Origin IGS: attcgcaaatagttttgtgcaggtatccctgcggtttgtaattatttgcgagcaaagaaaattggtgtttattcagtgtttcagggcactaagaagaaacttgagaataactgattatttgttctctttatccttctcctagcaaaaaacttctgtaaaaaccaaataaatcttacctttactatcaactgcaagatattgcactacaaaatggatgagaaaattgaaagtttggtcatactctctaaagattactaaaatatggaatggattaataatttaattggttttggattgggtgtattggcatcatggattgtttggtttgtagtaagtaggtgtattgttcctcgaattgaattctccaaatatcttagcagaacacaacctaactatcaagacaaccctttgtacagatttcgcctacgcaacaaaggtcgaagacaggttatagacattgacattttttttcgcataagaatcaaaggaataaaccccaggtttccagacacatgggaaattattcgaattcccctgggaaacccttacaatcatatacctttccttcctgctccaagcaaatctaaatatgctagtcagactatatccattgaagctggttcttgtgaaaaattttccagatcattcatgccagaggatattagaaaaaagtaccacaaaaaaactcttactctagatgatgtattctctatcacagaagaagtagaaggagaagtgattgcttttggatatgatgaatttagtggagcgagaaagatgttccgttctaagaaatacaaaaagggagatattagagatggaagatttaaacacaactgcatgagcattgaatctgcaagcgaatgatctattttgctggattggcaacttagatataactctt .........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.........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 aagagttatatctaagttgccaatccagcaaaatagatcattcgcttgcagattcaatgctcatgcagttgtgtttaaatcttccatctctaatatctccctttttgtatttcttagaacggaacatctttctcgctccactaaattcatcatatccaaaagcaatcacttctccttctacttcttctgtgatagagaatacatcatctagagtaagagtttttttgtggtacttttttctaatatcctctggcatgaatgatctggaaaatttttcacaagaaccagcttcaatggatatagtctgactagcatatttagatttgcttggagcaggaaggaaaggtatatgattgtaagggtttcccaggggaattcgaataatttcccatgtgtctggaaacctggggtttattcctttgattcttatgcgaaaaaaaatgtcaatgtctataacctgtcttcgacctttgttgcgtaggcgaaatctgtacaaagggttgtcttgatagttaggttgtgttctgctaagatatttggagaattcaattcgaggaacaatacacctacttactacaaaccaaacaatccatgatgccaatacacccaatccaaaaccaattaaattattaatccattccatattttagtaatctttagagagtatgaccaaactttcaattttctcatccattttgtagtgcaatatcttgcagttgatagtaaaggtaagatttatttggtttttacagaagttttttgctaggagaaggataaagagaacaaataatcagttattctcaagtttcttcttagtgccctgaaacactgaataaacaccaattttctttgctcgcaaataattacaaaccgcagggatacctgcacaaaactatttgcgaat Mask Tandem Repeat Region ================================================ attcgcaaatagttttgtgcaggtatccctgcggtttgtaattatttgcgagcaaagaaaattggtgtttattcagtgtttcagggcactaagaagaaacttgagaataactgattatttgttctctttatccttctcctagcaaaaaacttctgtaaaaaccaaataaatcttacctttactatcaactgcaagatattgcactacaaaatggatgagaaaattgaaagtttggtcatactctctaaagattactaaaatatggaatggattaataatttaattggttttggattgggtgtattggcatcatggattgtttggtttgtagtaagtaggtgtattgttcctcgaattgaattctccaaatatcttagcagaacacaacctaactatcaagacaaccctttgtacagatttcgcctacgcaacaaaggtcgaagacaggttatagacattgacattttttttcgcataagaatcaaaggaataaaccccaggtttccagacacatgggaaattattcgaattcccctgggaaacccttacaatcatatacctttccttcctgctccaagcaaatctaaatatgctagtcagactatatccattgaagctggttcttgtgaaaaattttccagatcattcatgccagaggatattagaaaaaagtaccacaaaaaaactcttactctagatgatgtattctctatcacagaagaagtagaaggagaagtgattgcttttggatatgatgaatttagtggagcgagaaagatgttccgttctaagaaatacaaaaagggagatattagagatggaagatttaaacacaactgcatgagcattgaatctgcaagcgaatgatctattttgctggattggcaacttagatataactctt Find is-nt database================================================ Query_seq: PG0872:PG0873|PG0872:PG0873:mobilizable transposon, xis protein:mobilizable transposon, tnpC protein:<-<-:935296..936199 904 attcgcaaatagttttgtgcaggtatccctgcggtttgtaattatttgcgagcaaagaaaattggtgtttattcagtgtttcagggcactaagaagaaacttgagaataactgattatttgttctctttatccttctcctagcaaaaaacttctgtaaaaaccaaataaatcttacctttactatcaactgcaagatattgcactacaaaatggatgagaaaattgaaagtttggtcatactctctaaagattactaaaatatggaatggattaataatttaattggttttggattgggtgtattggcatcatggattgtttggtttgtagtaagtaggtgtattgttcctcgaattgaattctccaaatatcttagcagaacacaacctaactatcaagacaaccctttgtacagatttcgcctacgcaacaaaggtcgaagacaggttatagacattgacattttttttcgcataagaatcaaaggaataaaccccaggtttccagacacatgggaaattattcgaattcccctgggaaacccttacaatcatatacctttccttcctgctccaagcaaatctaaatatgctagtcagactatatccattgaagctggttcttgtgaaaaattttccagatcattcatgccagaggatattagaaaaaagtaccacaaaaaaactcttactctagatgatgtattctctatcacagaagaagtagaaggagaagtgattgcttttggatatgatgaatttagtggagcgagaaagatgttccgttctaagaaatacaaaaagggagatattagagatggaagatttaaacacaactgcatgagcattgaatctgcaagcgaatgatctattttgctggattggcaacttagatataactctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0872:PG0873|PG0872:PG0873:mobilizable transposon, xis protein:mobilizable transposon, tnpC protein:<-<-:935296..936199 904 attcgcaaatagttttgtgcaggtatccctgcggtttgtaattatttgcgagcaaagaaaattggtgtttattcagtgtttcagggcactaagaagaaacttgagaataactgattatttgttctctttatccttctcctagcaaaaaacttctgtaaaaaccaaataaatcttacctttactatcaactgcaagatattgcactacaaaatggatgagaaaattgaaagtttggtcatactctctaaagattactaaaatatggaatggattaataatttaattggttttggattgggtgtattggcatcatggattgtttggtttgtagtaagtaggtgtattgttcctcgaattgaattctccaaatatcttagcagaacacaacctaactatcaagacaaccctttgtacagatttcgcctacgcaacaaaggtcgaagacaggttatagacattgacattttttttcgcataagaatcaaaggaataaaccccaggtttccagacacatgggaaattattcgaattcccctgggaaacccttacaatcatatacctttccttcctgctccaagcaaatctaaatatgctagtcagactatatccattgaagctggttcttgtgaaaaattttccagatcattcatgccagaggatattagaaaaaagtaccacaaaaaaactcttactctagatgatgtattctctatcacagaagaagtagaaggagaagtgattgcttttggatatgatgaatttagtggagcgagaaagatgttccgttctaagaaatacaaaaagggagatattagagatggaagatttaaacacaactgcatgagcattgaatctgcaagcgaatgatctattttgctggattggcaacttagatataactctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0872:PG0873|PG0872:PG0873:mobilizable transposon, xis protein:mobilizable transposon, tnpC protein:<-<-:935296..936199 904 attcgcaaatagttttgtgcaggtatccctgcggtttgtaattatttgcgagcaaagaaaattggtgtttattcagtgtttcagggcactaagaagaaacttgagaataactgattatttgttctctttatccttctcctagcaaaaaacttctgtaaaaaccaaataaatcttacctttactatcaactgcaagatattgcactacaaaatggatgagaaaattgaaagtttggtcatactctctaaagattactaaaatatggaatggattaataatttaattggttttggattgggtgtattggcatcatggattgtttggtttgtagtaagtaggtgtattgttcctcgaattgaattctccaaatatcttagcagaacacaacctaactatcaagacaaccctttgtacagatttcgcctacgcaacaaaggtcgaagacaggttatagacattgacattttttttcgcataagaatcaaaggaataaaccccaggtttccagacacatgggaaattattcgaattcccctgggaaacccttacaatcatatacctttccttcctgctccaagcaaatctaaatatgctagtcagactatatccattgaagctggttcttgtgaaaaattttccagatcattcatgccagaggatattagaaaaaagtaccacaaaaaaactcttactctagatgatgtattctctatcacagaagaagtagaaggagaagtgattgcttttggatatgatgaatttagtggagcgagaaagatgttccgttctaagaaatacaaaaagggagatattagagatggaagatttaaacacaactgcatgagcattgaatctgcaagcgaatgatctattttgctggattggcaacttagatataactctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 attcgcaaatagttttgtgcaggtatccctgcggtttgtaattatttgcgagcaaagaaaattggtgtttattcagtgtttcagggcactaagaagaaacttgagaataactgattatttgttctctttatccttctcctagcaaaaaacttctgtaaaaaccaaataaatcttacctttactatcaactgcaagatattgcactacaaaatggatgagaaaattgaaagtttggtcatactctctaaagattactaaaatatggaatggattaataatttaattggttttggattgggtgtattggcatcatggattgtttggtttgtagtaagtaggtgtattgttcctcgaattgaattctccaaatatcttagcagaacacaacctaactatcaagacaaccctttgtacagatttcgcctacgcaacaaaggtcgaagacaggttatagacattgacattttttttcgcataagaatcaaaggaataaaccccaggtttccagacacatgggaaattattcgaattcccctgggaaacccttacaatcatatacctttccttcctgctccaagcaaatctaaatatgctagtcagactatatccattgaagctggttcttgtgaaaaattttccagatcattcatgccagaggatattagaaaaaagtaccacaaaaaaactcttactctagatgatgtattctctatcacagaagaagtagaaggagaagtgattgcttttggatatgatgaatttagtggagcgagaaagatgttccgttctaagaaatacaaaaagggagatattagagatggaagatttaaacacaactgcatgagcattgaatctgcaagcgaatgatctattttgctggattggcaacttagatataactctt Predict ORF larger than 30AA ================================================ Protein_Len: 41 Strand: + Start: 17 End: 139 ................ M Q V S L R F V I I C E Q R K L V F I Q C F R A L R R N L R I T D Y L F S L S F S ............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................. Protein_Len: 42 Strand: + Start: 130 End: 255 ................................................................................................................................. M L L L A K N F C K N Q I N L T F T I N C K I L H Y K M D E K I E S L V I L S K D Y ......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... Protein_Len: 37 Strand: + Start: 170 End: 280 ......................................................................................................................................................................... M L P L L S T A R Y C T T K W M R K L K V W S Y S L K I T K I W N G L I I ................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ Protein_Len: 36 Strand: + Start: 344 End: 451 ....................................................................................................................................................................................................................................................................................................................................................... M F L E L N S P N I L A E H N L T I K T T L C T D F A Y A T K V E D R L ..................................................................................................................................................................................................................................................................................................................................................................................................................................................................... Protein_Len: 48 Strand: + Start: 551 End: 694 ...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... M I Y L S F L L Q A N L N M L V R L Y P L K L V L V K N F P D H S C Q R I L E K S T T K K L L L .................................................................................................................................................................................................................. Protein_Len: 34 Strand: + Start: 740 End: 841 ................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... M L L D M M N L V E R E R C S V L R N T K R E I L E M E D L N T T A ............................................................... Protein_Len: 60 Strand: + Start: 262 End: 864 ..................................................................................................................................................................................................................................................................... M E W I N N L I G F G L G V L A S W I V W F V V S R C I V P R I E F S K Y L S R T Q P N Y Q D N P L Y R F R L R N K G R ........................................ Protein_Len: 60 Strand: - Start: 697 End: 897 ........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ F F Y F S F H N S K S I I F K T S R S L H E T R L F V F L S I N S I S S K F V V A H A N F R C A F S R N Q Q I P L K S M ....... Protein_Len: 60 Strand: - Start: 600 End: 872 ....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... R S S T N E I V S S T S P S T I A K P Y S S N L P A L F I N R E L F Y L F P S I L S P L N L C L Q M L M S D A L S H D M ................................ Protein_Len: 58 Strand: - Start: 427 End: 600 .......................................................................................................................................................................................................................................................................................................................................................................................................................................... A V F T S S L N Y V N V N K K A Y S D F S Y V G P K W V C P F N N S N G Q S V R V I M Y R E K R S W A F R F I S T M ................................................................................................................................................................................................................................................................................................................ Protein_Len: 44 Strand: - Start: 399 End: 530 .............................................................................................................................................................................................................................................................................................................................................................................................................. S L G K Y L N R R R L L P R L C T I S M S M K K R M L I L P I F G L N G S V H S I I R M ...................................................................................................................................................................................................................................................................................................................................................................................... Protein_Len: 32 Strand: - Start: 275 End: 370 .................................................................................................................................................................................................................................................................................. Y N L Q N Q I P H I P M M S Q K T Q L L Y T Y Q E E F Q I R W M ...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... Protein_Len: 41 Strand: - Start: 258 End: 380 ................................................................................................................................................................................................................................................................. F I S H I L L K I P K P N P T N A D H I T Q N T T L L H I T G R I S N E L Y R L M ............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ Protein_Len: 46 Strand: - Start: 142 End: 279 ............................................................................................................................................. C F V E T F V L Y I K G K S D V A L Y Q V V F H I L F N F T Q D Y E R F I V L I H F P N I M ................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................. Protein_Len: 38 Strand: - Start: 84 End: 197 ................................................................................... P V L F F S S F L Q N N T R K I R R R A F F K Q L F W I F R V K V I L Q L M ................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... attcgcaaatagttttgtgcaggtatccctgcggtttgtaattatttgcgagcaaagaaaattggtgtttattcagtgtttcagggcactaagaagaaacttgagaataactgattatttgttctctttatccttctcctagcaaaaaacttctgtaaaaaccaaataaatcttacctttactatcaactgcaagatattgcactacaaaatggatgagaaaattgaaagtttggtcatactctctaaagattactaaaatatggaatggattaataatttaattggttttggattgggtgtattggcatcatggattgtttggtttgtagtaagtaggtgtattgttcctcgaattgaattctccaaatatcttagcagaacacaacctaactatcaagacaaccctttgtacagatttcgcctacgcaacaaaggtcgaagacaggttatagacattgacattttttttcgcataagaatcaaaggaataaaccccaggtttccagacacatgggaaattattcgaattcccctgggaaacccttacaatcatatacctttccttcctgctccaagcaaatctaaatatgctagtcagactatatccattgaagctggttcttgtgaaaaattttccagatcattcatgccagaggatattagaaaaaagtaccacaaaaaaactcttactctagatgatgtattctctatcacagaagaagtagaaggagaagtgattgcttttggatatgatgaatttagtggagcgagaaagatgttccgttctaagaaatacaaaaagggagatattagagatggaagatttaaacacaactgcatgagcattgaatctgcaagcgaatgatctattttgctggattggcaacttagatataactctt 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: 85 Start: 371 End: 400 ..................................................................................................................................................................................................................................................................................................................................................................................CTTGATAGTTAGGTTGTGTTCTGCTAAGAT........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ attcgcaaatagttttgtgcaggtatccctgcggtttgtaattatttgcgagcaaagaaaattggtgtttattcagtgtttcagggcactaagaagaaacttgagaataactgattatttgttctctttatccttctcctagcaaaaaacttctgtaaaaaccaaataaatcttacctttactatcaactgcaagatattgcactacaaaatggatgagaaaattgaaagtttggtcatactctctaaagattactaaaatatggaatggattaataatttaattggttttggattgggtgtattggcatcatggattgtttggtttgtagtaagtaggtgtattgttcctcgaattgaattctccaaatatcttagcagaacacaacctaactatcaagacaaccctttgtacagatttcgcctacgcaacaaaggtcgaagacaggttatagacattgacattttttttcgcataagaatcaaaggaataaaccccaggtttccagacacatgggaaattattcgaattcccctgggaaacccttacaatcatatacctttccttcctgctccaagcaaatctaaatatgctagtcagactatatccattgaagctggttcttgtgaaaaattttccagatcattcatgccagaggatattagaaaaaagtaccacaaaaaaactcttactctagatgatgtattctctatcacagaagaagtagaaggagaagtgattgcttttggatatgatgaatttagtggagcgagaaagatgttccgttctaagaaatacaaaaagggagatattagagatggaagatttaaacacaactgcatgagcattgaatctgcaagcgaatgatctattttgctggattggcaacttagatataactctt Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 44 HP_score: -3.4 Tail_Score: -2.87564 Start: 512 End: 537 Full_Region: attgtaagggtttcc caggggaatt cgaat aatttcccatg tgtctggaaacctgg ...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................caggggaattcgaataatttcccatg............................................................................................................................................................................................................................................................................................................................................................................... TransTerm Strand: - Conf: 43 HP_score: -2.7 Tail_Score: -2.98942 Start: 514 End: 536 Full_Region: ttgtaagggtttccc aggggaatt cgaat aatttccca tgtgtctggaaacct .................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................aggggaattcgaataatttccca................................................................................................................................................................................................................................................................................................................................................................................ Find igs database================================================ Query_seq: PG0872:PG0873|PG0872:PG0873:mobilizable transposon, xis protein:mobilizable transposon, tnpC protein:<-<-:935296..936199 904 attcgcaaatagttttgtgcaggtatccctgcggtttgtaattatttgcgagcaaagaaaattggtgtttattcagtgtttcagggcactaagaagaaacttgagaataactgattatttgttctctttatccttctcctagcaaaaaacttctgtaaaaaccaaataaatcttacctttactatcaactgcaagatattgcactacaaaatggatgagaaaattgaaagtttggtcatactctctaaagattactaaaatatggaatggattaataatttaattggttttggattgggtgtattggcatcatggattgtttggtttgtagtaagtaggtgtattgttcctcgaattgaattctccaaatatcttagcagaacacaacctaactatcaagacaaccctttgtacagatttcgcctacgcaacaaaggtcgaagacaggttatagacattgacattttttttcgcataagaatcaaaggaataaaccccaggtttccagacacatgggaaattattcgaattcccctgggaaacccttacaatcatatacctttccttcctgctccaagcaaatctaaatatgctagtcagactatatccattgaagctggttcttgtgaaaaattttccagatcattcatgccagaggatattagaaaaaagtaccacaaaaaaactcttactctagatgatgtattctctatcacagaagaagtagaaggagaagtgattgcttttggatatgatgaatttagtggagcgagaaagatgttccgttctaagaaatacaaaaagggagatattagagatggaagatttaaacacaactgcatgagcattgaatctgcaagcgaatgatctattttgctggattggcaacttagatataactctt Intra-Species Hit: Count: 1 Min: 1 Max: 904 Len: 904 Subject: NC_002950_PG0872_PG0873|mobilizable transposon, xis protein:mobilizable transposon, tnpC protein|NEGATIVE:NEGATIVE|[935296,936199]|904 HSP 1 e-value: 0.0 bit: 1703.0 Len: 904 Query Start:1 Query End:904 Subject Strand: POSITIVE Subject Start: 1 Subject End: 904 attcgcaaatagttttgtgcaggtatccctgcggtttgtaattatttgcgagcaaagaaaattggtgtttattcagtgtttcagggcactaagaagaaacttgagaataactgattatttgttctctttatccttctcctagcaaaaaacttctgtaaaaaccaaataaatcttacctttactatcaactgcaagatattgcactacaaaatggatgagaaaattgaaagtttggtcatactctctaaagattactaaaatatggaatggattaataatttaattggttttggattgggtgtattggcatcatggattgtttggtttgtagtaagtaggtgtattgttcctcgaattgaattctccaaatatcttagcagaacacaacctaactatcaagacaaccctttgtacagatttcgcctacgcaacaaaggtcgaagacaggttatagacattgacannnnnnnncgcataagaatcaaaggaataaaccccaggtttccagacacatgggaaattattcgaattcccctgggaaacccttacaatcatatacctttccttcctgctccaagcaaatctaaatatgctagtcagactatatccattgaagctggttcttgtgaaaaattttccagatcattcatgccagaggatattagaaaaaagtaccacnnnnnnnctcttactctagatgatgtattctctatcacagaagaagtagaaggagaagtgattgcttttggatatgatgaatttagtggagcgagaaagatgttccgttctaagaaatacaaaaagggagatattagagatggaagatttaaacacaactgcatgagcattgaatctgcaagcgaatgatctattttgctggattggcaacttagatataactctt attcgcaaatagttttgtgcaggtatccctgcggtttgtaattatttgcgagcaaagaaaattggtgtttattcagtgtttcagggcactaagaagaaacttgagaataactgattatttgttctctttatccttctcctagcaaaaaacttctgtaaaaaccaaataaatcttacctttactatcaactgcaagatattgcactacaaaatggatgagaaaattgaaagtttggtcatactctctaaagattactaaaatatggaatggattaataatttaattggttttggattgggtgtattggcatcatggattgtttggtttgtagtaagtaggtgtattgttcctcgaattgaattctccaaatatcttagcagaacacaacctaactatcaagacaaccctttgtacagatttcgcctacgcaacaaaggtcgaagacaggttatagacattgacattttttttcgcataagaatcaaaggaataaaccccaggtttccagacacatgggaaattattcgaattcccctgggaaacccttacaatcatatacctttccttcctgctccaagcaaatctaaatatgctagtcagactatatccattgaagctggttcttgtgaaaaattttccagatcattcatgccagaggatattagaaaaaagtaccacaaaaaaactcttactctagatgatgtattctctatcacagaagaagtagaaggagaagtgattgcttttggatatgatgaatttagtggagcgagaaagatgttccgttctaagaaatacaaaaagggagatattagagatggaagatttaaacacaactgcatgagcattgaatctgcaagcgaatgatctattttgctggattggcaacttagatataactctt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUCGCAAAUAGUUUUGUGCAGGUAUCCCUGCGGUUUGUAAUUAUUUGCGAGCAAAGAAAAUUGGUGUUUAUUCAGUGUUUCAGGGCACUAAGAAGAAACUUGAGAAUAACUGAUUAUUUGUUCUCUUUAUCCUUCUCCUAGCAAAAAACUUCUGUAAAAACCAAAUAAAUCUUACCUUUACUAUCAACUGCAAGAUAUUGCACUACAAAAUGGAUGAGAAAAUUGAAAGUUUGGUCAUACUCUCUAAAGAUUACUAAAAUAUGGAAUGGAUUAAUAAUUUAAUUGGUUUUGGAUUGGGUGUAUUGGCAUCAUGGAUUGUUUGGUUUGUAGUAAGUAGGUGUAUUGUUCCUCGAAUUGAAUUCUCCAAAUAUCUUAGCAGAACACAACCUAACUAUCAAGACAACCCUUUGUACAGAUUUCGCCUACGCAACAAAGGUCGAAGACAGGUUAUAGACAUUGACAUUUUUUUUCGCAUAAGAAUCAAAGGAAUAAACCCCAGGUUUCCAGACACAUGGGAAAUUAUUCGAAUUCCCCUGGGAAACCCUUACAAUCAUAUACCUUUCCUUCCUGCUCCAAGCAAAUCUAAAUAUGCUAGUCAGACUAUAUCCAUUGAAGCUGGUUCUUGUGAAAAAUUUUCCAGAUCAUUCAUGCCAGAGGAUAUUAGAAAAAAGUACCACAAAAAAACUCUUACUCUAGAUGAUGUAUUCUCUAUCACAGAAGAAGUAGAAGGAGAAGUGAUUGCUUUUGGAUAUGAUGAAUUUAGUGGAGCGAGAAAGAUGUUCCGUUCUAAGAAAUACAAAAAGGGAGAUAUUAGAGAUGGAAGAUUUAAACACAACUGCAUGAGCAUUGAAUCUGCAAGCGAAUGAUCUAUUUUGCUGGAUUGGCAACUUAGAUAUAACUCUU ((((((...(((((((..(((((....))))).((((((((....))))))))....))))))).(((..((((((((((.((..(((...(((((......((((((((........))))))))......))))).(((((..............((((((((.(((((...(((...(((.((((..((((....)))).(((.....))).........)))).)))..)))....(..((((...(((.....))).))))..)........))))).))))))))((((..(((.(((((((((..((((((((((((...((((.(((.(((((((((((((((.((((...))))........(((((((.(((...(((((....(((...((((....))))...)))(((((((.........))).))))...)))))...(.......).......))))).))))).....))))))).......(((((((.....((.(((((.((....)).))))).))))))))).........))))))))...))).)))).)))))).))))))...)))))))).).)))..))))......)))))...(((((..((((((((((..((..((((((((((((...(((((....(((...........))).....)))))........((((((.((((.......)).)).)))))).......))))))).)))))((.((((..(((((((.(((.....))))))))))..)))).))...............))..))))))))))...))))).))).))))))))))))..))).)))))).(((((..(((((.....)))))..)))))......... (-216.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGAGUUAUAUCUAAGUUGCCAAUCCAGCAAAAUAGAUCAUUCGCUUGCAGAUUCAAUGCUCAUGCAGUUGUGUUUAAAUCUUCCAUCUCUAAUAUCUCCCUUUUUGUAUUUCUUAGAACGGAACAUCUUUCUCGCUCCACUAAAUUCAUCAUAUCCAAAAGCAAUCACUUCUCCUUCUACUUCUUCUGUGAUAGAGAAUACAUCAUCUAGAGUAAGAGUUUUUUUGUGGUACUUUUUUCUAAUAUCCUCUGGCAUGAAUGAUCUGGAAAAUUUUUCACAAGAACCAGCUUCAAUGGAUAUAGUCUGACUAGCAUAUUUAGAUUUGCUUGGAGCAGGAAGGAAAGGUAUAUGAUUGUAAGGGUUUCCCAGGGGAAUUCGAAUAAUUUCCCAUGUGUCUGGAAACCUGGGGUUUAUUCCUUUGAUUCUUAUGCGAAAAAAAAUGUCAAUGUCUAUAACCUGUCUUCGACCUUUGUUGCGUAGGCGAAAUCUGUACAAAGGGUUGUCUUGAUAGUUAGGUUGUGUUCUGCUAAGAUAUUUGGAGAAUUCAAUUCGAGGAACAAUACACCUACUUACUACAAACCAAACAAUCCAUGAUGCCAAUACACCCAAUCCAAAACCAAUUAAAUUAUUAAUCCAUUCCAUAUUUUAGUAAUCUUUAGAGAGUAUGACCAAACUUUCAAUUUUCUCAUCCAUUUUGUAGUGCAAUAUCUUGCAGUUGAUAGUAAAGGUAAGAUUUAUUUGGUUUUUACAGAAGUUUUUUGCUAGGAGAAGGAUAAAGAGAACAAAUAAUCAGUUAUUCUCAAGUUUCUUCUUAGUGCCCUGAAACACUGAAUAAACACCAAUUUUCUUUGCUCGCAAAUAAUUACAAACCGCAGGGAUACCUGCACAAAACUAUUUGCGAAU ..((((...(((((..((((.......))))..))))).))))....(((((.....(((....)))...(((((((.........................(((((((...........(((...((((((..((((((...........(((((((.((((...........((..((((.((...(((((.(......))))))..))))))..))..(((((((((.....(((((((..(((.((......))..))).)))))))....)))))))))...))))...))))))).........((((..........))))))))))..))))))..(((((..((((((..((((((((((((((((((.....)))))))).)).....))))))))..(((((..(((((((...(((((((((....(((.(((...(.(........).)...))).))).))))))))).(....)....))))))).........(((((((((..((((((.....((...(((((...))))).))..))))))....)))))...)))).)))))..))))))....)))))...........))).(((((((.((((((............((((((((............))))))))(((..(((.(((((...................(((((....)))))))))).)))...)))..)))))).))))))).)))))))(((((..((...((((((((....(((((.((........)).)))))....))))))))...))...)))))......)))))))........)))))(((((((((..........(((((....))))).......))))))))).. (-204.93) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 875 60 11 151 102 NC_002950:PG0872|5end_mobilizable_transposon,_xis_protein_935205..935435_NEGATIVE 349 67 21 109 59 NC_002950:PG1337|5end_umuD_protein_1417813..1418043_POSITIVE 332 330 290 217 171 NC_002950:PG0359|5end_flavin_reductase_domain_protein_392851..393081_POSITIVE 326 889 845 165 125 NC_002950:PG1387|5end_hypothetical_protein_1470058..1470288_NEGATIVE 320 517 471 223 187 NC_002950:PG1679|5end_hypothetical_protein_1763796..1764026_POSITIVE 318 50 2 179 131 NC_002950:PG0125|5end_hypothetical_protein_146786..147016_NEGATIVE 315 889 841 70 8 NC_002950:PG0989|5end_50S_ribosomal_protein_L20_1051046..1051276_NEGATIVE 306 886 841 199 151 NC_002950:PG0227|5end_DNA_repair_protein_RadA_263978..264208_NEGATIVE 305 579 537 164 123 NC_002950:PG0446|5end_thiF_protein_486599..486829_POSITIVE 301 57 12 73 23 NC_002950:PG0234|5end_immunoreactive_23_kDa_antigen_PG66_271384..271614_NEGATIVE 297 390 341 136 87 NC_002950:PG0203|5end_hypothetical_protein_240211..240441_NEGATIVE 295 769 727 84 40 NC_002950:PG0201|5end_ribonuclease_P_238770..239000_NEGATIVE 293 59 12 188 141 NC_002950:PG1214|5end_hypothetical_protein_1293032..1293262_POSITIVE 292 538 497 185 141 NC_002950:PG1255|5end_recombination_protein_RecR_1332751..1332981_NEGATIVE 291 67 22 224 172 NC_002950:PG1130|5end_TPR_domain_protein_1208053..1208283_POSITIVE 290 450 401 136 88 NC_002950:PG0438|5end_hypothetical_protein_476884..477114_POSITIVE 289 657 619 42 4 NC_002950:PG0594|5end_RNA_polymerase_sigma-70_factor_652048..652278_POSITIVE 288 58 14 150 107 NC_002950:PG1861|5end_hypothetical_protein_1960057..1960287_NEGATIVE 288 575 531 229 170 NC_002950:PG1286|5end_ferritin_1365501..1365731_NEGATIVE 287 53 15 44 1 NC_002950:PG1497|5end_DNA-binding_protein,_histone-like_family_1574085..1574315_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 326 889 845 128 88 NC_002950:PG1388|3end_hypothetical_protein_1470095..1470245_NEGATIVE 312 339 291 138 73 NC_002950:PG1170|3end_SerB_family_protein_1250115..1250265_POSITIVE 304 770 723 137 93 NC_002950:PG1854|3end_5-formyltetrahydrofolate_cyclo-ligase_family_protein_1953325..1953475_NEGATIVE 303 446 406 109 62 NC_002950:PG1649|3end_hypothetical_protein_1730030..1730180_NEGATIVE 297 390 341 85 36 NC_002950:PG0204|3end_hypothetical_protein_240262..240412_NEGATIVE 295 54 18 134 84 NC_002950:PG1743|3end_2-dehydro-3-deoxyphosphooctonate_aldolase_1827530..1827680_NEGATIVE 295 769 727 87 43 NC_002950:PG0202|3end_uroporphyrinogen-III_synthase_HemD,_putative_238767..238917_NEGATIVE 291 67 22 121 69 NC_002950:PG1129|3end_ribonucleotide_reductase_1208030..1208180_POSITIVE 288 58 14 137 94 NC_002950:PG1862|3end_hypothetical_protein_1960070..1960220_NEGATIVE 280 627 581 86 41 NC_002950:PG1750|3end_alpha-1,3/4-fucosidase,_putative_1837223..1837373_POSITIVE 277 887 844 151 93 NC_002950:PG1604|3end_immunoreactive_84_kDa_antigen_PG93_1685147..1685297_POSITIVE 276 58 13 115 66 NC_002950:PG1600|3end_hypothetical_protein_1679959..1680109_NEGATIVE 276 880 835 108 54 NC_002950:PG0745|3end_lactoylglutathione_lyase,_putative_791982..792132_NEGATIVE 275 65 23 148 109 NC_002950:PG1381|3end_ABC_transporter,_permease_protein_1461451..1461601_POSITIVE 275 335 301 53 13 NC_002950:PG0752|3end_uracil_phosphoribosyltransferase_798397..798547_POSITIVE 274 776 731 75 16 NC_002950:PG0376|3end_30S_ribosomal_protein_S9_406865..407015_POSITIVE 273 50 12 99 63 NC_002950:PG0093|3end_HlyD_family_secretion_protein_108643..108793_NEGATIVE 271 56 13 89 40 NC_002950:PG0428|3end_hypothetical_protein_465753..465903_NEGATIVE 270 579 533 74 30 NC_002950:PG1112|3end_hypothetical_protein_1185571..1185721_POSITIVE 270 738 692 108 56 NC_002950:PG1049|3end_hypothetical_protein_1117345..1117495_POSITIVE