Origin IGS: ataaacctccttggcttccttgctggttattttgtagaaaagctttccatcggtaaagtcatacggtttaacctgtgctttcacattcatttgtacgcttgccaataacaaacaagcaagtgctaataagaaattctttttcataataaaatagtttatcgtacatctgtacgttggttaatatttcaatagattttgatacaaacattaataaatactgcaaacggcatagagaagctcggcaaactcatttgcgataactgaataccgccacattttggaaaccaattggtaattacagatttatgcgtctttcgcaaatatagacattaaaatccatagttccaaatttatctgacacttttccaaatagccaatccttttctttagcctgcggttttgcctgctctttcccatttcaacgcttgcctcagaaattatttacacgtaaataaatatttctttacgtgtatggaaattattacttacgtgtaaataaatatttttctacacgcaagtaatttgtcaatgttcggttttcaaagaaacatacaaaaagaatgaaacggaaaaacgtttattcagtcttatttcaagaggctttttgaagagctggagcaagggaagaataagtaaaaacgaataatctactgaataaaaaagagcaattataatcgctgatgaaacgattataattgctctttactatacagacaaatcggatttta .........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 taaaatccgatttgtctgtatagtaaagagcaattataatcgtttcatcagcgattataattgctcttttttattcagtagattattcgtttttacttattcttcccttgctccagctcttcaaaaagcctcttgaaataagactgaataaacgtttttccgtttcattctttttgtatgtttctttgaaaaccgaacattgacaaattacttgcgtgtagaaaaatatttatttacacgtaagtaataatttccatacacgtaaagaaatatttatttacgtgtaaataatttctgaggcaagcgttgaaatgggaaagagcaggcaaaaccgcaggctaaagaaaaggattggctatttggaaaagtgtcagataaatttggaactatggattttaatgtctatatttgcgaaagacgcataaatctgtaattaccaattggtttccaaaatgtggcggtattcagttatcgcaaatgagtttgccgagcttctctatgccgtttgcagtatttattaatgtttgtatcaaaatctattgaaatattaaccaacgtacagatgtacgataaactattttattatgaaaaagaatttcttattagcacttgcttgtttgttattggcaagcgtacaaatgaatgtgaaagcacaggttaaaccgtatgactttaccgatggaaagcttttctacaaaataaccagcaaggaagccaaggaggtttat Mask Tandem Repeat Region ================================================ ataaacctccttggcttccttgctggttattttgtagaaaagctttccatcggtaaagtcatacggtttaacctgtgctttcacattcatttgtacgcttgccaataacaaacaagcaagtgctaataagaaattctttttcataataaaatagtttatcgtacatctgtacgttggttaatatttcaatagattttgatacaaacattaataaatactgcaaacggcatagagaagctcggcaaactcatttgcgataactgaataccgccacattttggaaaccaattggtaattacagatttatgcgtctttcgcaaatatagacattaaaatccatagttccaaatttatctgacacttttccaaatagccaatccttttctttagcctgcggttttgcctgctctttcccatttcaacgcttgcctcagaaattatttacacnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnatttttctacacgcaagtaatttgtcaatgttcggttttcaaagaaacatacaaaaagaatgaaacggaaaaacgtttattcagtcttatttcaagaggctttttgaagagctggagcaagggaagaataagtaaaaacgaataatctactgaataaaaaagagcaattataatcgctgatgaaacgattataattgctctttactatacagacaaatcggatttta Find is-nt database================================================ Query_seq: PI1571:PI1573|PI1571:PI1573:surface antigen BspA:transcription-repair coupling factor:->->:1495841..1496568 728 ataaacctccttggcttccttgctggttattttgtagaaaagctttccatcggtaaagtcatacggtttaacctgtgctttcacattcatttgtacgcttgccaataacaaacaagcaagtgctaataagaaattctttttcataataaaatagtttatcgtacatctgtacgttggttaatatttcaatagattttgatacaaacattaataaatactgcaaacggcatagagaagctcggcaaactcatttgcgataactgaataccgccacattttggaaaccaattggtaattacagatttatgcgtctttcgcaaatatagacattaaaatccatagttccaaatttatctgacacttttccaaatagccaatccttttctttagcctgcggttttgcctgctctttcccatttcaacgcttgcctcagaaattatttacacgtaaataaatatttctttacgtgtatggaaattattacttacgtgtaaataaatatttttctacacgcaagtaatttgtcaatgttcggttttcaaagaaacatacaaaaagaatgaaacggaaaaacgtttattcagtcttatttcaagaggctttttgaagagctggagcaagggaagaataagtaaaaacgaataatctactgaataaaaaagagcaattataatcgctgatgaaacgattataattgctctttactatacagacaaatcggatttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1571:PI1573|PI1571:PI1573:surface antigen BspA:transcription-repair coupling factor:->->:1495841..1496568 728 ataaacctccttggcttccttgctggttattttgtagaaaagctttccatcggtaaagtcatacggtttaacctgtgctttcacattcatttgtacgcttgccaataacaaacaagcaagtgctaataagaaattctttttcataataaaatagtttatcgtacatctgtacgttggttaatatttcaatagattttgatacaaacattaataaatactgcaaacggcatagagaagctcggcaaactcatttgcgataactgaataccgccacattttggaaaccaattggtaattacagatttatgcgtctttcgcaaatatagacattaaaatccatagttccaaatttatctgacacttttccaaatagccaatccttttctttagcctgcggttttgcctgctctttcccatttcaacgcttgcctcagaaattatttacacgtaaataaatatttctttacgtgtatggaaattattacttacgtgtaaataaatatttttctacacgcaagtaatttgtcaatgttcggttttcaaagaaacatacaaaaagaatgaaacggaaaaacgtttattcagtcttatttcaagaggctttttgaagagctggagcaagggaagaataagtaaaaacgaataatctactgaataaaaaagagcaattataatcgctgatgaaacgattataattgctctttactatacagacaaatcggatttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1571:PI1573|PI1571:PI1573:surface antigen BspA:transcription-repair coupling factor:->->:1495841..1496568 728 ataaacctccttggcttccttgctggttattttgtagaaaagctttccatcggtaaagtcatacggtttaacctgtgctttcacattcatttgtacgcttgccaataacaaacaagcaagtgctaataagaaattctttttcataataaaatagtttatcgtacatctgtacgttggttaatatttcaatagattttgatacaaacattaataaatactgcaaacggcatagagaagctcggcaaactcatttgcgataactgaataccgccacattttggaaaccaattggtaattacagatttatgcgtctttcgcaaatatagacattaaaatccatagttccaaatttatctgacacttttccaaatagccaatccttttctttagcctgcggttttgcctgctctttcccatttcaacgcttgcctcagaaattatttacacgtaaataaatatttctttacgtgtatggaaattattacttacgtgtaaataaatatttttctacacgcaagtaatttgtcaatgttcggttttcaaagaaacatacaaaaagaatgaaacggaaaaacgtttattcagtcttatttcaagaggctttttgaagagctggagcaagggaagaataagtaaaaacgaataatctactgaataaaaaagagcaattataatcgctgatgaaacgattataattgctctttactatacagacaaatcggatttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ataaacctccttggcttccttgctggttattttgtagaaaagctttccatcggtaaagtcatacggtttaacctgtgctttcacattcatttgtacgcttgccaataacaaacaagcaagtgctaataagaaattctttttcataataaaatagtttatcgtacatctgtacgttggttaatatttcaatagattttgatacaaacattaataaatactgcaaacggcatagagaagctcggcaaactcatttgcgataactgaataccgccacattttggaaaccaattggtaattacagatttatgcgtctttcgcaaatatagacattaaaatccatagttccaaatttatctgacacttttccaaatagccaatccttttctttagcctgcggttttgcctgctctttcccatttcaacgcttgcctcagaaattatttacacgtaaataaatatttctttacgtgtatggaaattattacttacgtgtaaataaatatttttctacacgcaagtaatttgtcaatgttcggttttcaaagaaacatacaaaaagaatgaaacggaaaaacgtttattcagtcttatttcaagaggctttttgaagagctggagcaagggaagaataagtaaaaacgaataatctactgaataaaaaagagcaattataatcgctgatgaaacgattataattgctctttactatacagacaaatcggatttta Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 1 End: 105 M N L L G F L A G Y F V E K L S I G K V I R F N L C F H I H L Y A C Q ............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... Protein_Len: 31 Strand: + Start: 165 End: 257 .................................................................................................................................................................... M C T L V N I S I D F D T N I N K Y C K R H R E A R Q T H L R ....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... Protein_Len: 38 Strand: + Start: 339 End: 452 .................................................................................................................................................................................................................................................................................................................................................. M V P N L S D T F P N S Q S F S L A C G F A C S F P F Q R L P Q K L F T R K .................................................................................................................................................................................................................................................................................... Protein_Len: 31 Strand: + Start: 400 End: 492 ............................................................................................................................................................................................................................................................................................................................................................................................................... M P A L S H F N A C L R N Y L H V N K Y F F T C M E I I T Y V ............................................................................................................................................................................................................................................ Protein_Len: 48 Strand: + Start: 500 End: 643 ................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... M F F Y T Q V I C Q C S V F K E T Y K K N E T E K R L F S L I S R G F L K S W S K G R I S K N E ..................................................................................... Protein_Len: 43 Strand: - Start: 596 End: 724 ................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... S A K Q L A P A L S S Y T F V F L R S F L F S C N Y D S I F R N Y N S K V I C V F R M .... Protein_Len: 56 Strand: - Start: 529 End: 696 ................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ H E T K L S V Y L F F S V S F R K N L R I E L P K K F L Q L L P L I L L F S Y D V S Y F L A I I I A S S V I I M ................................ Protein_Len: 45 Strand: - Start: 307 End: 441 .................................................................................................................................................................................................................................................................................................................. A D K A F I S M L I W L E L N I Q C K E L Y G I R K K L R R N Q R S K G M E V S A E S I M ............................................................................................................................................................................................................................................................................................... Protein_Len: 31 Strand: - Start: 211 End: 303 .................................................................................................................................................................................................................. Y I S C V A Y L L E A F E N A I V S Y R W M K S V L Q Y N C M ......................................................................................................................................................................................................................................................................................................................................................................................................................................... Protein_Len: 44 Strand: - Start: 189 End: 320 ............................................................................................................................................................................................ Y I K I C V N I F V A F P M S F S P L S M Q S L Q I G G C K P F W N T I V S K H T K R M ........................................................................................................................................................................................................................................................................................................................................................................................................................ Protein_Len: 51 Strand: - Start: 71 End: 223 ...................................................................... G T S E C E N T R K G I V F L C T S I L F E K E Y Y F L K D Y M Q V N T L I E I S K S V F M L L Y Q M ......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... Protein_Len: 53 Strand: - Start: 1 End: 159 Y V E K A E K S T I K Y F L K G D T F D Y P K V Q A K V N M Q V S A L L L C A L A L L F N K K M I F Y N M ......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... ataaacctccttggcttccttgctggttattttgtagaaaagctttccatcggtaaagtcatacggtttaacctgtgctttcacattcatttgtacgcttgccaataacaaacaagcaagtgctaataagaaattctttttcataataaaatagtttatcgtacatctgtacgttggttaatatttcaatagattttgatacaaacattaataaatactgcaaacggcatagagaagctcggcaaactcatttgcgataactgaataccgccacattttggaaaccaattggtaattacagatttatgcgtctttcgcaaatatagacattaaaatccatagttccaaatttatctgacacttttccaaatagccaatccttttctttagcctgcggttttgcctgctctttcccatttcaacgcttgcctcagaaattatttacacgtaaataaatatttctttacgtgtatggaaattattacttacgtgtaaataaatatttttctacacgcaagtaatttgtcaatgttcggttttcaaagaaacatacaaaaagaatgaaacggaaaaacgtttattcagtcttatttcaagaggctttttgaagagctggagcaagggaagaataagtaaaaacgaataatctactgaataaaaaagagcaattataatcgctgatgaaacgattataattgctctttactatacagacaaatcggatttta 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: 689 End: 718 ................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTTGTCTGTATAGTAAAGAGCAATTATAAT.......... PromScan Matrix: RpoD-17 Strand: - Score: 81 Start: 320 End: 349 ...............................................................................................................................................................................................................................................................................................................................TTTGGAACTATGGATTTTAATGTCTATATT........................................................................................................................................................................................................................................................................................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ ataaacctccttggcttccttgctggttattttgtagaaaagctttccatcggtaaagtcatacggtttaacctgtgctttcacattcatttgtacgcttgccaataacaaacaagcaagtgctaataagaaattctttttcataataaaatagtttatcgtacatctgtacgttggttaatatttcaatagattttgatacaaacattaataaatactgcaaacggcatagagaagctcggcaaactcatttgcgataactgaataccgccacattttggaaaccaattggtaattacagatttatgcgtctttcgcaaatatagacattaaaatccatagttccaaatttatctgacacttttccaaatagccaatccttttctttagcctgcggttttgcctgctctttcccatttcaacgcttgcctcagaaattatttacacgtaaataaatatttctttacgtgtatggaaattattacttacgtgtaaataaatatttttctacacgcaagtaatttgtcaatgttcggttttcaaagaaacatacaaaaagaatgaaacggaaaaacgtttattcagtcttatttcaagaggctttttgaagagctggagcaagggaagaataagtaaaaacgaataatctactgaataaaaaagagcaattataatcgctgatgaaacgattataattgctctttactatacagacaaatcggatttta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 71 HP_score: -6.6 Tail_Score: -3.9777 Start: 482 End: 521 Full_Region: CGTGTATGGAAATTA TTACTTACGTGTAAATAA ATAT TTTTCTACACGCAAGTAA TTTGTCAATGTTCGG .................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTACTTACGTGTAAATAAATATTTTTCTACACGCAAGTAA............................................................................................................................................................................................................... TransTerm Strand: - Conf: 83 HP_score: -11.0 Tail_Score: -2.94144 Start: 482 End: 521 Full_Region: ccgaacattgacaaa ttacttgcgtgtagaaaa atat ttatttacacgtaagtaa taatttccatacacg .................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ttacttgcgtgtagaaaaatatttatttacacgtaagtaa............................................................................................................................................................................................................... TransTerm Strand: - Conf: 68 HP_score: -2.3 Tail_Score: -5.1634 Start: 559 End: 583 Full_Region: tcttgaaataagact gaataaacg tttttc cgtttcattc tttttgtatgtttct ..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................gaataaacgtttttccgtttcattc................................................................................................................................................. TransTerm Strand: - Conf: 100 HP_score: -17.1 Tail_Score: -5.4833 Start: 663 End: 701 Full_Region: tgtctgtatagtaaa gagcaattataatcgtt tcatc agcgattataattgctc ttttttattcagtag ......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................gagcaattataatcgtttcatcagcgattataattgctc........................... Find igs database================================================ Query_seq: PI1571:PI1573|PI1571:PI1573:surface antigen BspA:transcription-repair coupling factor:->->:1495841..1496568 728 ataaacctccttggcttccttgctggttattttgtagaaaagctttccatcggtaaagtcatacggtttaacctgtgctttcacattcatttgtacgcttgccaataacaaacaagcaagtgctaataagaaattctttttcataataaaatagtttatcgtacatctgtacgttggttaatatttcaatagattttgatacaaacattaataaatactgcaaacggcatagagaagctcggcaaactcatttgcgataactgaataccgccacattttggaaaccaattggtaattacagatttatgcgtctttcgcaaatatagacattaaaatccatagttccaaatttatctgacacttttccaaatagccaatccttttctttagcctgcggttttgcctgctctttcccatttcaacgcttgcctcagaaattatttacacgtaaataaatatttctttacgtgtatggaaattattacttacgtgtaaataaatatttttctacacgcaagtaatttgtcaatgttcggttttcaaagaaacatacaaaaagaatgaaacggaaaaacgtttattcagtcttatttcaagaggctttttgaagagctggagcaagggaagaataagtaaaaacgaataatctactgaataaaaaagagcaattataatcgctgatgaaacgattataattgctctttactatacagacaaatcggatttta Intra-Species Hit: Count: 3 Min: 1 Max: 728 Len: 728 Subject: pint_PI1571_PI1573|surface antigen BspA:transcription-repair coupling factor|POSITIVE:POSITIVE|[1495841,1496568]|728 HSP 1 e-value: 0.0 bit: 1443.0 Len: 728 Query Start:1 Query End:728 Subject Strand: POSITIVE Subject Start: 1 Subject End: 728 ataaacctccttggcttccttgctggttattttgtagaaaagctttccatcggtaaagtcatacggtttaacctgtgctttcacattcatttgtacgcttgccaataacaaacaagcaagtgctaataagaaattctttttcataataaaatagtttatcgtacatctgtacgttggttaatatttcaatagattttgatacaaacattaataaatactgcaaacggcatagagaagctcggcaaactcatttgcgataactgaataccgccacattttggaaaccaattggtaattacagatttatgcgtctttcgcaaatatagacattaaaatccatagttccaaatttatctgacacttttccaaatagccaatccttttctttagcctgcggttttgcctgctctttcccatttcaacgcttgcctcagaaattatttacacgtaaataaatatttctttacgtgtatggaaattattacttacgtgtaaataaatatttttctacacgcaagtaatttgtcaatgttcggttttcaaagaaacatacaaaaagaatgaaacggaaaaacgtttattcagtcttatttcaagaggctttttgaagagctggagcaagggaagaataagtaaaaacgaataatctactgaataaaaaagagcaattataatcgctgatgaaacgattataattgctctttactatacagacaaatcggatttta ataaacctccttggcttccttgctggttattttgtagaaaagctttccatcggtaaagtcatacggtttaacctgtgctttcacattcatttgtacgcttgccaataacaaacaagcaagtgctaataagaaattctttttcataataaaatagtttatcgtacatctgtacgttggttaatatttcaatagattttgatacaaacattaataaatactgcaaacggcatagagaagctcggcaaactcatttgcgataactgaataccgccacattttggaaaccaattggtaattacagatttatgcgtctttcgcaaatatagacattaaaatccatagttccaaatttatctgacacttttccaaatagccaatccttttctttagcctgcggttttgcctgctctttcccatttcaacgcttgcctcagaaattatttacacgtaaataaatatttctttacgtgtatggaaattattacttacgtgtaaataaatatttttctacacgcaagtaatttgtcaatgttcggttttcaaagaaacatacaaaaagaatgaaacggaaaaacgtttattcagtcttatttcaagaggctttttgaagagctggagcaagggaagaataagtaaaaacgaataatctactgaataaaaaagagcaattataatcgctgatgaaacgattataattgctctttactatacagacaaatcggatttta Subject: pint_PI1476_PI1477|acyl-CoA synthase/O-succinylbenzoic acid-CoA ligase:TonB-dependent outer membrane receptor|POSITIVE:POSITIVE|[1399465,1399873]|409 HSP 1 e-value: 3.0E-36 bit: 155.0 Len: 102 Query Start:435 Query End:536 Subject Strand: POSITIVE Subject Start: 168 Subject End: 269 ..................................................................................................................................................................................................................................................................................................................................................................................................................................................aaattatttacacgtaaataaatatttctttacgtgtatggaaattattacttacgtgtaaataaatatttttctacacgcaagtaatttgtcaatgttcgg................................................................................................................................................................................................ ..................................................................................................................................................................................................................................................................................................................................................................................................................................................aaattatttacacgtaaagaaatatttatttacgtgtagagaaattattacttacgtgtaaataaatatttttctacacgtaagtaatttgtaaatgttcgg................................................................................................................................................................................................ HSP 2 e-value: 1.0E-7 bit: 60.0 Len: 30 Query Start:443 Query End:472 Subject Strand: NEGATIVE Subject Start: 176 Subject End: 205 ..........................................................................................................................................................................................................................................................................................................................................................................................................................................................tacacgtaaataaatatttctttacgtgta................................................................................................................................................................................................................................................................ ..........................................................................................................................................................................................................................................................................................................................................................................................................................................................tacacgtaaataaatatttctttacgtgta................................................................................................................................................................................................................................................................ Subject: pint_PI1740_PI1741|DedA family protein:lipid-A-disaccharide synthase|POSITIVE:POSITIVE|[1662377,1662893]|517 HSP 1 e-value: 2.0E-12 bit: 75.8 Len: 101 Query Start:435 Query End:535 Subject Strand: POSITIVE Subject Start: 201 Subject End: 301 ..................................................................................................................................................................................................................................................................................................................................................................................................................................................aaattatttacacgtaaataaatatttctttacgtgtatggaaattattac-ttacgtgtaaataaatatttttctacacgcaagtaatttgtcaatgttcg................................................................................................................................................................................................. ..................................................................................................................................................................................................................................................................................................................................................................................................................................................aaattatttacacgtaaataaatatttttctacgtgta-agtaataatttctttacgtgtaaataaatatttctttacgtgtaagtaatttgtcagtgttcg................................................................................................................................................................................................. HSP 2 e-value: 7.0E-6 bit: 54.0 Len: 55 Query Start:435 Query End:489 Subject Strand: NEGATIVE Subject Start: 236 Subject End: 290 ..................................................................................................................................................................................................................................................................................................................................................................................................................................................aaattatttacacgtaaataaatatttctttacgtgtatggaaattattacttac............................................................................................................................................................................................................................................... ..................................................................................................................................................................................................................................................................................................................................................................................................................................................aaattacttacacgtaaagaaatatttatttacacgtaaagaaattattacttac............................................................................................................................................................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUAAACCUCCUUGGCUUCCUUGCUGGUUAUUUUGUAGAAAAGCUUUCCAUCGGUAAAGUCAUACGGUUUAACCUGUGCUUUCACAUUCAUUUGUACGCUUGCCAAUAACAAACAAGCAAGUGCUAAUAAGAAAUUCUUUUUCAUAAUAAAAUAGUUUAUCGUACAUCUGUACGUUGGUUAAUAUUUCAAUAGAUUUUGAUACAAACAUUAAUAAAUACUGCAAACGGCAUAGAGAAGCUCGGCAAACUCAUUUGCGAUAACUGAAUACCGCCACAUUUUGGAAACCAAUUGGUAAUUACAGAUUUAUGCGUCUUUCGCAAAUAUAGACAUUAAAAUCCAUAGUUCCAAAUUUAUCUGACACUUUUCCAAAUAGCCAAUCCUUUUCUUUAGCCUGCGGUUUUGCCUGCUCUUUCCCAUUUCAACGCUUGCCUCAGAAAUUAUUUACACGUAAAUAAAUAUUUCUUUACGUGUAUGGAAAUUAUUACUUACGUGUAAAUAAAUAUUUUUCUACACGCAAGUAAUUUGUCAAUGUUCGGUUUUCAAAGAAACAUACAAAAAGAAUGAAACGGAAAAACGUUUAUUCAGUCUUAUUUCAAGAGGCUUUUUGAAGAGCUGGAGCAAGGGAAGAAUAAGUAAAAACGAAUAAUCUACUGAAUAAAAAAGAGCAAUUAUAAUCGCUGAUGAAACGAUUAUAAUUGCUCUUUACUAUACAGACAAAUCGGAUUUUA ((((((....(((((...(((((((((((..(((((.....(((((((...)).)))))..)))))..))))).((((..............))))..................)))))).)))))...((((.....))))...........))))))((....((((((.............((((.(((((((((..................((((((...(((..(((((((...(((..........(((.((......)).))).....((((((((((....))).....(((((...((((.....))))..(((.((........)).)))...........)))))......)))))))..)))....)))))))...)))))))))(((((.((.(((((((.........((((((...(((((((((((((((((((.(((..((((((.((....)).))))))..))).)))))))))))))).....)))))....))))))..........((((((.((((((((((............(((((((.((......))))))))).(((((.......))))))))))))))).)..))))).))))))).)).)))))..)))..)))))).))))....((((((((((((((((((.........))))))))))))))))))....)))))).....))....... (-169.94) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAUCCGAUUUGUCUGUAUAGUAAAGAGCAAUUAUAAUCGUUUCAUCAGCGAUUAUAAUUGCUCUUUUUUAUUCAGUAGAUUAUUCGUUUUUACUUAUUCUUCCCUUGCUCCAGCUCUUCAAAAAGCCUCUUGAAAUAAGACUGAAUAAACGUUUUUCCGUUUCAUUCUUUUUGUAUGUUUCUUUGAAAACCGAACAUUGACAAAUUACUUGCGUGUAGAAAAAUAUUUAUUUACACGUAAGUAAUAAUUUCCAUACACGUAAAGAAAUAUUUAUUUACGUGUAAAUAAUUUCUGAGGCAAGCGUUGAAAUGGGAAAGAGCAGGCAAAACCGCAGGCUAAAGAAAAGGAUUGGCUAUUUGGAAAAGUGUCAGAUAAAUUUGGAACUAUGGAUUUUAAUGUCUAUAUUUGCGAAAGACGCAUAAAUCUGUAAUUACCAAUUGGUUUCCAAAAUGUGGCGGUAUUCAGUUAUCGCAAAUGAGUUUGCCGAGCUUCUCUAUGCCGUUUGCAGUAUUUAUUAAUGUUUGUAUCAAAAUCUAUUGAAAUAUUAACCAACGUACAGAUGUACGAUAAACUAUUUUAUUAUGAAAAAGAAUUUCUUAUUAGCACUUGCUUGUUUGUUAUUGGCAAGCGUACAAAUGAAUGUGAAAGCACAGGUUAAACCGUAUGACUUUACCGAUGGAAAGCUUUUCUACAAAAUAACCAGCAAGGAAGCCAAGGAGGUUUAU ..(((..(((...(((((.((((.((((((((((((((((((((.....)))))))))))))))))))).))))....)))))...)))..)))...............((....))........(((((((((..(((((((......(((((......))))).(((((((((..((((((((((((....((((((((((.((((..(((((.(.((((((.....((((((((((((((((((..(((((..((....))..)))))..))))))))))))))))))))))))).)))))..(((((((((.(.((((.((((....(.(((((((........(((..(((((.((((.....((.(((((...........(((((((......)))))))..((((.....))))...)))))))....)))).))))))))........((((((......)))))).....))))))).).)))))))).).)))))).))).)))).))))))))))..))))).......))))))).......(((((....)))))..................))))))))).)))))))....(((.((((((.((((((((.((((((((...(((.((((....))))..)))....))))).)))..))..(((((.....)))))...)))))).)))))).)))...))))))))).. (-189.81) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 550 526 481 147 102 pint:PI1462|5end_hypothetical_protein_1385094..1385324_POSITIVE 450 470 421 113 64 pint:PI0648|5end_hypothetical_protein_589448..589678_POSITIVE 428 501 463 227 189 pint:PI0917|5end_phosphoglycolate_phosphatase_846371..846601_POSITIVE 424 478 433 209 165 pint:PI0115|5end_hypothetical_protein_108062..108292_POSITIVE 424 478 433 195 151 pint:PI0111|5end_hypothetical_protein_108048..108278_POSITIVE 424 478 433 160 116 pint:PI0112|5end_hypothetical_protein_108013..108243_POSITIVE 416 489 441 144 96 pint:PI0619|5end_hypothetical_protein_569364..569594_POSITIVE 414 520 476 214 173 pint:PI0173|5end_hypothetical_protein_165305..165535_POSITIVE 392 478 431 211 163 pint:PI0702|5end_conserved_hypothetical_protein;_possible_tetracenomycin_C_synthesis_protein_homolog_638640..638870_POSITIVE 381 519 476 231 191 pint:PI0599|5end_hypothetical_protein_547376..547606_POSITIVE 368 472 443 159 130 pint:PI0130|5end_hypothetical_protein_122032..122262_POSITIVE 366 472 433 152 110 pint:PI0983|5end_hypothetical_protein_909750..909980_POSITIVE 351 499 453 138 92 pint:PI0312|5end_hypothetical_protein_294591..294821_POSITIVE 336 432 394 231 183 pint:PI1671|5end_hypothetical_protein_1586397..1586627_POSITIVE 336 420 372 67 11 pint:PI0308|5end_conserved_hypothetical_protein_290587..290817_POSITIVE 330 420 372 161 120 pint:PI0261|5end_conjugative_transposon_protein,_TraK_254065..254295_POSITIVE 327 275 231 102 64 pint:PI1727|5end__ATP-dependent_Clp_protease,_ATP-binding_subunit_1645680..1645910_POSITIVE 323 490 441 135 84 pint:PI1450|5end_hypothetical_protein_1372683..1372913_POSITIVE 323 629 583 179 129 pint:PI0274|5end_conserved_hypothetical_protein_262856..263086_POSITIVE 321 430 389 223 184 pint:PI2090|5end_thioesterase_family_protein_2047570..2047800_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 550 526 481 46 1 pint:PI1461|3end_conserved_hypothetical_protein_1385073..1385223_POSITIVE 414 520 476 67 26 pint:PI0172|3end_ISPg3-related_transposase_165238..165388_POSITIVE 375 505 463 56 14 pint:PI0533|3end_ABC_transporter,_permease_protein_488421..488571_POSITIVE 368 472 443 49 20 pint:PI0598|3end_hypothetical_protein_547233..547383_POSITIVE 361 494 451 100 57 pint:PI0725|3end_hypothetical_protein_658933..659083_POSITIVE 360 479 435 56 12 pint:PI1314|3end_hypothetical_protein_1231423..1231573_POSITIVE 347 620 575 119 69 pint:PI0195|3end_epimerase/reductase_188202..188352_POSITIVE 336 420 372 67 11 pint:PI0307|3end_RNA_polymerase_sigma-70_factor,_ECF_subfamily_290667..290817_POSITIVE 330 495 454 43 2 pint:PI2160|3end_hypothetical_protein_2108357..2108507_POSITIVE 330 420 372 138 97 pint:PI0260|3end_conjugative_transposon_protein,_TraJ_254122..254272_POSITIVE 325 105 63 105 69 pint:PI1884|3end_conserved_hypothetical_protein_1827457..1827607_POSITIVE 325 420 372 106 64 pint:PI0745|3end_conserved_hypothetical_protein_675670..675820_POSITIVE 316 124 91 65 29 pint:PI0199|3end_phosphate_acetyltransferase_190923..191073_POSITIVE 308 115 71 124 87 pint:PI0136|3end_surface_antigen_BspA_128084..128234_POSITIVE 303 633 595 85 47 pint:PI0252|3end_conserved_hypothetical_protein_248383..248533_POSITIVE 302 423 390 74 32 pint:PI0261|3end_conjugative_transposon_protein,_TraK_254765..254915_POSITIVE 296 410 372 89 47 pint:PI1827|3end_peptidase,_M23/M37_family,_N-terminal_1768602..1768752_POSITIVE 288 499 454 72 27 pint:PI0701|3end_hypothetical_protein_638537..638687_POSITIVE 285 496 453 142 99 pint:PI2105|3end_hypothetical_protein_2059586..2059736_POSITIVE 285 496 453 54 11 pint:PI2106|3end_hypothetical_protein_2059498..2059648_POSITIVE