Origin IGS: tgaagcgcacgaagccttgacctttgggttacttttgagtcaagccaaaagtgagagaaaggagattcttcgcttacgctctgaatgacaaaagaccgaacgcagaggaacatccccccttcccccccttcaaaggggggaaaagcgaagcgaagggggaatacaggggactgaaaactgaataacaattaattaaaatatattatattcacattttaattcaaattatc .........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 gataatttgaattaaaatgtgaatataatatattttaattaattgttattcagttttcagtcccctgtattcccccttcgcttcgcttttcccccctttgaagggggggaaggggggatgttcctctgcgttcggtcttttgtcattcagagcgtaagcgaagaatctcctttctctcacttttggcttgactcaaaagtaacccaaaggtcaaggcttcgtgcgcttca Mask Tandem Repeat Region ================================================ tgaagcgcacgaagccttgacctttgggttacttttgagtcaagccaaaagtgagagaaaggagattcttcgcttacgctctgaatgacaaaagaccgaacgcagaggaacatccccccttcccccccttcaaaggggggaaaagcgaagcgaagggggaatacaggggactgaaaactgaataacaattaattaaaatatattatattcacattttaattcaaattatc Find is-nt database================================================ Query_seq: TF0538:TF0540|TF0538:TF0540:hypothetical protein:conserved hypothetical protein; possible surface protein:->->:567196..567425 230 tgaagcgcacgaagccttgacctttgggttacttttgagtcaagccaaaagtgagagaaaggagattcttcgcttacgctctgaatgacaaaagaccgaacgcagaggaacatccccccttcccccccttcaaaggggggaaaagcgaagcgaagggggaatacaggggactgaaaactgaataacaattaattaaaatatattatattcacattttaattcaaattatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0538:TF0540|TF0538:TF0540:hypothetical protein:conserved hypothetical protein; possible surface protein:->->:567196..567425 230 tgaagcgcacgaagccttgacctttgggttacttttgagtcaagccaaaagtgagagaaaggagattcttcgcttacgctctgaatgacaaaagaccgaacgcagaggaacatccccccttcccccccttcaaaggggggaaaagcgaagcgaagggggaatacaggggactgaaaactgaataacaattaattaaaatatattatattcacattttaattcaaattatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0538:TF0540|TF0538:TF0540:hypothetical protein:conserved hypothetical protein; possible surface protein:->->:567196..567425 230 tgaagcgcacgaagccttgacctttgggttacttttgagtcaagccaaaagtgagagaaaggagattcttcgcttacgctctgaatgacaaaagaccgaacgcagaggaacatccccccttcccccccttcaaaggggggaaaagcgaagcgaagggggaatacaggggactgaaaactgaataacaattaattaaaatatattatattcacattttaattcaaattatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgaagcgcacgaagccttgacctttgggttacttttgagtcaagccaaaagtgagagaaaggagattcttcgcttacgctctgaatgacaaaagaccgaacgcagaggaacatccccccttcccccccttcaaaggggggaaaagcgaagcgaagggggaatacaggggactgaaaactgaataacaattaattaaaatatattatattcacattttaattcaaattatc Predict ORF larger than 30AA ================================================ Protein_Len: 44 Strand: + Start: 51 End: 182 .................................................. M R E R R F F A Y A L N D K R P N A E E H P P F P P F K G G K S E A K G E Y R G L K T E ................................................ Protein_Len: 41 Strand: - Start: 77 End: 199 ............................................................................ A R F S L L G F A S S C G G K G G K L P P F L S A F P S Y L P S F V S Y C N I L M ............................... Protein_Len: 60 Strand: - Start: 3 End: 188 .. R L R S R Q T V K S D L W F H S F P S E E S V S Q I V F S R V C L F M G G E G G E F P P F A F R L P F V P S Q F S F L M .......................................... tgaagcgcacgaagccttgacctttgggttacttttgagtcaagccaaaagtgagagaaaggagattcttcgcttacgctctgaatgacaaaagaccgaacgcagaggaacatccccccttcccccccttcaaaggggggaaaagcgaagcgaagggggaatacaggggactgaaaactgaataacaattaattaaaatatattatattcacattttaattcaaattatc 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================================================ tgaagcgcacgaagccttgacctttgggttacttttgagtcaagccaaaagtgagagaaaggagattcttcgcttacgctctgaatgacaaaagaccgaacgcagaggaacatccccccttcccccccttcaaaggggggaaaagcgaagcgaagggggaatacaggggactgaaaactgaataacaattaattaaaatatattatattcacattttaattcaaattatc Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 81 HP_score: -12.3 Tail_Score: -3.21288 Start: 113 End: 149 Full_Region: gtattcccccttcgc ttcgcttttcccccctt tga agggggggaagggggga tgttcctctgcgttc ................................................................................................................ttcgcttttcccccctttgaagggggggaagggggga................................................................................. Find igs database================================================ Query_seq: TF0538:TF0540|TF0538:TF0540:hypothetical protein:conserved hypothetical protein; possible surface protein:->->:567196..567425 230 tgaagcgcacgaagccttgacctttgggttacttttgagtcaagccaaaagtgagagaaaggagattcttcgcttacgctctgaatgacaaaagaccgaacgcagaggaacatccccccttcccccccttcaaaggggggaaaagcgaagcgaagggggaatacaggggactgaaaactgaataacaattaattaaaatatattatattcacattttaattcaaattatc Intra-Species Hit: Count: 4 Min: 1 Max: 230 Len: 230 Subject: tfor_TF0538_TF0540|hypothetical protein:conserved hypothetical protein; possible surface protein|POSITIVE:POSITIVE|[567196,567425]|230 HSP 1 e-value: 1.0E-57 bit: 224.0 Len: 113 Query Start:1 Query End:113 Subject Strand: POSITIVE Subject Start: 1 Subject End: 113 tgaagcgcacgaagccttgacctttgggttacttttgagtcaagccaaaagtgagagaaaggagattcttcgcttacgctctgaatgacaaaagaccgaacgcagaggaacat..................................................................................................................... tgaagcgcacgaagccttgacctttgggttacttttgagtcaagccaaaagtgagagaaaggagattcttcgcttacgctctgaatgacaaaagaccgaacgcagaggaacat..................................................................................................................... HSP 2 e-value: 4.0E-51 bit: 202.0 Len: 102 Query Start:129 Query End:230 Subject Strand: POSITIVE Subject Start: 129 Subject End: 230 ................................................................................................................................ttcaaaggggggaaaagcgaagcgaagggggaatacaggggactgaaaactgaataacaattaattaaaatatattatattcacattttaattcaaattatc ................................................................................................................................ttcaaaggggggaaaagcgaagcgaagggggaatacaggggactgaaaactgaataacaattaattaaaatatattatattcacattttaattcaaattatc Subject: tfor_TF2500_TF2501|ABC transporter, ATP-binding protein:DNA mismatch repair protein|POSITIVE:POSITIVE|[2675363,2676419]|1057 HSP 1 e-value: 5.0E-32 bit: 139.0 Len: 90 Query Start:1 Query End:90 Subject Strand: POSITIVE Subject Start: 660 Subject End: 748 tgaagcgcacgaagccttgacctttgggttacttttgagtcaagccaaaagtgagagaaaggagattcttcgcttacgctctgaatgaca............................................................................................................................................ tgaagcgcacgaagccttgaccttttggttacttttgggtcaagccaaaagtgacag-aaggagattcttcgcttacgctctgaatgaca............................................................................................................................................ HSP 2 e-value: 5.0E-7 bit: 56.0 Len: 32 Query Start:129 Query End:160 Subject Strand: POSITIVE Subject Start: 825 Subject End: 856 ................................................................................................................................ttcaaaggggggaaaagcgaagcgaaggggga...................................................................... ................................................................................................................................ttcaaaggggggaagagcgaagcgaaggggga...................................................................... Subject: tfor_TF2920_TF2921|conserved hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[3117231,3118637]|1407 HSP 1 e-value: 2.0E-19 bit: 97.6 Len: 61 Query Start:1 Query End:61 Subject Strand: NEGATIVE Subject Start: 206 Subject End: 266 tgaagcgcacgaagccttgacctttgggttacttttgagtcaagccaaaagtgagagaaag......................................................................................................................................................................... tgaagcgcacgaagccttgacctttgggttacttttgggtcaagccaaaagtaacagaaag......................................................................................................................................................................... HSP 2 e-value: 4.0E-11 bit: 69.9 Len: 35 Query Start:62 Query End:96 Subject Strand: NEGATIVE Subject Start: 725 Subject End: 759 .............................................................gagattcttcgcttacgctctgaatgacaaaagac...................................................................................................................................... .............................................................gagattcttcgcttacgctctgaatgacaaaagac...................................................................................................................................... HSP 3 e-value: 9.0E-9 bit: 61.9 Len: 31 Query Start:62 Query End:92 Subject Strand: NEGATIVE Subject Start: 410 Subject End: 440 .............................................................gagattcttcgcttacgctctgaatgacaaa.......................................................................................................................................... .............................................................gagattcttcgcttacgctctgaatgacaaa.......................................................................................................................................... HSP 4 e-value: 1.0E-7 bit: 58.0 Len: 37 Query Start:77 Query End:113 Subject Strand: NEGATIVE Subject Start: 167 Subject End: 203 ............................................................................cgctctgaatgacaaaagaccgaacgcagaggaacat..................................................................................................................... ............................................................................cgctctgaatgacaaatgaccgaccgcagaggaacat..................................................................................................................... Subject: tfor_TF1578_TF1579|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1686477,1687028]|552 HSP 1 e-value: 2.0E-9 bit: 63.9 Len: 36 Query Start:57 Query End:92 Subject Strand: NEGATIVE Subject Start: 46 Subject End: 81 ........................................................gaaaggagattcttcgcttacgctctgaatgacaaa.......................................................................................................................................... ........................................................gaaaagagattcttcgcttacgctctgaatgacaaa.......................................................................................................................................... HSP 2 e-value: 2.0E-6 bit: 54.0 Len: 31 Query Start:129 Query End:159 Subject Strand: NEGATIVE Subject Start: 333 Subject End: 363 ................................................................................................................................ttcaaaggggggaaaagcgaagcgaaggggg....................................................................... ................................................................................................................................ttcaaaggggggaagagcgaagcgaaggggg....................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAAGCGCACGAAGCCUUGACCUUUGGGUUACUUUUGAGUCAAGCCAAAAGUGAGAGAAAGGAGAUUCUUCGCUUACGCUCUGAAUGACAAAAGACCGAACGCAGAGGAACAUCCCCCCUUCCCCCCCUUCAAAGGGGGGAAAAGCGAAGCGAAGGGGGAAUACAGGGGACUGAAAACUGAAUAACAAUUAAUUAAAAUAUAUUAUAUUCACAUUUUAAUUCAAAUUAUC ((((..........(((((.((((((.(((.((((((..((((((...((((((.((((......))))))))))..))).)))....))))))....))).))))))......(((((((((((((((....)))))))...........))))))))....)))))...(((((..((((((.....((((........))))))))))..))))).))))....... (-66.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUAAUUUGAAUUAAAAUGUGAAUAUAAUAUAUUUUAAUUAAUUGUUAUUCAGUUUUCAGUCCCCUGUAUUCCCCCUUCGCUUCGCUUUUCCCCCCUUUGAAGGGGGGGAAGGGGGGAUGUUCCUCUGCGUUCGGUCUUUUGUCAUUCAGAGCGUAAGCGAAGAAUCUCCUUUCUCUCACUUUUGGCUUGACUCAAAAGUAACCCAAAGGUCAAGGCUUCGUGCGCUUCA (((((....((((((((((((.......)))))))))))).((((..((.(((......(((((((.(.(((((((((((..................))))))))))).).)))))))......))).)).))))...))))).....((((((..((((((.....(((((.....((((((((......)))))))).....)))))......)))))))))))).. (-67.87) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 905 140 91 228 181 tfor:TF1168|5end_hypothetical_protein_1248755..1248985_POSITIVE 888 159 111 51 5 tfor:TF1167|5end_hypothetical_protein_1248559..1248789_POSITIVE 885 119 71 55 7 tfor:TF1762|5end_hypothetical_protein_1899320..1899550_POSITIVE 879 50 1 157 108 tfor:TF2997|5end_hypothetical_protein_3211408..3211638_POSITIVE 879 50 1 131 82 tfor:TF2996|5end_hypothetical_protein_3210802..3211032_POSITIVE 879 50 1 141 92 tfor:TF1588|5end_hypothetical_protein_1702268..1702498_POSITIVE 803 50 1 157 108 tfor:TF1578|5end_hypothetical_protein_1686187..1686417_POSITIVE 803 50 1 70 21 tfor:TF0685|5end_hypothetical_protein_730852..731082_POSITIVE 762 160 117 51 1 tfor:TF2640|5end_hypothetical_protein_2809106..2809336_POSITIVE 756 50 1 90 39 tfor:TF0469|5end_hypothetical_protein_486960..487190_POSITIVE 756 50 1 59 8 tfor:TF0468|5end_hypothetical_protein_486929..487159_POSITIVE 705 159 124 138 101 tfor:TF0471|5end_conserved_hypothetical_protein_487516..487746_POSITIVE 667 160 115 44 10 tfor:TF2746|5end_hypothetical_protein_2927996..2928226_POSITIVE 662 137 96 231 179 tfor:TF2653|5end_hypothetical_protein_2822093..2822323_POSITIVE 655 119 80 40 1 tfor:TF1761|5end_hypothetical_protein_1899305..1899535_POSITIVE 635 106 61 58 11 tfor:TF0018|5end_hypothetical_protein_11250..11480_POSITIVE 627 98 51 172 125 tfor:TF0017|5end_hypothetical_protein_10504..10734_POSITIVE 609 108 77 71 40 tfor:TF2921|5end_hypothetical_protein_3118498..3118728_POSITIVE 594 90 51 196 157 tfor:TF1579|5end_hypothetical_protein_1686889..1687119_POSITIVE 590 147 102 140 96 tfor:TF0346|5end_hypothetical_protein_367048..367278_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 885 119 71 68 20 tfor:TF1760|3end_guanosine-3',5'-bis(diphosphate)_3'-pyrophosphohydrolase_1899413..1899563_POSITIVE 879 50 1 98 49 tfor:TF2994|3end_hypothetical_protein_3210849..3210999_POSITIVE 803 50 1 124 75 tfor:TF1577|3end_hypothetical_protein_1686234..1686384_POSITIVE 801 50 1 145 96 tfor:TF2668|3end_hypothetical_protein_2842733..2842883_POSITIVE 801 50 1 117 68 tfor:TF2667|3end_hypothetical_protein_2842705..2842855_POSITIVE 801 50 1 117 68 tfor:TF2665|3end_hypothetical_protein_2842235..2842385_POSITIVE 801 50 1 145 96 tfor:TF2666|3end_hypothetical_protein_2842263..2842413_POSITIVE 801 50 1 117 68 tfor:TF2664|3end_hypothetical_protein_2841730..2841880_POSITIVE 761 140 96 75 20 tfor:TF2651|3end_hypothetical_protein_2822014..2822164_POSITIVE 721 90 41 77 29 tfor:TF2639|3end_hypothetical_protein_2809333..2809483_POSITIVE 705 159 124 60 23 tfor:TF0470|3end_hypothetical_protein_487518..487668_POSITIVE 680 156 111 86 42 tfor:TF1588|3end_hypothetical_protein_1702560..1702710_POSITIVE 670 168 122 48 3 tfor:TF1590|3end_hypothetical_protein_1706043..1706193_POSITIVE 669 148 103 51 1 tfor:TF1169|3end_lipoprotein_ABC_transporter,_permease_component_1251573..1251723_POSITIVE 655 150 108 61 15 tfor:TF1592|3end_hypothetical_protein_1708557..1708707_POSITIVE 655 90 41 64 16 tfor:TF1576|3end_hypothetical_protein_1686135..1686285_POSITIVE 644 50 1 68 19 tfor:TF2914|3end_hypothetical_protein_3109643..3109793_POSITIVE 597 92 51 45 4 tfor:TF1578|3end_hypothetical_protein_1686416..1686566_POSITIVE 559 169 128 53 1 tfor:TF0685|3end_hypothetical_protein_731132..731282_POSITIVE 554 170 126 59 10 tfor:TF1167|3end_hypothetical_protein_1248932..1249082_POSITIVE