Origin IGS: aatattggtacgagagttaggaatgatagcttttcaatttaaggaggaaaatgagaatgacaccattaaaatggtttgctggaggaagcgaaagacgttgtgaagcgatgactatcatagatcacctactggaaggtataagcaatacgcctcaacttgctcctttgaaaaatctgttagtgagttataaaagacgattagaggacgatgggacctctactccatttattttgagtcaaatgaatgttgacatctcacgtgtgttgattgacaataagctgatgttatcagaaagtcaatccgagcagatcaaaaaattgagagaattatctgctattcgctatggttactgatgaagtgcagggataagcacctttctacaatttccagtcaaataaattgcattcgttttctcaagcaggtatactagtatagttag .........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 ctaactatactagtatacctgcttgagaaaacgaatgcaatttatttgactggaaattgtagaaaggtgcttatccctgcacttcatcagtaaccatagcgaatagcagataattctctcaattttttgatctgctcggattgactttctgataacatcagcttattgtcaatcaacacacgtgagatgtcaacattcatttgactcaaaataaatggagtagaggtcccatcgtcctctaatcgtcttttataactcactaacagatttttcaaaggagcaagttgaggcgtattgcttataccttccagtaggtgatctatgatagtcatcgcttcacaacgtctttcgcttcctccagcaaaccattttaatggtgtcattctcattttcctccttaaattgaaaagctatcattcctaactctcgtaccaatatt Mask Tandem Repeat Region ================================================ aatattggtacgagagttaggaatgatagcttttcaatttaaggaggaaaatgagaatgacaccattaaaatggtttgctggaggaagcgaaagacgttgtgaagcgatgactatcatagatcacctactggaaggtataagcaatacgcctcaacttgctcctttgaaaaatctgttagtgagttataaaagacgattagaggacgatgggacctctactccatttattttgagtcaaatgaatgttgacatctcacgtgtgttgattgacaataagctgatgttatcagaaagtcaatccgagcagatcaaaaaattgagagaattatctgctattcgctatggttactgatgaagtgcagggataagcacctttctacaatttccagtcaaataaattgcattcgttttctcaagcaggtatactagtatagttag Find is-nt database================================================ Query_seq: SMT_120:SMT_121|SMT_120:SMT_121:hypothetical protein:hypothetical protein:->->:73004..73442 439 aatattggtacgagagttaggaatgatagcttttcaatttaaggaggaaaatgagaatgacaccattaaaatggtttgctggaggaagcgaaagacgttgtgaagcgatgactatcatagatcacctactggaaggtataagcaatacgcctcaacttgctcctttgaaaaatctgttagtgagttataaaagacgattagaggacgatgggacctctactccatttattttgagtcaaatgaatgttgacatctcacgtgtgttgattgacaataagctgatgttatcagaaagtcaatccgagcagatcaaaaaattgagagaattatctgctattcgctatggttactgatgaagtgcagggataagcacctttctacaatttccagtcaaataaattgcattcgttttctcaagcaggtatactagtatagttag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_120:SMT_121|SMT_120:SMT_121:hypothetical protein:hypothetical protein:->->:73004..73442 439 aatattggtacgagagttaggaatgatagcttttcaatttaaggaggaaaatgagaatgacaccattaaaatggtttgctggaggaagcgaaagacgttgtgaagcgatgactatcatagatcacctactggaaggtataagcaatacgcctcaacttgctcctttgaaaaatctgttagtgagttataaaagacgattagaggacgatgggacctctactccatttattttgagtcaaatgaatgttgacatctcacgtgtgttgattgacaataagctgatgttatcagaaagtcaatccgagcagatcaaaaaattgagagaattatctgctattcgctatggttactgatgaagtgcagggataagcacctttctacaatttccagtcaaataaattgcattcgttttctcaagcaggtatactagtatagttag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_120:SMT_121|SMT_120:SMT_121:hypothetical protein:hypothetical protein:->->:73004..73442 439 aatattggtacgagagttaggaatgatagcttttcaatttaaggaggaaaatgagaatgacaccattaaaatggtttgctggaggaagcgaaagacgttgtgaagcgatgactatcatagatcacctactggaaggtataagcaatacgcctcaacttgctcctttgaaaaatctgttagtgagttataaaagacgattagaggacgatgggacctctactccatttattttgagtcaaatgaatgttgacatctcacgtgtgttgattgacaataagctgatgttatcagaaagtcaatccgagcagatcaaaaaattgagagaattatctgctattcgctatggttactgatgaagtgcagggataagcacctttctacaatttccagtcaaataaattgcattcgttttctcaagcaggtatactagtatagttag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 11 Min: 30 Max: 350 Len: 321 Subject: UniRef90_Q03J41 Cluster: Xre-like reg; n=2; Streptococcus thermophilus|Rep: Xre-like reg - Streptococcus thermophilus (strain ATCC BAA-491 / LMD-9) HSP 1 e-value: 2.0E-18 bit: 93.6 Len: 294 Query Start:57 Query End:350 Subject Strand: null Subject Start: 1 Subject End: 98 ........................................................ M T P L K W F A G G S E R R C E A M T I I D H L L E G I S N T P Q L A P L K N L L V S Y K R R L E D D G T S T P F I L S Q M N V D I S R V L I D N K L M L S E S Q S E Q I K K L R E L S A I R Y G Y ......................................................................................... ........................................................ M K G L K W F A G G K E R Q E Q A V A I I D E V I E T I G D K P D Y A D L K Q V L H S Y R T E L A D S R S A T P Y I L S R M S L E I S K V V R K D Q L T L S P C I E E R M A E L R K L L A I R Y G Y ......................................................................................... Subject: UniRef90_Q6TGQ5 Cluster: Enterocin CRL 35 immunity protein; n=2; Enterococcus mundtii|Rep: Enterocin CRL 35 immunity protein - Enterococcus mundtii HSP 1 e-value: 2.0E-15 bit: 83.6 Len: 294 Query Start:57 Query End:350 Subject Strand: null Subject Start: 1 Subject End: 98 ........................................................ M T P L K W F A G G S E R R C E A M T I I D H L L E G I S N T P Q L A P L K N L L V S Y K R R L E D D G T S T P F I L S Q M N V D I S R V L I D N K L M L S E S Q S E Q I K K L R E L S A I R Y G Y ......................................................................................... ........................................................ M S N L K W F S G G D D R R K K A E V I I T E L L D D L E I D L G N E S L R K V L G S Y L E K L K N E G T S V P L V L S R M N I E I S N A I K K D G V S L N E N Q S K K L K E L I S I S N I R Y G Y ......................................................................................... Subject: UniRef90_Q93QD2 Cluster: Putative piscicolin 126 immunity protein PisI; n=2; Carnobacterium maltaromaticum|Rep: Putative piscicolin 126 immunity protein PisI - Carnobacterium piscicola HSP 1 e-value: 6.0E-15 bit: 82.0 Len: 294 Query Start:57 Query End:350 Subject Strand: null Subject Start: 1 Subject End: 98 ........................................................ M T P L K W F A G G S E R R C E A M T I I D H L L E G I S N T P Q L A P L K N L L V S Y K R R L E D D G T S T P F I L S Q M N V D I S R V L I D N K L M L S E S Q S E Q I K K L R E L S A I R Y G Y ......................................................................................... ........................................................ M G K L K W F S G G K E R S N Q A E N I I T D L L D D L K T D L D N E S L K K V L E N Y L E E L K Q K G A S V P L I L S R M N L D I S K A I R N D G V T L S D Y Q S K K L K E L T S I S N I R Y G Y ......................................................................................... Subject: UniRef90_Q035K4 Cluster: Xre-like reg; n=1; Lactobacillus casei ATCC 334|Rep: Xre-like reg - Lactobacillus casei (strain ATCC 334) HSP 1 e-value: 2.0E-14 bit: 80.1 Len: 294 Query Start:57 Query End:350 Subject Strand: null Subject Start: 1 Subject End: 98 ........................................................ M T P L K W F A G G S E R R C E A M T I I D H L L E G I S N T P Q L A P L K N L L V S Y K R R L E D D G T S T P F I L S Q M N V D I S R V L I D N K L M L S E S Q S E Q I K K L R E L S A I R Y G Y ......................................................................................... ........................................................ M S I L K W Y A G G Q D R A E Q A I S I L T E L V A D L N H S Q Q K M P L Q Q V L S D Y I E A F R K K D S A V P F I L S R M N L D I S S A L K N N Q I V L T V S E S D K L D A L M A L A N I R Y G Y ......................................................................................... Subject: UniRef90_Q6KCG1 Cluster: Putative bacteriocin immunity protein; n=3; Lactobacillus sakei|Rep: Putative bacteriocin immunity protein - Lactobacillus sakei HSP 1 e-value: 2.0E-13 bit: 77.0 Len: 285 Query Start:66 Query End:350 Subject Strand: null Subject Start: 1 Subject End: 95 ................................................................. L K W F A G G S E R R C E A M T I I D H L L E G I S N T P Q L A P L K N L L V S Y K R R L E D D G T S T P F I L S Q M N V D I S R V L I D N K L M L S E S Q S E Q I K K L R E L S A I R Y G Y ......................................................................................... ................................................................. M K W Y S G G S E R S E Q A I I T I K A L L T D L Q D A S K G P A L Q T V L T T Y Q T E L E S K K A S V P L I L S R L N L A I A N A L Q E D G L T L S A A Q S E Q V K A L T A L S N I R Y G Y ......................................................................................... Subject: UniRef90_Q57161 Cluster: SpiA; n=2; Lactobacillus|Rep: SpiA - Lactobacillus sakei HSP 1 e-value: 5.0E-13 bit: 75.5 Len: 294 Query Start:57 Query End:350 Subject Strand: null Subject Start: 1 Subject End: 98 ........................................................ M T P L K W F A G G S E R R C E A M T I I D H L L E G I S N T P Q L A P L K N L L V S Y K R R L E D D G T S T P F I L S Q M N V D I S R V L I D N K L M L S E S Q S E Q I K K L R E L S A I R Y G Y ......................................................................................... ........................................................ M K I L K W Y S G G K D R G E R A N D I I G Q L L L D L N H D P K N E H L E A I L I N Y Q N E I K R K E S S V P F I L S R M N I S I A N T I R R D R L I L T D F Q E D K L K L L T A L S N I R Y G Y ......................................................................................... Subject: UniRef90_Q9AGM3 Cluster: Immunity protein; n=1; Listeria innocua|Rep: Immunity protein - Listeria innocua HSP 1 e-value: 5.0E-13 bit: 75.5 Len: 285 Query Start:66 Query End:350 Subject Strand: null Subject Start: 33 Subject End: 126 ................................................................. L K W F A G G S E R R C E A M T I I D H L L E G I S N T P Q L A P L K N L L V S Y K R R L E D D G T S T P F I L S Q M N V D I S R V L I D N K L M L S E S Q S E Q I K K L R E L S A I R Y G Y ......................................................................................... ................................................................. V K W Y S G G D E R G E K A I G L I L E L L K E L N T N S D S Q L L Q E V L N K Y K E E L E N K G S S V P L V L S R M N L A I S H A I R K N G V I L S D T Q S - T I K E L T S L S S I R Y G Y ......................................................................................... Subject: UniRef90_Q6XVG9 Cluster: SakXIM; n=1; Lactobacillus sakei|Rep: SakXIM - Lactobacillus sakei HSP 1 e-value: 7.0E-13 bit: 75.1 Len: 294 Query Start:57 Query End:350 Subject Strand: null Subject Start: 1 Subject End: 97 ........................................................ M T P L K W F A G G S E R R C E A M T I I D H L L E G I S N T P Q L A P L K N L L V S Y K R R L E D D G T S T P F I L S Q M N V D I S R V L I D N K L M L S E S Q S E Q I K K L R E L S A I R Y G Y ......................................................................................... ........................................................ M S K V K W F S G G V E R G N Q A V Q I I N E L L N D D K I I S D - S P L E I T L K K Y R I E L Q Q K E S S I P F I L S R M N L D I S K A L R S D P N Q L S K E Q T N K L K N L T S L S N I R Y G Y ......................................................................................... Subject: UniRef90_A0PCC2 Cluster: Putative immunity protein; n=1; Streptococcus bovis|Rep: Putative immunity protein - Streptococcus bovis HSP 1 e-value: 9.0E-13 bit: 74.7 Len: 285 Query Start:57 Query End:341 Subject Strand: null Subject Start: 1 Subject End: 95 ........................................................ M T P L K W F A G G S E R R C E A M T I I D H L L E G I S N T P Q L A P L K N L L V S Y K R R L E D D G T S T P F I L S Q M N V D I S R V L I D N K L M L S E S Q S E Q I K K L R E L S A I R .................................................................................................. ........................................................ M A K L K W F S G G K E R R E E A I R I I E E L L L D L Q T N D S A A S V K K T L T H Y L N E F K T N G T S F P F L M N R M S L E L T D T V L H S N V H F T P E Q S E K L K E L R K L M E I R .................................................................................................. Subject: UniRef90_P38583 Cluster: Hypothetical 9.1 kDa protein in BM1 immunity protein 3'region; n=1; Carnobacterium maltaromaticum|Rep: Hypothetical 9.1 kDa protein in BM1 immunity protein 3'region - Carnobacterium piscicola HSP 1 e-value: 1.0E-6 bit: 54.7 Len: 243 Query Start:108 Query End:350 Subject Strand: null Subject Start: 1 Subject End: 81 ........................................................................................................... M T I I D H L L E G I S N T P Q L A P L K N L L V S Y K R R L E D D G T S T P F I L S Q M N V D I S R V L I D N K L M L S E S Q S E Q I K K L R E L S A I R Y G Y ......................................................................................... ........................................................................................................... M A T I T D L L N D L K I D L G N E S L Q N V L E N Y L E E L E Q A N A A V P I I L G R M N I D I S T A I R K D G V T L S E I Q S K K L K E L I S I S Y I K Y G Y ......................................................................................... Subject: UniRef90_Q88Y45 Cluster: Transcription regulator; n=1; Lactobacillus plantarum|Rep: Transcription regulator - Lactobacillus plantarum HSP 1 e-value: 5.0E-6 bit: 52.4 Len: 315 Query Start:30 Query End:344 Subject Strand: null Subject Start: 79 Subject End: 182 ............................. L F N L R R K M R M T P L K W F A G G S E R R C E A M T I I D H L L E G I S N T P Q L A P L K N L L V S Y K R R L E D D G T S T P F - I L S Q M N V D I S R V L I D N K L M L S E S Q S E Q I K K L R E L S A I R Y ............................................................................................... ............................. L L R K R S R T D M T - V K W Y S G G Q D R A R V A V G I I S D L V A N L - N T T N E Q P L R Q L L A T Y Y Q E L L E Q R T G S V L G V F D R M N L D I S K C L R Q Q Q I K L S P E N E Q L M Q Q L V G L N M I Y Y ............................................................................................... aatattggtacgagagttaggaatgatagnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntgatgaagtgcagggataagcacctttctacaatttccagtcaaataaattgcattcgttttctcaagcaggtatactagtatagttag Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 2 End: 100 . M L V R E L G M I A F Q F K E E N E N D T I K M V C W R K R K T L ................................................................................................................................................................................................................................................................................................................................................... Protein_Len: 60 Strand: + Start: 51 End: 350 .................................................. M R M T P L K W F A G G S E R R C E A M T I I D H L L E G I S N T P Q L A P L K N L L V S Y K R R L E D D G T S T P F I ......................................................................................... Protein_Len: 47 Strand: + Start: 287 End: 427 .............................................................................................................................................................................................................................................................................................. M R K S I R A D Q K I E R I I C Y S L W L L M K C R D K H L S T I S S Q I N C I R F L K Q V Y ............ Protein_Len: 33 Strand: - Start: 20 End: 118 ................... S H Y S K L K L L F I L I V G N F H N A P P L S L R Q S A I V I M ................................................................................................................................................................................................................................................................................................................................. aatattggtacgagagttaggaatgatagnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntgatgaagtgcagggataagcacctttctacaatttccagtcaaataaattgcattcgttttctcaagcaggtatactagtatagttag 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: 82 Start: 164 End: 193 ...................................................................................................................................................................TTTGAAAAATCTGTTAGTGAGTTATAAAAG...................................................................................................................................................................................................................................................... PromScan Matrix: RpoD-17 Strand: + Score: 82 Start: 246 End: 275 .....................................................................................................................................................................................................................................................GTTGACATCTCACGTGTGTTGATTGACAAT.................................................................................................................................................................... PromScan Matrix: RpoD-17 Strand: - Score: 82 Start: 271 End: 300 ..............................................................................................................................................................................................................................................................................ATTGACTTTCTGATAACATCAGCTTATTGT........................................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aatattggtacgagagttaggaatgatagnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntgatgaagtgcagggataagcacctttctacaatttccagtcaaataaattgcattcgttttctcaagcaggtatactagtatagttag Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 49 HP_score: -5.1 Tail_Score: -2.6365 Start: 196 End: 222 Full_Region: TGAGTTATAAAAGAC GATTAGAGGAC GATGG GACCTCTACTC CATTTATTTTGAGTC ...................................................................................................................................................................................................GATTAGAGGACGATGGGACCTCTACTC......................................................................................................................................................................................................................... TransTerm Strand: - Conf: 50 HP_score: -5.1 Tail_Score: -2.88788 Start: 196 End: 222 Full_Region: gactcaaaataaatg gagtagaggtc ccatc gtcctctaatc gtcttttataactca ...................................................................................................................................................................................................gagtagaggtcccatcgtcctctaatc......................................................................................................................................................................................................................... Find igs database================================================ Query_seq: SMT_120:SMT_121|SMT_120:SMT_121:hypothetical protein:hypothetical protein:->->:73004..73442 439 aatattggtacgagagttaggaatgatagnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntgatgaagtgcagggataagcacctttctacaatttccagtcaaataaattgcattcgttttctcaagcaggtatactagtatagttag Intra-Species Hit: Count: 1 Min: 1 Max: 439 Len: 439 Subject: smit_SMT_120_SMT_121|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[73004,73442]|439 HSP 1 e-value: 4.0E-43 bit: 176.0 Len: 89 Query Start:351 Query End:439 Subject Strand: POSITIVE Subject Start: 351 Subject End: 439 ..............................................................................................................................................................................................................................................................................................................................................................tgatgaagtgcagggataagcacctttctacaatttccagtcaaataaattgcattcgttttctcaagcaggtatactagtatagttag ..............................................................................................................................................................................................................................................................................................................................................................tgatgaagtgcagggataagcacctttctacaatttccagtcaaataaattgcattcgttttctcaagcaggtatactagtatagttag HSP 2 e-value: 1.0E-6 bit: 56.0 Len: 28 Query Start:1 Query End:28 Subject Strand: POSITIVE Subject Start: 1 Subject End: 28 aatattggtacgagagttaggaatgata........................................................................................................................................................................................................................................................................................................................................................................................................................... aatattggtacgagagttaggaatgata........................................................................................................................................................................................................................................................................................................................................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUAUUGGUACGAGAGUUAGGAAUGAUAGCUUUUCAAUUUAAGGAGGAAAAUGAGAAUGACACCAUUAAAAUGGUUUGCUGGAGGAAGCGAAAGACGUUGUGAAGCGAUGACUAUCAUAGAUCACCUACUGGAAGGUAUAAGCAAUACGCCUCAACUUGCUCCUUUGAAAAAUCUGUUAGUGAGUUAUAAAAGACGAUUAGAGGACGAUGGGACCUCUACUCCAUUUAUUUUGAGUCAAAUGAAUGUUGACAUCUCACGUGUGUUGAUUGACAAUAAGCUGAUGUUAUCAGAAAGUCAAUCCGAGCAGAUCAAAAAAUUGAGAGAAUUAUCUGCUAUUCGCUAUGGUUACUGAUGAAGUGCAGGGAUAAGCACCUUUCUACAAUUUCCAGUCAAAUAAAUUGCAUUCGUUUUCUCAAGCAGGUAUACUAGUAUAGUUAG .(((((((((.((((((((.......))))))))...........................(((((....)))))(((((.(((((((((((...((((....)))).(((((......((((........((.((..((.....))..))))....(((((.................(((((...........((.((((((.(.....).)))))).))............(((((.......)))))..))))).......(((((((......(((((...)))))...))))))).)))))))))...(((((((((((.(((((.(((((.....)))))....))))).((((........)))).))))).))))))..)))))...........))))))))))).)))))...)))))))))...... (-102.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUAACUAUACUAGUAUACCUGCUUGAGAAAACGAAUGCAAUUUAUUUGACUGGAAAUUGUAGAAAGGUGCUUAUCCCUGCACUUCAUCAGUAACCAUAGCGAAUAGCAGAUAAUUCUCUCAAUUUUUUGAUCUGCUCGGAUUGACUUUCUGAUAACAUCAGCUUAUUGUCAAUCAACACACGUGAGAUGUCAACAUUCAUUUGACUCAAAAUAAAUGGAGUAGAGGUCCCAUCGUCCUCUAAUCGUCUUUUAUAACUCACUAACAGAUUUUUCAAAGGAGCAAGUUGAGGCGUAUUGCUUAUACCUUCCAGUAGGUGAUCUAUGAUAGUCAUCGCUUCACAACGUCUUUCGCUUCCUCCAGCAAACCAUUUUAAUGGUGUCAUUCUCAUUUUCCUCCUUAAAUUGAAAAGCUAUCAUUCCUAACUCUCGUACCAAUAUU ...........(((((...(((..(((.....((((((((((((...((..(((((.((.((((.(((((........))))).........(((((...(((.((((((........((((....))))))))))..(((((((...(((((...)))))......))))))).......(((((..(((((.......))))).....(((((.((..((((((.(.....).))))))....)).)))))..)))))..........)))...((((.((((.(((((((........(((((......))))).....(((.(((....))))))..)))))))..)))).))))..............)))))....)))))).)))))))..))))))).........)))))....)))..)))...))))) (-93.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 348 198 156 160 116 smit:SMT_1189|5end_phosphoribosylaminoimidazole_carboxylase_ATPase_subunit_1147754..1147984_NEGATIVE 337 288 245 91 55 smit:SMT_1131|5end_threonine_synthase_1066755..1066985_NEGATIVE 302 121 82 219 170 smit:SMT_2109|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1999099..1999329_NEGATIVE 299 117 71 144 91 smit:SMT_1444|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1427979..1428209_NEGATIVE 299 117 71 196 143 smit:SMT_1443|5end_23S_rRNA_m(5)U_1939_methyltransferase_1427927..1428157_NEGATIVE 299 380 331 108 52 smit:SMT_387|5end_hypothetical_protein_predicted_by_Glimmer/Critica_320937..321167_POSITIVE 295 238 195 211 175 smit:SMT_1475|5end_K02004_1455873..1456103_POSITIVE 292 113 73 188 156 smit:SMT_1831|5end_galactose-6-phosphate_isomerase_1799912..1800142_POSITIVE 292 110 62 151 105 smit:SMT_342|5end_chaperone_protein_DnaJ_281800..282030_POSITIVE 287 160 114 70 21 smit:SMT_245|5end_hypothetical_protein_predicted_by_Glimmer/Critica_181964..182194_NEGATIVE 287 160 114 177 128 smit:SMT_244|5end_PTS_system,_mannose-specific_IIAB_component_181857..182087_NEGATIVE 281 389 345 226 186 smit:SMT_242|5end_PTS_system,_mannose-specific_IID_component_180074..180304_NEGATIVE 276 390 341 60 4 smit:SMT_437|5end_transcriptional_regulator,_TetR_family_378402..378632_POSITIVE 276 110 62 202 131 smit:SMT_335|5end_glutamine_synthetase_273753..273983_POSITIVE 275 117 77 231 189 smit:SMT_1915|5end_pyridoxine_biosynthesis_protein_1860329..1860559_POSITIVE 274 109 73 102 55 smit:SMT_2171|5end_UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-_diaminopimelate--D-alanyl-D-alanine_ligase_2042271..2042501_POSITIVE 273 107 61 97 53 smit:SMT_929|5end_hypothetical_protein_883342..883572_NEGATIVE 273 107 61 221 177 smit:SMT_928|5end_hypothetical_protein_883218..883448_NEGATIVE 270 119 72 173 112 smit:SMT_1303|5end_tRNA-dihydrouridine_synthase_1265731..1265961_NEGATIVE 268 375 331 72 16 smit:SMT_821|5end_UDP-N-acetylmuramoylalanyl-D-glutamate--2,6-_diaminopimelate_ligase_732775..733005_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 302 377 331 39 1 smit:SMT_369|3end_hypothetical_cytosolic_protein_304487..304637_POSITIVE 299 380 331 93 37 smit:SMT_386|3end_branched-chain_amino_acid_transport_system_II_carrier_protein_321002..321152_POSITIVE 292 113 73 39 7 smit:SMT_1830|3end_galactose-6-phosphate_isomerase_1799843..1799993_POSITIVE 275 117 77 146 104 smit:SMT_1914|3end_K03696_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpC_1860324..1860474_POSITIVE 273 107 61 50 6 smit:SMT_930|3end_ATP-dependent_RNA_helicase_883389..883539_NEGATIVE 266 138 93 134 93 smit:SMT_2006|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1926803..1926953_POSITIVE 265 49 7 48 10 smit:SMT_1533|3end_ribonuclease_HIII_1517294..1517444_POSITIVE 263 111 72 81 37 smit:SMT_1174|3end_acylneuraminate_cytidylyltransferase_1125617..1125767_NEGATIVE 259 117 77 146 109 smit:SMT_2028|3end_leader_peptidase_(prepilin_peptidase)_/_N-methyltransferase_1943367..1943517_NEGATIVE 257 99 51 125 72 smit:SMT_2118|3end_putative_two-component_sensor_histidine_kinase_2004725..2004875_NEGATIVE 257 84 43 140 110 smit:SMT_196|3end_30S_ribosomal_protein_S11_127723..127873_POSITIVE 256 232 192 81 44 smit:SMT_307|3end_K02078_acyl_carrier_protein_249401..249551_POSITIVE 255 137 93 133 93 smit:SMT_2016|3end_tyrosine_recombinase_1933021..1933171_NEGATIVE 255 137 93 143 103 smit:SMT_1985|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1914407..1914557_NEGATIVE 255 137 93 91 51 smit:SMT_1955|3end_carbamoyl-phosphate_synthase_small_chain_1888992..1889142_NEGATIVE 255 186 141 148 94 smit:SMT_1278|3end_30S_ribosomal_protein_S2_1242332..1242482_POSITIVE 252 155 111 83 52 smit:SMT_1273|3end_K02006_cobalt_transport_system_ATP-binding_protein_1237828..1237978_POSITIVE 251 159 127 149 112 smit:SMT_488|3end_dCMP_deaminase_423416..423566_POSITIVE 250 379 337 82 41 smit:SMT_139|3end_hypothetical_protein_91058..91208_POSITIVE 249 113 71 151 115 smit:SMT_1919|3end_aspartate_kinase_1862769..1862919_POSITIVE