Origin IGS: tagagctatctaatttttaggaatttaagtgtagtaacgacgtgtgaagcgcacgtagccttgacctttgggttactttggggtcaagccaaaagtgacagaaaaagattcatcgctgacgctctgaatgacaaaagacaatgcaacacctcaacaattaaacaccttaacaaaaaacaatcactaattcaggcttgcagccctcttatcgggggtgcatcctttttcccaacactttgcttcttttacagcgttcagtagtcagccaacgatcaaacaactcaatatttcagccctatcccgtaagggtggggtatccatgcctataccttgtttaaggggctgtaagcctgaattaaataaatggttaatggttgtgcgtggtacacacgaatcatgtacccggcatgacaatcaacaacagacaactatacattta .........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 taaatgtatagttgtctgttgttgattgtcatgccgggtacatgattcgtgtgtaccacgcacaaccattaaccatttatttaattcaggcttacagccccttaaacaaggtataggcatggataccccacccttacgggatagggctgaaatattgagttgtttgatcgttggctgactactgaacgctgtaaaagaagcaaagtgttgggaaaaaggatgcacccccgataagagggctgcaagcctgaattagtgattgttttttgttaaggtgtttaattgttgaggtgttgcattgtcttttgtcattcagagcgtcagcgatgaatctttttctgtcacttttggcttgaccccaaagtaacccaaaggtcaaggctacgtgcgcttcacacgtcgttactacacttaaattcctaaaaattagatagctcta Mask Tandem Repeat Region ================================================ tagagctatctaatttttaggaatttaagtgtagtaacgacgtgtgaagcgcacgtagccttgacctttgggttactttggggtcaagccaaaagtgacagaaaaagattcatcgctgacgctctgaatgacaaaagacaatgcaacacctcaacaattaaacaccttaacaaaaaacaatcactaattcaggcttgcagccctcttatcgggggtgcatcctttttcccaacactttgcttcttttacagcgttcagtagtcagccaacgatcaaacaactcaatatttcagccctatcccgtaagggtggggtatccatgcctataccttgtttaaggggctgtaagcctgaattaaataaatggttaatggttgtgcgtggtacacacgaatcatgtacccggcatgacaatcaacaacagacaactatacattta Find is-nt database================================================ Query_seq: TF2795:TF2796|TF2795:TF2796:hypothetical protein:cytochrome D ubiquinol oxidase, subunit II:->->:2980970..2981408 439 tagagctatctaatttttaggaatttaagtgtagtaacgacgtgtgaagcgcacgtagccttgacctttgggttactttggggtcaagccaaaagtgacagaaaaagattcatcgctgacgctctgaatgacaaaagacaatgcaacacctcaacaattaaacaccttaacaaaaaacaatcactaattcaggcttgcagccctcttatcgggggtgcatcctttttcccaacactttgcttcttttacagcgttcagtagtcagccaacgatcaaacaactcaatatttcagccctatcccgtaagggtggggtatccatgcctataccttgtttaaggggctgtaagcctgaattaaataaatggttaatggttgtgcgtggtacacacgaatcatgtacccggcatgacaatcaacaacagacaactatacattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2795:TF2796|TF2795:TF2796:hypothetical protein:cytochrome D ubiquinol oxidase, subunit II:->->:2980970..2981408 439 tagagctatctaatttttaggaatttaagtgtagtaacgacgtgtgaagcgcacgtagccttgacctttgggttactttggggtcaagccaaaagtgacagaaaaagattcatcgctgacgctctgaatgacaaaagacaatgcaacacctcaacaattaaacaccttaacaaaaaacaatcactaattcaggcttgcagccctcttatcgggggtgcatcctttttcccaacactttgcttcttttacagcgttcagtagtcagccaacgatcaaacaactcaatatttcagccctatcccgtaagggtggggtatccatgcctataccttgtttaaggggctgtaagcctgaattaaataaatggttaatggttgtgcgtggtacacacgaatcatgtacccggcatgacaatcaacaacagacaactatacattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2795:TF2796|TF2795:TF2796:hypothetical protein:cytochrome D ubiquinol oxidase, subunit II:->->:2980970..2981408 439 tagagctatctaatttttaggaatttaagtgtagtaacgacgtgtgaagcgcacgtagccttgacctttgggttactttggggtcaagccaaaagtgacagaaaaagattcatcgctgacgctctgaatgacaaaagacaatgcaacacctcaacaattaaacaccttaacaaaaaacaatcactaattcaggcttgcagccctcttatcgggggtgcatcctttttcccaacactttgcttcttttacagcgttcagtagtcagccaacgatcaaacaactcaatatttcagccctatcccgtaagggtggggtatccatgcctataccttgtttaaggggctgtaagcctgaattaaataaatggttaatggttgtgcgtggtacacacgaatcatgtacccggcatgacaatcaacaacagacaactatacattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagagctatctaatttttaggaatttaagtgtagtaacgacgtgtgaagcgcacgtagccttgacctttgggttactttggggtcaagccaaaagtgacagaaaaagattcatcgctgacgctctgaatgacaaaagacaatgcaacacctcaacaattaaacaccttaacaaaaaacaatcactaattcaggcttgcagccctcttatcgggggtgcatcctttttcccaacactttgcttcttttacagcgttcagtagtcagccaacgatcaaacaactcaatatttcagccctatcccgtaagggtggggtatccatgcctataccttgtttaaggggctgtaagcctgaattaaataaatggttaatggttgtgcgtggtacacacgaatcatgtacccggcatgacaatcaacaacagacaactatacattta Predict ORF larger than 30AA ================================================ Protein_Len: 60 Strand: + Start: 13 End: 258 ............ M F R N L S V V T T C E A H V A L T F G L L W G Q A K S D R K R F I A D A L N D K R Q C N T S T I K H L N K K Q S L I Q ..................................................................................................................................................................................... Protein_Len: 52 Strand: + Start: 180 End: 335 ................................................................................................................................................................................... M T N S G L Q P S Y R G C I L F P N T L L L L Q R S V V S Q R S N N S I F Q P Y P V R V G Y P C L Y L V ........................................................................................................ Protein_Len: 60 Strand: + Start: 215 End: 439 ...................................................................................................................................................................................................................... M H P F S Q H F A S F T A F S S Q P T I K Q L N I S A L S R K G G V S M P I P C L R G C K P E L N K W L M V V R G T H E Protein_Len: 34 Strand: - Start: 327 End: 428 ...................................................................................................................................................................................................................................................................................................................................... V K N L P S Y A Q I L Y I T L P Q A H Y V R I M Y G A H C D V V S M ........... Protein_Len: 50 Strand: - Start: 265 End: 414 ........................................................................................................................................................................................................................................................................ G V I L C S L I E A R D R L P P T D M G I G Q K L P Q L G S N F L H N I T T R P V C S D H V R C S M ......................... Protein_Len: 34 Strand: - Start: 87 End: 188 ...................................................................................... A L L S L F L N M A S A R F S L L C H L V E V I L C R L L F C D S M ........................................................................................................................................................................................................................................................... Protein_Len: 30 Strand: - Start: 20 End: 109 ................... S N L H L L S T H L A R L R S R Q T V K P D L W F H C F F M .......................................................................................................................................................................................................................................................................................................................................... tagagctatctaatttttaggaatttaagtgtagtaacgacgtgtgaagcgcacgtagccttgacctttgggttactttggggtcaagccaaaagtgacagaaaaagattcatcgctgacgctctgaatgacaaaagacaatgcaacacctcaacaattaaacaccttaacaaaaaacaatcactaattcaggcttgcagccctcttatcgggggtgcatcctttttcccaacactttgcttcttttacagcgttcagtagtcagccaacgatcaaacaactcaatatttcagccctatcccgtaagggtggggtatccatgcctataccttgtttaaggggctgtaagcctgaattaaataaatggttaatggttgtgcgtggtacacacgaatcatgtacccggcatgacaatcaacaacagacaactatacattta Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tagagctatctaatttttaggaatttaagtgtagtaacgacgtgtgaagcgcacgtagccttgacctttgggttactttggggtcaagccaaaagtgacagaaaaagattcatcgctgacgctctgaatgacaaaagacaatgcaacacctcaacaattaaacaccttaacaaaaaacaatcactaattcaggcttgcagccctcttatcgggggtgcatcctttttcccaacactttgcttcttttacagcgttcagtagtcagccaacgatcaaacaactcaatatttcagccctatcccgtaagggtggggtatccatgcctataccttgtttaaggggctgtaagcctgaattaaataaatggttaatggttgtgcgtggtacacacgaatcatgtacccggcatgacaatcaacaacagacaactatacattta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2795:TF2796|TF2795:TF2796:hypothetical protein:cytochrome D ubiquinol oxidase, subunit II:->->:2980970..2981408 439 tagagctatctaatttttaggaatttaagtgtagtaacgacgtgtgaagcgcacgtagccttgacctttgggttactttggggtcaagccaaaagtgacagaaaaagattcatcgctgacgctctgaatgacaaaagacaatgcaacacctcaacaattaaacaccttaacaaaaaacaatcactaattcaggcttgcagccctcttatcgggggtgcatcctttttcccaacactttgcttcttttacagcgttcagtagtcagccaacgatcaaacaactcaatatttcagccctatcccgtaagggtggggtatccatgcctataccttgtttaaggggctgtaagcctgaattaaataaatggttaatggttgtgcgtggtacacacgaatcatgtacccggcatgacaatcaacaacagacaactatacattta Intra-Species Hit: Count: 2 Min: 1 Max: 439 Len: 439 Subject: tfor_TF2795_TF2796|hypothetical protein:cytochrome D ubiquinol oxidase, subunit II|POSITIVE:POSITIVE|[2980970,2981408]|439 HSP 1 e-value: 0.0 bit: 870.0 Len: 439 Query Start:1 Query End:439 Subject Strand: POSITIVE Subject Start: 1 Subject End: 439 tagagctatctaatttttaggaatttaagtgtagtaacgacgtgtgaagcgcacgtagccttgacctttgggttactttggggtcaagccaaaagtgacagaaaaagattcatcgctgacgctctgaatgacaaaagacaatgcaacacctcaacaattaaacaccttaacaaaaaacaatcactaattcaggcttgcagccctcttatcgggggtgcatcctttttcccaacactttgcttcttttacagcgttcagtagtcagccaacgatcaaacaactcaatatttcagccctatcccgtaagggtggggtatccatgcctataccttgtttaaggggctgtaagcctgaattaaataaatggttaatggttgtgcgtggtacacacgaatcatgtacccggcatgacaatcaacaacagacaactatacattta tagagctatctaatttttaggaatttaagtgtagtaacgacgtgtgaagcgcacgtagccttgacctttgggttactttggggtcaagccaaaagtgacagaaaaagattcatcgctgacgctctgaatgacaaaagacaatgcaacacctcaacaattaaacaccttaacaaaaaacaatcactaattcaggcttgcagccctcttatcgggggtgcatcctttttcccaacactttgcttcttttacagcgttcagtagtcagccaacgatcaaacaactcaatatttcagccctatcccgtaagggtggggtatccatgcctataccttgtttaaggggctgtaagcctgaattaaataaatggttaatggttgtgcgtggtacacacgaatcatgtacccggcatgacaatcaacaacagacaactatacattta Subject: tfor_TF0677_TF0678|ATP-binding protein, Mrp/Nbp35 family, involved in chromosome partitioning:hypothetical protein|POSITIVE:POSITIVE|[721043,721242]|200 HSP 1 e-value: 2.0E-8 bit: 61.9 Len: 46 Query Start:363 Query End:408 Subject Strand: POSITIVE Subject Start: 143 Subject End: 189 ..........................................................................................................................................................................................................................................................................................................................................................................aatggttaatggttgtgcgtggtacac-acgaatcatgtacccggca............................... ..........................................................................................................................................................................................................................................................................................................................................................................aatggttaatggttatgcgtggtacacgccgaatcatgtacccggca............................... HSP 2 e-value: 3.0E-7 bit: 58.0 Len: 33 Query Start:286 Query End:318 Subject Strand: NEGATIVE Subject Start: 85 Subject End: 117 .............................................................................................................................................................................................................................................................................................tatttcagccctatcccgtaagggtggggtatc......................................................................................................................... .............................................................................................................................................................................................................................................................................................tatttcagccctatcccgcaagggtggggtatc......................................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGAGCUAUCUAAUUUUUAGGAAUUUAAGUGUAGUAACGACGUGUGAAGCGCACGUAGCCUUGACCUUUGGGUUACUUUGGGGUCAAGCCAAAAGUGACAGAAAAAGAUUCAUCGCUGACGCUCUGAAUGACAAAAGACAAUGCAACACCUCAACAAUUAAACACCUUAACAAAAAACAAUCACUAAUUCAGGCUUGCAGCCCUCUUAUCGGGGGUGCAUCCUUUUUCCCAACACUUUGCUUCUUUUACAGCGUUCAGUAGUCAGCCAACGAUCAAACAACUCAAUAUUUCAGCCCUAUCCCGUAAGGGUGGGGUAUCCAUGCCUAUACCUUGUUUAAGGGGCUGUAAGCCUGAAUUAAAUAAAUGGUUAAUGGUUGUGCGUGGUACACACGAAUCAUGUACCCGGCAUGACAAUCAACAACAGACAACUAUACAUUUA ((((....))))................(((((((.....((((((..(((((((..(((((((((.(((.((((((((..((.....)).))))))))........(((((..((....))..)))))..)))..................................................(((((((((((((((((((.((((.(((((..((((.............(((.((((........))))...))).................................((((((.(((....)))))))))....)))).....)))))..))))))))))))))))))))))).......)))))).))))))))))....))))))..((((((.....))))))................)))))))..... (-126.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAUGUAUAGUUGUCUGUUGUUGAUUGUCAUGCCGGGUACAUGAUUCGUGUGUACCACGCACAACCAUUAACCAUUUAUUUAAUUCAGGCUUACAGCCCCUUAAACAAGGUAUAGGCAUGGAUACCCCACCCUUACGGGAUAGGGCUGAAAUAUUGAGUUGUUUGAUCGUUGGCUGACUACUGAACGCUGUAAAAGAAGCAAAGUGUUGGGAAAAAGGAUGCACCCCCGAUAAGAGGGCUGCAAGCCUGAAUUAGUGAUUGUUUUUUGUUAAGGUGUUUAAUUGUUGAGGUGUUGCAUUGUCUUUUGUCAUUCAGAGCGUCAGCGAUGAAUCUUUUUCUGUCACUUUUGGCUUGACCCCAAAGUAACCCAAAGGUCAAGGCUACGUGCGCUUCACACGUCGUUACUACACUUAAAUUCCUAAAAAUUAGAUAGCUCUA .........(((((((((..((((((.((..(((..(((((((.......)))))))..)))..)).)))))).......(((((((((((((.((((((((((.....(((((........))))).........((((....(((..(...((..((...))..))..)..))).....((.((((((.............)))))).))..............)))).)))).)))))).))))))))))))).....((((((.(((.((((((.(((((((((((((((.((.(((.((((((..(((((..((....))..)))))........((.(((((.((......)).))))).)).)))))).))).)).....)))))))).)))..))))..)))))).)))....)))))))))))))))... (-123.42) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 914 90 41 153 104 tfor:TF2997|5end_hypothetical_protein_3211408..3211638_POSITIVE 914 90 41 127 78 tfor:TF2996|5end_hypothetical_protein_3210802..3211032_POSITIVE 914 90 41 137 88 tfor:TF1588|5end_hypothetical_protein_1702268..1702498_POSITIVE 860 130 81 193 144 tfor:TF1578|5end_hypothetical_protein_1686187..1686417_POSITIVE 838 90 41 66 17 tfor:TF0685|5end_hypothetical_protein_730852..731082_POSITIVE 834 90 41 86 37 tfor:TF0469|5end_hypothetical_protein_486960..487190_POSITIVE 834 90 41 55 6 tfor:TF0468|5end_hypothetical_protein_486929..487159_POSITIVE 804 90 42 137 89 tfor:TF1168|5end_hypothetical_protein_1248755..1248985_POSITIVE 793 408 363 165 119 tfor:TF2202|5end_hypothetical_protein_2378682..2378912_POSITIVE 766 329 285 63 20 tfor:TF2840|5end_hypothetical_protein_3031060..3031290_POSITIVE 718 419 371 169 120 tfor:TF1516|5end_transposase_fragment_1626407..1626637_POSITIVE 713 240 191 189 141 tfor:TF2036|5end_possible_pyruvate_formate-lyase_activating_enzyme_2196302..2196532_POSITIVE 713 340 291 230 180 tfor:TF0678|5end_hypothetical_protein_721103..721333_POSITIVE 651 324 281 228 182 tfor:TF0822|5end_hypothetical_protein_880487..880717_POSITIVE 651 324 281 228 182 tfor:TF0821|5end_hypothetical_protein_879879..880109_POSITIVE 642 240 191 84 35 tfor:TF2191|5end_hypothetical_protein_2365934..2366164_POSITIVE 642 240 191 219 170 tfor:TF0823|5end_conserved_hypothetical_protein_880660..880890_POSITIVE 642 240 191 73 24 tfor:TF0679|5end_hypothetical_protein_721155..721385_POSITIVE 601 240 191 184 134 tfor:TF1184|5end_hypothetical_protein_1269004..1269234_POSITIVE 600 410 363 157 109 tfor:TF2994|5end_hypothetical_protein_3210605..3210835_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 914 90 41 94 45 tfor:TF2994|3end_hypothetical_protein_3210849..3210999_POSITIVE 860 130 81 61 12 tfor:TF1576|3end_hypothetical_protein_1686135..1686285_POSITIVE 838 90 41 120 71 tfor:TF1577|3end_hypothetical_protein_1686234..1686384_POSITIVE 802 90 42 141 93 tfor:TF2668|3end_hypothetical_protein_2842733..2842883_POSITIVE 802 90 42 113 65 tfor:TF2667|3end_hypothetical_protein_2842705..2842855_POSITIVE 802 90 42 113 65 tfor:TF2665|3end_hypothetical_protein_2842235..2842385_POSITIVE 802 90 42 141 93 tfor:TF2666|3end_hypothetical_protein_2842263..2842413_POSITIVE 802 90 42 113 65 tfor:TF2664|3end_hypothetical_protein_2841730..2841880_POSITIVE 761 408 363 101 55 tfor:TF3003|3end_hypothetical_protein_3220629..3220779_POSITIVE 693 100 51 74 25 tfor:TF2914|3end_hypothetical_protein_3109643..3109793_POSITIVE 662 130 81 74 25 tfor:TF2639|3end_hypothetical_protein_2809333..2809483_POSITIVE 598 240 191 134 84 tfor:TF3106|3end_hypothetical_protein_3338608..3338758_POSITIVE 598 240 191 76 26 tfor:TF1185|3end_hypothetical_protein_1269563..1269713_POSITIVE 541 240 191 114 64 tfor:TF2547|3end_hypothetical_protein_2730947..2731097_POSITIVE 519 108 66 41 1 tfor:TF2998|3end_surface_antigen_BspA_3215151..3215301_POSITIVE 506 400 351 93 34 tfor:TF1578|3end_hypothetical_protein_1686416..1686566_POSITIVE 505 389 341 122 67 tfor:TF1762|3end_hypothetical_protein_1899648..1899798_POSITIVE 501 138 93 80 36 tfor:TF1583|3end_conserved_hypothetical_protein;_possible_endonuclease_1690223..1690373_POSITIVE 496 138 101 38 2 tfor:TF1591|3end_surface_antigen_BspA_1708266..1708416_POSITIVE 484 144 101 120 74 tfor:TF1582|3end_hypothetical_protein_1690506..1690656_POSITIVE