......................................................................................................................................................................................................................................................................................................................................................................................................................................... R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F T ...... .......................................................................................................................................................................................................................................................................................................................................................................................................................................... R V R Y S Y A K I N E V L D M P N L I E I Q K N S Y N W F L K E G L Q E I F R D I S P I Q D F T ...... Subject: UniRef90_Q3A9Q7 Cluster: DNA-directed RNA polymerase beta chain; n=1; Carboxydothermus hydrogenoformans Z-2901|Rep: DNA-directed RNA polymerase beta chain - Carboxydothermus hydrogenoformans (strain Z-2901 / DSM 6008) HSP 1 e-value: 3.0E-7 bit: 57.4 Len: 162 Query Start:409 Query End:570 Subject Strand: null Subject Start: 4 Subject End: 56 ........................................................................................................................................................................................................................................................................................................................................................................................................................ V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F T ...... ........................................................................................................................................................................................................................................................................................................................................................................................................................ V Q V G K - K I R Y S Y A K F P E I L E L P Y L I E I Q K K S Y Q W F L D E G L R E V F R E I S P I T D F T ...... Subject: UniRef90_Q3DWP9 Cluster: DNA-directed RNA polymerase, beta subunit; n=2; Chloroflexus|Rep: DNA-directed RNA polymerase, beta subunit - Chloroflexus aurantiacus J-10-fl HSP 1 e-value: 5.0E-7 bit: 56.6 Len: 171 Query Start:400 Query End:570 Subject Strand: null Subject Start: 20 Subject End: 76 ............................................................................................................................................................................................................................................................................................................................................................................................................... G H E V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F T ...... ............................................................................................................................................................................................................................................................................................................................................................................................................... G A D G R R S R R I E R R S F A R I K D A I D L P L L I E T Q L K S F E W F K R E G L R E L F D E I S P I T D F T ...... Subject: UniRef90_A3SI21 Cluster: DNA-directed RNA polymerase beta subunit; n=2; Rhodobacteraceae|Rep: DNA-directed RNA polymerase beta subunit - Roseovarius nubinhibens ISM HSP 1 e-value: 2.0E-6 bit: 54.3 Len: 159 Query Start:418 Query End:576 Subject Strand: null Subject Start: 7 Subject End: 69 ................................................................................................................................................................................................................................................................................................................................................................................................................................. G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D - - - - - - - - - - H G L K E V F E D V L P I S N F T N T ................................................................................................................................................................................................................................................................................................................................................................................................................................. G Q K R L R R Y F G K I R E V L E M P N L I E V Q K S S Y D L F L N S G D Q P Q P M D G E G I K G V F Q S V F P I S D F N E T Subject: UniRef90_Q0LJW9 Cluster: DNA-directed RNA polymerase, beta subunit; n=1; Herpetosiphon aurantiacus ATCC 23779|Rep: DNA-directed RNA polymerase, beta subunit - Herpetosiphon aurantiacus ATCC 23779 HSP 1 e-value: 2.0E-6 bit: 54.3 Len: 141 Query Start:430 Query End:570 Subject Strand: null Subject Start: 30 Subject End: 76 ............................................................................................................................................................................................................................................................................................................................................................................................................................................. T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F T ...... ............................................................................................................................................................................................................................................................................................................................................................................................................................................. S R R S F A R I T D A I E L P K L I E T Q I D S F R W F Q R E G L R E L F D E I N P I D D F T ...... Subject: UniRef90_A1GNV2 Cluster: DNA-directed RNA polymerase, beta subunit; n=1; Thermosipho melanesiensis BI429|Rep: DNA-directed RNA polymerase, beta subunit - Thermosipho melanesiensis BI429 HSP 1 e-value: 3.0E-6 bit: 53.9 Len: 159 Query Start:406 Query End:564 Subject Strand: null Subject Start: 3 Subject End: 54 ..................................................................................................................................................................................................................................................................................................................................................................................................................... E V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N ............ ..................................................................................................................................................................................................................................................................................................................................................................................................................... E I K R G K - R T R Y S F E R V Q T P I P V P N L V E I Q T K S Y Q D F L E N G I L K V L K K F S P I T S ............ Subject: UniRef90_Q6N4R9 Cluster: DNA-directed RNA polymerase beta chain; n=26; Bradyrhizobiaceae|Rep: DNA-directed RNA polymerase beta chain - Rhodopseudomonas palustris HSP 1 e-value: 4.0E-6 bit: 53.5 Len: 156 Query Start:418 Query End:573 Subject Strand: null Subject Start: 8 Subject End: 69 ................................................................................................................................................................................................................................................................................................................................................................................................................................. G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L - - - - - - - - - - D H G L K E V F E D V L P I S N F T N ... ................................................................................................................................................................................................................................................................................................................................................................................................................................. G R K R V R K F F G H I R E V A E M P N L I E V Q K A S Y D Q F L M V A E P P G G R P D E G L Q A V F R S V F P I S D F S N ... Subject: UniRef90_Q6MJ09 Cluster: DNA-directed RNA polymerase beta chain; n=2; Bdellovibrio bacteriovorus|Rep: DNA-directed RNA polymerase beta chain - Bdellovibrio bacteriovorus HSP 1 e-value: 5.0E-6 bit: 53.1 Len: 150 Query Start:427 Query End:576 Subject Strand: null Subject Start: 22 Subject End: 81 .......................................................................................................................................................................................................................................................................................................................................................................................................................................... R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L - - - - - - - - - - D H G L K E V F E D V L P I S N F T N T .......................................................................................................................................................................................................................................................................................................................................................................................................................................... R V R K S F A K N K Q V I D I P N L I E L Q K S S Y E A F I Q K D M D P D R R G D A G L N G V F K S V F P I T D F N N T Subject: UniRef90_Q9KJG4 Cluster: DNA-directed RNA polymerase beta chain; n=18; Bartonella|Rep: DNA-directed RNA polymerase beta chain - Bartonella henselae (Rochalimaea henselae) HSP 1 e-value: 5.0E-6 bit: 53.1 Len: 159 Query Start:418 Query End:576 Subject Strand: null Subject Start: 13 Subject End: 75 ................................................................................................................................................................................................................................................................................................................................................................................................................................. G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L - - - - - - - - - - D H G L K E V F E D V L P I S N F T N T ................................................................................................................................................................................................................................................................................................................................................................................................................................. G R K R V R K F F G K I P E V A E M P N L I E V Q K A S Y D Q F L M I E E P K G G R P D E G L Q A V F K S V F P I S D F S G T Subject: UniRef90_Q26WT3 Cluster: DNA-directed RNA polymerase, beta subunit; n=1; Xanthobacter autotrophicus Py2|Rep: DNA-directed RNA polymerase, beta subunit - Xanthobacter sp. (strain Py2) HSP 1 e-value: 7.0E-6 bit: 52.8 Len: 153 Query Start:418 Query End:570 Subject Strand: null Subject Start: 7 Subject End: 67 ................................................................................................................................................................................................................................................................................................................................................................................................................................. G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L - - - - - - - - - - D H G L K E V F E D V L P I S N F T ...... ................................................................................................................................................................................................................................................................................................................................................................................................................................. G R K R I R K F F G K I K E V A E M P N L I E V Q K A S Y D Q F L Q I E E P K G G R D D D G L Q A V F K S V F P I S D F S ...... Subject: UniRef90_Q9AAU2 Cluster: DNA-directed RNA polymerase beta chain; n=2; Caulobacter|Rep: DNA-directed RNA polymerase beta chain - Caulobacter crescentus (Caulobacter vibrioides) HSP 1 e-value: 9.0E-6 bit: 52.4 Len: 150 Query Start:418 Query End:567 Subject Strand: null Subject Start: 7 Subject End: 66 ................................................................................................................................................................................................................................................................................................................................................................................................................................. G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L - - - - - - - - - - D H G L K E V F E D V L P I S N F ......... ................................................................................................................................................................................................................................................................................................................................................................................................................................. G K K R I R K S F G R I P E A V Q M P N L I E V Q R S S Y E Q F L Q R E T R P G L R R D E G V E A V F K S V F P I K D F ......... cgcatcaagaatagttttaacttttcagaaagcggatgaaatccttgcaatttctagctaaataaggtataatgataacaataatttgtcgtgtgctttatttgaaatattgtccaaatagaagcttacagcagttaaatcaaacttgaataagtcagatttagctgctctttttgtgcctatttttaggaaaaatggattatgtaaccataatttaatttttctgaaaattgaacaaaagggactgattgtggctgttttgcagcattgtaaatgacagaggattttcctctgaaaacatttcacagaactcgccctcaaagcgttgagaaaaagatacgtcttttctcactttatcaagggcttagtatcttatcataaaggagtnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn Predict ORF larger than 30AA ================================================ Protein_Len: 43 Strand: + Start: 146 End: 274 ................................................................................................................................................. M N K S D L A A L F V P I F R K N G L C N H N L I F L K I E Q K G L I V A V L Q H C K .............................................................................................................................................................................................................................................................................................................. Protein_Len: 35 Strand: + Start: 274 End: 378 ................................................................................................................................................................................................................................................................................. M T E D F P L K T F H R T R P Q S V E K K I R L F S L Y Q G L S I L S ...................................................................................................................................................................................................... Protein_Len: 51 Strand: + Start: 326 End: 478 ..................................................................................................................................................................................................................................................................................................................................... M R K R Y V F S H F I K G L V S Y H K G V K T W Q D M K F D T G N T V P V V V F Q E L R K F L I Y Q I .................................................................................................. Protein_Len: 60 Strand: + Start: 394 End: 576 ......................................................................................................................................................................................................................................................................................................................................................................................................... M A G H E V R Y G K H R T R R S F S R I K E V L D L P N L I E I Q T D S F Q D F L D H G L K E V F E D V L P I S N F T N Protein_Len: 43 Strand: - Start: 360 End: 488 ....................................................................................................................................................................................................................................................................................................................................................................... P S L I K D Y L L L F K A P C S T R Y P F C R V R R L K E L I L S T R S K G F K I S M ........................................................................................ Protein_Len: 45 Strand: - Start: 218 End: 352 ......................................................................................................................................................................................................................... N K Q F N F L L S Q N H S N Q L M T F S L P N E E S F M E C F E G E F R Q S F S V D K R M ................................................................................................................................................................................................................................ Protein_Len: 60 Strand: - Start: 61 End: 321 ............................................................ F K F L D S K A A R K T G I K L F F P N H L W L K I K R F I S C F P S I T A T K C C Q L H C L I K R Q F C K V S S A R M ............................................................................................................................................................................................................................................................... cgcatcaagaatagttttaacttttcagaaagcggatgaaatccttgcaatttctagctaaataaggtataatgataacaataatttgtcgtgtgctttatttgaaatattgtccaaatagaagcttacagcagttaaatcaaacttgaataagtcagatttagctgctctttttgtgcctatttttaggaaaaatggattatgtaaccataatttaatttttctgaaaattgaacaaaagggactgattgtggctgttttgcagcattgtaaatgacagaggattttcctctgaaaacatttcacagaactcgccctcaaagcgttgagaaaaagatacgtcttttctcactttatcaagggcttagtatcttatcataaaggagtnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: + Score: 88 Start: 44 End: 73 ...........................................CTTGCAATTTCTAGCTAAATAAGGTATAAT....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ cgcatcaagaatagttttaacttttcagaaagcggatgaaatccttgcaatttctagctaaataaggtataatgataacaataatttgtcgtgtgctttatttgaaatattgtccaaatagaagcttacagcagttaaatcaaacttgaataagtcagatttagctgctctttttgtgcctatttttaggaaaaatggattatgtaaccataatttaatttttctgaaaattgaacaaaagggactgattgtggctgttttgcagcattgtaaatgacagaggattttcctctgaaaacatttcacagaactcgccctcaaagcgttgagaaaaagatacgtcttttctcactttatcaagggcttagtatcttatcataaaggagtnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 83 HP_score: -6.7 Tail_Score: -4.92363 Start: 129 End: 170 Full_Region: CCAAATAGAAGCTTA CAGCAGTTAAATCAAACTT GAAT AAGTCAGATTTAGCTGCTC TTTTTGTGCCTATTT ................................................................................................................................CAGCAGTTAAATCAAACTTGAATAAGTCAGATTTAGCTGCTC...................................................................................................................................................................................................................................................................................................................................................................................................................... TransTerm Strand: + Conf: 85 HP_score: -9.3 Tail_Score: -4.06785 Start: 131 End: 168 Full_Region: AAATAGAAGCTTACA GCAGTTAAATCAAACTT GAAT AAGTCAGATTTAGCTGC TCTTTTTGTGCCTAT ..................................................................................................................................GCAGTTAAATCAAACTTGAATAAGTCAGATTTAGCTGC........................................................................................................................................................................................................................................................................................................................................................................................................................ TransTerm Strand: - Conf: 81 HP_score: -10.9 Tail_Score: -2.93089 Start: 278 End: 294 Full_Region: tctgtgaaatgtttt cagagga aaa tcctctg tcatttacaatgctg .....................................................................................................................................................................................................................................................................................cagaggaaaatcctctg.......................................................................................................................................................................................................................................................................................... TransTerm Strand: + Conf: 59 HP_score: -5.7 Tail_Score: -3.59627 Start: 445 End: 467 Full_Region: ACCCGTCGTAGTTTT TCAAGAATT AAGGA AGTTCTTGA TTTACCAAATTTGAT ............................................................................................................................................................................................................................................................................................................................................................................................................................................................TCAAGAATTAAGGAAGTTCTTGA............................................................................................................. TransTerm Strand: + Conf: 43 HP_score: -3.4 Tail_Score: -2.63381 Start: 541 End: 553 Full_Region: CTGAAGGAAGTCTTT GAAG ATGTA CTTC CTATTTCAAACTTTA ............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAAGATGTACTTC....................... Find igs database================================================ Query_seq: SSA_0175:SSA_0176|SSA_0175:SSA_0176:Penicillin-binding protein 1B, putative:DNA-directed RNA polymerase I, beta chain (140 kDa subunit), putative:->->:174545..175120 576 cgcatcaagaatagttttaacttttcagaaagcggatgaaatccttgcaatttctagctaaataaggtataatgataacaataatttgtcgtgtgctttatttgaaatattgtccaaatagaagcttacagcagttaaatcaaacttgaataagtcagatttagctgctctttttgtgcctatttttaggaaaaatggattatgtaaccataatttaatttttctgaaaattgaacaaaagggactgattgtggctgttttgcagcattgtaaatgacagaggattttcctctgaaaacatttcacagaactcgccctcaaagcgttgagaaaaagatacgtcttttctcactttatcaagggcttagtatcttatcataaaggagtnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn Intra-Species Hit: Count: 1 Min: 1 Max: 387 Len: 387 Subject: NC_009009_SSA_0175_SSA_0176|Penicillin-binding protein 1B, putative:DNA-directed RNA polymerase I, beta chain (140 kDa subunit), putative|POSITIVE:POSITIVE|[174545,175120]|576 HSP 1 e-value: 0.0 bit: 767.0 Len: 387 Query Start:1 Query End:387 Subject Strand: POSITIVE Subject Start: 1 Subject End: 387 cgcatcaagaatagttttaacttttcagaaagcggatgaaatccttgcaatttctagctaaataaggtataatgataacaataatttgtcgtgtgctttatttgaaatattgtccaaatagaagcttacagcagttaaatcaaacttgaataagtcagatttagctgctctttttgtgcctatttttaggaaaaatggattatgtaaccataatttaatttttctgaaaattgaacaaaagggactgattgtggctgttttgcagcattgtaaatgacagaggattttcctctgaaaacatttcacagaactcgccctcaaagcgttgagaaaaagatacgtcttttctcactttatcaagggcttagtatcttatcataaaggagt............................................................................................................................................................................................. cgcatcaagaatagttttaacttttcagaaagcggatgaaatccttgcaatttctagctaaataaggtataatgataacaataatttgtcgtgtgctttatttgaaatattgtccaaatagaagcttacagcagttaaatcaaacttgaataagtcagatttagctgctctttttgtgcctatttttaggaaaaatggattatgtaaccataatttaatttttctgaaaattgaacaaaagggactgattgtggctgttttgcagcattgtaaatgacagaggattttcctctgaaaacatttcacagaactcgccctcaaagcgttgagaaaaagatacgtcttttctcactttatcaagggcttagtatcttatcataaaggagt............................................................................................................................................................................................. Inter-species Hit: Count: 1 Min: 84 Max: 195 Len: 112 Subject: NC_004350_SMU.1990_SMU.1991|DNA-directed RNA polymerase beta subunit:putative membrane carboxypeptidase, penicillin-binding protein 1b|NEGATIVE:NEGATIVE|[1864236,1864495]|260 HSP 1 e-value: 4.0E-19 bit: 97.6 Len: 112 Query Start:84 Query End:195 Subject Strand: NEGATIVE Subject Start: 107 Subject End: 218 ...................................................................................atttgtcgtgtgctttatttgaaatattgtccaaatagaagcttacagcagttaaatcaaacttgaat-aagtcagatttagctgctctttttgtgcctatttttaggaaaaa............................................................................................................................................................................................................................................................................................................................................................................................. ...................................................................................atttgtcgtttgctttggttgaaatattgtccaaaca-aagctcacagcagttaaatcaagctttaatgaagtccgatttagctgctctttttatgcttaattttagaaaaaa............................................................................................................................................................................................................................................................................................................................................................................................. Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUUGUCGUGUGCUUUAUUUGAAAUAUUGUCCAAAUAGAAGCUUACAGCAGUUAAAUCAAACUUGAAUAAGUCAGAUUUAGCUGCUCUUUUUGUGCCUAUUUUUAGGAAAAA .......(((.((((((((((..........))))).))))).))).(((((((((((..((((....))))..)))))))))))..........((((....))))..... (-29.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUUCCUAAAAAUAGGCACAAAAAGAGCAGCUAAAUCUGACUUAUUCAAGUUUGAUUUAACUGCUGUAAGCUUCUAUUUGGACAAUAUUUCAAAUAAAGCACACGACAAAU .....((((....)))).......(.(((((.((((((.(((((....))))).)))))).))))).)..((((.((((((((......))))))))))))........... (-27.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 274 92 54 84 42 NC_009009:SSA_2017|5end_Hypothetical_protein_(possibly_membrane-associated)_2017331..2017561_NEGATIVE 265 50 2 139 84 NC_009009:SSA_0631|5end_Tryptophan_synthase_beta_chain,_putative_619872..620102_POSITIVE 264 97 58 44 3 NC_009009:SSA_0489|5end_Adenosylcobinamide_kinase_/_adenosylcobinamide_phosphate_guanyltransferase,_putative_489655..489885_POSITIVE 259 104 64 230 182 NC_009009:SSA_1147|5end_Beta-glucosides_PTS,_EIIB,_putative_1176782..1177012_POSITIVE 257 99 62 48 8 NC_009009:SSA_0940|5end_NOL1/NOP2/sun_family_protein,_putative_947626..947856_POSITIVE 256 109 69 51 7 NC_009009:SSA_0593|5end_Rhodanese-like_sulfurtransferase,_putative_584485..584715_POSITIVE 255 87 43 125 79 NC_009009:SSA_2346|5end_3-oxoacyl-[acyl-carrier-protein]_synthase_III,_putative_2348546..2348776_NEGATIVE 238 104 62 104 46 NC_009009:SSA_1897|5end_Ribosomal_protein_HS6-type_(S12/L30/L7a),_putative_1894450..1894680_NEGATIVE 232 88 41 230 189 NC_009009:SSA_1866|5end_hypothetical_protein_1862182..1862412_NEGATIVE 232 109 70 229 180 NC_009009:SSA_1526|5end_hypothetical_protein_1533722..1533952_POSITIVE 232 108 64 63 19 NC_009009:SSA_0225|5end_10_kDa_chaperonin_218642..218872_POSITIVE 228 90 46 152 105 NC_009009:SSA_1856|5end_hypothetical_protein_1852208..1852438_NEGATIVE 228 109 69 52 7 NC_009009:SSA_1259|5end_Purine_nucleoside_phosphorylase,_putative_1285722..1285952_NEGATIVE 228 87 42 161 102 NC_009009:SSA_0808|5end_hypothetical_protein_790771..791001_POSITIVE 227 107 71 100 64 NC_009009:SSA_2212|5end_Possible_polysaccharide_transport_protein,_putative_2213928..2214158_NEGATIVE 225 88 45 188 139 NC_009009:SSA_0184|5end_Competence_protein_ComYA,_putative_188156..188386_POSITIVE 224 108 62 57 13 NC_009009:SSA_0927|5end_Transcriptional_regulator,_TetR/AcrR_family,_putative_936049..936279_POSITIVE 221 85 45 199 144 NC_009009:SSA_0945|5end_Phosphate_import_ATP-binding_protein_pstB_1,_putative_952605..952835_POSITIVE 221 85 41 71 31 NC_009009:SSA_0085|5end_V-type_sodium_ATPase,_subunit_I,_putative_85750..85980_POSITIVE 220 99 73 154 126 NC_009009:SSA_0944|5end_Phosphate_import_ATP-binding_protein_pstB_2,_putative_951741..951971_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 280 88 41 115 55 NC_009009:SSA_1126|3end_Thiamine_biosynthesis_lipoprotein,_putative_1150587..1150737_NEGATIVE 267 108 71 73 29 NC_009009:SSA_2239|3end_Conserved_uncharacterized_cytosolic_protein_2236922..2237072_NEGATIVE 264 97 58 51 10 NC_009009:SSA_0488|3end_Glutamate-1-semialdehyde_2,1-aminotransferase,_putative_489742..489892_POSITIVE 257 99 62 47 7 NC_009009:SSA_0939|3end_Inositol_monophosphatase_(Mg++_dependent),_putative_947705..947855_POSITIVE 245 101 70 48 12 NC_009009:SSA_1676|3end_Transcriptional_regulator,_LytTr_family,_putative_1670858..1671008_NEGATIVE 243 110 72 51 1 NC_009009:SSA_2005|3end_Chaperone_protein_dnaJ,_putative_2005251..2005401_NEGATIVE 239 75 34 67 22 NC_009009:SSA_0907|3end_Fibronectin-binding_protein_A,_putative_917568..917718_NEGATIVE 238 104 62 111 53 NC_009009:SSA_1899|3end_hypothetical_protein_1894443..1894593_NEGATIVE 237 76 38 57 12 NC_009009:SSA_0422|3end_Phosphoglycerate_mutase_family_protein,_putative_420839..420989_POSITIVE 234 49 2 57 5 NC_009009:SSA_2080|3end_hypothetical_protein_2084598..2084748_NEGATIVE 232 88 41 59 18 NC_009009:SSA_1867|3end_ABC-type_polar_amino_acid_transport_system,_ATPase_component,_putative_1862353..1862503_NEGATIVE 232 109 70 110 61 NC_009009:SSA_1525|3end_Lyzozyme_M1_(1,4-beta-N-acetylmuramidase),_putative_1533683..1533833_POSITIVE 228 87 42 149 90 NC_009009:SSA_0807|3end_GTP-binding_protein,_putative_790839..790989_POSITIVE 225 88 45 58 9 NC_009009:SSA_0183|3end_hypothetical_protein_188106..188256_POSITIVE 223 85 46 147 111 NC_009009:SSA_1418|3end_Conserved_uncharacterized_protein_1428139..1428289_NEGATIVE 221 85 45 138 83 NC_009009:SSA_0944|3end_Phosphate_import_ATP-binding_protein_pstB_2,_putative_952624..952774_POSITIVE 221 85 41 81 41 NC_009009:SSA_0083|3end_hypothetical_protein_85840..85990_POSITIVE 220 99 73 143 115 NC_009009:SSA_0943|3end_ABC_transporter_membrane-spanning_permease-phosphate_transport,_putative_951810..951960_POSITIVE 218 97 56 84 46 NC_009009:SSA_0368|3end_hypothetical_protein_359722..359872_POSITIVE 216 108 70 122 85 NC_009009:SSA_2243|3end_Conserved_uncharacterized_protein_2238769..2238919_NEGATIVE