Origin IGS: tgactgctgaccgctgtaacagccctgaaagggcgagataattcagcccaatgcgaagcgtttgggaaaaaggcatcgcatctcggcgaagggctgtaagcctgacgtaattcaattgttaattgtcaattgttatgcagggtta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaccctgcataacaattgacaattaacaattgaattacgtcaggcttacagcccttcgccgagatgcgatgcctttttcccaaacgcttcgcattgggctgaattatctcgccctttcagggctgttacagcggtcagcagtca Mask Tandem Repeat Region ================================================ tgactgctgaccgctgtaacagccctgaaagggcgagataattcagcccaatgcgaagcgtttgggaaaaaggcatcgcatctcggcgaagggctgtaagcctgacgtaattcaattgttaattgtcaattgttatgcagggtta Find is-nt database================================================ Query_seq: TF1182:TF1184|TF1182:TF1184:hypothetical protein:hypothetical protein:->->:1268999..1269143 145 tgactgctgaccgctgtaacagccctgaaagggcgagataattcagcccaatgcgaagcgtttgggaaaaaggcatcgcatctcggcgaagggctgtaagcctgacgtaattcaattgttaattgtcaattgttatgcagggtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1182:TF1184|TF1182:TF1184:hypothetical protein:hypothetical protein:->->:1268999..1269143 145 tgactgctgaccgctgtaacagccctgaaagggcgagataattcagcccaatgcgaagcgtttgggaaaaaggcatcgcatctcggcgaagggctgtaagcctgacgtaattcaattgttaattgtcaattgttatgcagggtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1182:TF1184|TF1182:TF1184:hypothetical protein:hypothetical protein:->->:1268999..1269143 145 tgactgctgaccgctgtaacagccctgaaagggcgagataattcagcccaatgcgaagcgtttgggaaaaaggcatcgcatctcggcgaagggctgtaagcctgacgtaattcaattgttaattgtcaattgttatgcagggtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgactgctgaccgctgtaacagccctgaaagggcgagataattcagcccaatgcgaagcgtttgggaaaaaggcatcgcatctcggcgaagggctgtaagcctgacgtaattcaattgttaattgtcaattgttatgcagggtta Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 4 End: 96 ... M L T A V T A L K G R D N S A Q C E A F G K K A S H L G E G L ................................................. Protein_Len: 36 Strand: + Start: 38 End: 145 ..................................... M I Q P N A K R L G K R H R I S A K G C K P D V I Q L L I V N C Y A G L Protein_Len: 38 Strand: - Start: 3 End: 116 .. S S V A T V A R F P R S L E A W H S A N P F F A D C R P S P S Y A Q R L E M ............................. Protein_Len: 38 Strand: - Start: 2 End: 115 . V A S R Q L L G S L A L Y N L G I R L T Q S F P M A D R R L A T L R V Y N M .............................. tgactgctgaccgctgtaacagccctgaaagggcgagataattcagcccaatgcgaagcgtttgggaaaaaggcatcgcatctcggcgaagggctgtaagcctgacgtaattcaattgttaattgtcaattgttatgcagggtta 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================================================ tgactgctgaccgctgtaacagccctgaaagggcgagataattcagcccaatgcgaagcgtttgggaaaaaggcatcgcatctcggcgaagggctgtaagcctgacgtaattcaattgttaattgtcaattgttatgcagggtta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 49 HP_score: -3.3 Tail_Score: -3.51161 Start: 42 End: 90 Full_Region: tcaggcttacagccc ttcgccgagatgcgatgccttt ttccc aaacgcttcgcattgggctgaa ttatctcgccctttc .........................................ttcgccgagatgcgatgcctttttcccaaacgcttcgcattgggctgaa....................................................... TransTerm Strand: - Conf: 47 HP_score: -5.2 Tail_Score: -2.63079 Start: 46 End: 87 Full_Region: ggcttacagcccttc gccgagatgcgatgccttt ttccc aaacgcttcgcattgggc tgaattatctcgccc .............................................gccgagatgcgatgcctttttcccaaacgcttcgcattgggc.......................................................... Find igs database================================================ Query_seq: TF1182:TF1184|TF1182:TF1184:hypothetical protein:hypothetical protein:->->:1268999..1269143 145 tgactgctgaccgctgtaacagccctgaaagggcgagataattcagcccaatgcgaagcgtttgggaaaaaggcatcgcatctcggcgaagggctgtaagcctgacgtaattcaattgttaattgtcaattgttatgcagggtta Intra-Species Hit: Count: 11 Min: 1 Max: 145 Len: 145 Subject: tfor_TF1182_TF1184|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1268999,1269143]|145 HSP 1 e-value: 5.0E-77 bit: 287.0 Len: 145 Query Start:1 Query End:145 Subject Strand: POSITIVE Subject Start: 1 Subject End: 145 tgactgctgaccgctgtaacagccctgaaagggcgagataattcagcccaatgcgaagcgtttgggaaaaaggcatcgcatctcggcgaagggctgtaagcctgacgtaattcaattgttaattgtcaattgttatgcagggtta tgactgctgaccgctgtaacagccctgaaagggcgagataattcagcccaatgcgaagcgtttgggaaaaaggcatcgcatctcggcgaagggctgtaagcctgacgtaattcaattgttaattgtcaattgttatgcagggtta Subject: tfor_TF0339_TF0340|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[363808,364032]|225 HSP 1 e-value: 5.0E-37 bit: 155.0 Len: 110 Query Start:1 Query End:110 Subject Strand: NEGATIVE Subject Start: 63 Subject End: 172 tgactgctgaccgctgtaacagccctgaaagggcgagataattcagcccaatgcgaagcgtttgggaaaaaggcatcgcatctcggcgaagggctgtaagcctgacgtaa................................... tgacggctgactgctgtaagagccctgaaagggcgtgttaattcagcccaatgcgaagcgctggggaaaaaggcatcgcgtctcggcgaagggctgtaagcctgacgtaa................................... Subject: tfor_TF0685_TF0686|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[731193,732338]|1146 HSP 1 e-value: 4.0E-31 bit: 135.0 Len: 129 Query Start:5 Query End:133 Subject Strand: NEGATIVE Subject Start: 742 Subject End: 880 ....tgctgaccgctgtaacagccctgaaagggcgagataattcagcccaatg----------cgaagcgtttgggaaaaaggcatcgcatctcggcgaagggctgtaagcctgacgtaattcaattgttaattgtcaattgt............ ....tgctgaccgttgtaacagccctgaaagggcgcattaattcagcccaatgtggagcgcagcgaagcgttgggaaaaaaggcatcgcatctcggcggagggctgtaagcctgacgtaattcaattgttaatggttaattgt............ HSP 2 e-value: 1.0E-6 bit: 54.0 Len: 27 Query Start:112 Query End:138 Subject Strand: NEGATIVE Subject Start: 136 Subject End: 162 ...............................................................................................................tcaattgttaattgtcaattgttatgc....... ...............................................................................................................tcaattgttaattgtcaattgttatgc....... Subject: tfor_TF0029_TF0030|hypothetical protein:N-acetylneuraminate lyase|POSITIVE:POSITIVE|[25123,25909]|787 HSP 1 e-value: 2.0E-27 bit: 123.0 Len: 105 Query Start:6 Query End:110 Subject Strand: POSITIVE Subject Start: 371 Subject End: 476 .....gctgaccgctgtaacagccctgaaagggcgagataattcagcccaatgcgaagcgtttggg-aaaaaggcatcgcatctcggcgaagggctgtaagcctgacgtaa................................... .....gctgactgctgtaaaagccctgaaagggcataataattcagcccaatgcgaagcgttggggaaaaaaagcatcgcatctcggcggagggctgtaagcttgacgtaa................................... Subject: tfor_TF2165_TF2166|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[2341983,2342254]|272 HSP 1 e-value: 7.0E-27 bit: 121.0 Len: 105 Query Start:1 Query End:105 Subject Strand: NEGATIVE Subject Start: 115 Subject End: 219 tgactgctgaccgctgtaacagccctgaaagggcgagataattcagcccaatgcgaagcgtttgggaaaaaggcatcgcatctcggcgaagggctgtaagcctga........................................ tgacggctgaccgctgtaacagctccgcaggggcgcattaattcagcccaatgcgaagcgctggggaaaaaggcatcgcgtctcggcgaagggctgtaagcctga........................................ Subject: tfor_TF2914_TF2915|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[3109704,3110561]|858 HSP 1 e-value: 2.0E-21 bit: 103.0 Len: 131 Query Start:5 Query End:135 Subject Strand: NEGATIVE Subject Start: 328 Subject End: 462 ....tgctgaccgctgtaacagccctgaaagggcgagataattcagcccaatg-----cgaagcgtttgggaaaaaggcatcgcatctcggcgaagggctgtaagcctgacgtaattcaattgttaattgtcaattgtta.......... ....tgctgaccgctgtaaaagccctgaaagggcacgttaattcagcccaatgtgcagcgaagcgttgggaaaacaggcaccccc-ctcggcggagggctgaaagcctgacgtaattcagttgttaattgtcaatggtta.......... Subject: tfor_TF0827_TF0828|conserved hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[886980,887229]|250 HSP 1 e-value: 9.0E-17 bit: 87.7 Len: 60 Query Start:13 Query End:72 Subject Strand: POSITIVE Subject Start: 135 Subject End: 194 ............gctgtaacagccctgaaagggcgagataattcagcccaatgcgaagcgtttgggaaaaag......................................................................... ............gctgtaaaagccctgaaagggcgtaataattcagcccaatgcgaagcgttggggaaaaag......................................................................... HSP 2 e-value: 2.0E-11 bit: 69.9 Len: 39 Query Start:90 Query End:128 Subject Strand: POSITIVE Subject Start: 211 Subject End: 249 .........................................................................................agggctgtaagcctgacgtaattcaattgttaattgtca................. .........................................................................................agggctgaaagcctgacgtaattcaattgttaattgtca................. Subject: tfor_TF2500_TF2501|ABC transporter, ATP-binding protein:DNA mismatch repair protein|POSITIVE:POSITIVE|[2675363,2676419]|1057 HSP 1 e-value: 6.0E-15 bit: 81.8 Len: 57 Query Start:82 Query End:138 Subject Strand: POSITIVE Subject Start: 281 Subject End: 337 .................................................................................ctcggcgaagggctgtaagcctgacgtaattcaattgttaattgtcaattgttatgc....... .................................................................................ctcggcggagggatgaaagcctgacgtaattcagttgttaattgtcaattgttatgc....... HSP 2 e-value: 2.0E-8 bit: 60.0 Len: 50 Query Start:5 Query End:54 Subject Strand: POSITIVE Subject Start: 196 Subject End: 245 ....tgctgaccgctgtaacagccctgaaagggcgagataattcagcccaatgc........................................................................................... ....tgctgaccgttgtaaaagccctgaaagggcgcattaattcagcccaatgc........................................................................................... Subject: tfor_TF0467_TF0468|acetyltransferase-related protein:hypothetical protein|POSITIVE:POSITIVE|[486604,487068]|465 HSP 1 e-value: 9.0E-14 bit: 77.8 Len: 58 Query Start:53 Query End:110 Subject Strand: NEGATIVE Subject Start: 91 Subject End: 149 ....................................................gcgaagcgtttgggaaaaaggcatcgcatctcggcgaagggctg-taagcctgacgtaa................................... ....................................................gcgaagcgttggggaaaaaggcatcgcatctcggcggagggctgaaaagcctgacgtaa................................... HSP 2 e-value: 5.0E-9 bit: 61.9 Len: 43 Query Start:18 Query End:60 Subject Strand: NEGATIVE Subject Start: 335 Subject End: 377 .................aacagccctgaaagggcgagataattcagcccaatgcgaagcg..................................................................................... .................aacagccctgaaagggcgtaataattcagcccaatgcgtagcg..................................................................................... HSP 3 e-value: 8.0E-8 bit: 58.0 Len: 29 Query Start:108 Query End:136 Subject Strand: POSITIVE Subject Start: 228 Subject End: 256 ...........................................................................................................taattcaattgttaattgtcaattgttat......... ...........................................................................................................taattcaattgttaattgtcaattgttat......... Subject: tfor_TF0018_TF0019|hypothetical protein:heat shock protein ClpB|POSITIVE:POSITIVE|[12152,12589]|438 HSP 1 e-value: 3.0E-10 bit: 65.9 Len: 49 Query Start:5 Query End:53 Subject Strand: NEGATIVE Subject Start: 101 Subject End: 149 ....tgctgaccgctgtaacagccctgaaagggcgagataattcagcccaatg............................................................................................ ....tgctgaccgttgtaacagccctgaaagggcgcattaattcagcccaatg............................................................................................ HSP 2 e-value: 2.0E-8 bit: 60.0 Len: 46 Query Start:90 Query End:135 Subject Strand: NEGATIVE Subject Start: 8 Subject End: 53 .........................................................................................agggctgtaagcctgacgtaattcaattgttaattgtcaattgtta.......... .........................................................................................agggctgaaagcctgacgtaattcagttgttaatggtcaatggtta.......... Subject: tfor_TF1762_TF1763|hypothetical protein:K+-dependent Na+/Ca+ exchanger related-protein|POSITIVE:POSITIVE|[1899709,1900545]|837 HSP 1 e-value: 1.0E-9 bit: 63.9 Len: 48 Query Start:6 Query End:53 Subject Strand: NEGATIVE Subject Start: 76 Subject End: 123 .....gctgaccgctgtaacagccctgaaagggcgagataattcagcccaatg............................................................................................ .....gctgcccgctgtaaaagccctgaaagggcgcgttaattcagcccaatg............................................................................................ HSP 2 e-value: 5.0E-6 bit: 52.0 Len: 34 Query Start:82 Query End:115 Subject Strand: NEGATIVE Subject Start: 1 Subject End: 34 .................................................................................ctcggcgaagggctgtaagcctgacgtaattcaa.............................. .................................................................................ctcggcggagggctgaaagcctgacgtaattcaa.............................. Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGACUGCUGACCGCUGUAACAGCCCUGAAAGGGCGAGAUAAUUCAGCCCAAUGCGAAGCGUUUGGGAAAAAGGCAUCGCAUCUCGGCGAAGGGCUGUAAGCCUGACGUAAUUCAAUUGUUAAUUGUCAAUUGUUAUGCAGGGUUA ...((((((((.(((...((((((((....((((..((....)).)))).((((((.((.(((.....))).)).))))))........)))))))).))).((((.((((......))))...))))...)))).))))..... (-50.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACCCUGCAUAACAAUUGACAAUUAACAAUUGAAUUACGUCAGGCUUACAGCCCUUCGCCGAGAUGCGAUGCCUUUUUCCCAAACGCUUCGCAUUGGGCUGAAUUAUCUCGCCCUUUCAGGGCUGUUACAGCGGUCAGCAGUCA .....((((....((((((........))))))......(.(..(((.((((((((.......(((((((.((.(((.....))).)).)))))))((((.((......))))))....))))))))...))).).).))))... (-44.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 908 70 21 126 76 tfor:TF1274|5end_hypothetical_protein_1357621..1357851_POSITIVE 905 100 53 84 37 tfor:TF2640|5end_hypothetical_protein_2809106..2809336_POSITIVE 848 87 41 231 185 tfor:TF2166|5end_hypothetical_protein_2342115..2342345_POSITIVE 848 87 41 231 185 tfor:TF0340|5end_hypothetical_protein_363893..364123_POSITIVE 829 70 21 214 165 tfor:TF0346|5end_hypothetical_protein_367048..367278_POSITIVE 828 78 31 231 184 tfor:TF1516|5end_transposase_fragment_1626407..1626637_POSITIVE 826 100 51 219 170 tfor:TF2641|5end_riboflavin_kinase/FAD_synthase_2809681..2809911_POSITIVE 788 60 12 226 178 tfor:TF2351|5end_acetate_kinase_2515480..2515710_POSITIVE 748 60 13 227 175 tfor:TF2439|5end_conserved_hypothetical_protein_2616380..2616610_POSITIVE 742 100 51 182 134 tfor:TF0499|5end_hypothetical_protein_526257..526487_POSITIVE 733 60 18 222 180 tfor:TF0468|5end_hypothetical_protein_486929..487159_POSITIVE 716 60 11 209 155 tfor:TF2171|5end_hypothetical_protein_2345485..2345715_POSITIVE 688 62 21 230 189 tfor:TF1175|5end_membrane-fusion_protein_1258140..1258370_POSITIVE 671 50 1 230 179 tfor:TF2202|5end_hypothetical_protein_2378682..2378912_POSITIVE 656 60 13 215 163 tfor:TF2172|5end_hypothetical_protein_2345822..2346052_POSITIVE 656 60 13 209 157 tfor:TF2173|5end_hypothetical_protein_2345816..2346046_POSITIVE 652 50 1 194 145 tfor:TF0366|5end_hypothetical_protein_383564..383794_POSITIVE 652 50 1 194 145 tfor:TF0362|5end_hypothetical_protein_379952..380182_POSITIVE 626 59 11 141 88 tfor:TF0350|5end_hypothetical_protein_370794..371024_POSITIVE 553 70 21 160 101 tfor:TF2127|5end_hypothetical_protein_2304038..2304268_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 941 88 41 137 90 tfor:TF2025|3end_hypothetical_protein_2182180..2182330_POSITIVE 810 70 22 49 1 tfor:TF0344|3end_hypothetical_protein_366963..367113_POSITIVE 785 69 22 47 1 tfor:TF1585|3end_hypothetical_protein_1690610..1690760_POSITIVE 772 69 21 125 77 tfor:TF1592|3end_hypothetical_protein_1708557..1708707_POSITIVE 766 70 21 125 77 tfor:TF1590|3end_hypothetical_protein_1706043..1706193_POSITIVE 760 60 13 147 100 tfor:TF1588|3end_hypothetical_protein_1702560..1702710_POSITIVE 689 130 81 105 52 tfor:TF1762|3end_hypothetical_protein_1899648..1899798_POSITIVE 677 70 21 60 2 tfor:TF0958|3end_conserved_hypothetical_protein_1004909..1005059_POSITIVE 669 75 31 47 3 tfor:TF1584|3end_hypothetical_protein_1690603..1690753_POSITIVE 656 60 13 105 53 tfor:TF2171|3end_hypothetical_protein_2345792..2345942_POSITIVE 635 100 53 66 19 tfor:TF2922|3end_surface_antigen_BspA_3121538..3121688_POSITIVE 626 110 62 58 8 tfor:TF0018|3end_hypothetical_protein_12091..12241_POSITIVE 621 119 83 35 1 tfor:TF0339|3end_hypothetical_protein_363747..363897_POSITIVE 600 75 31 44 1 tfor:TF2350|3end_hypothetical_protein_2515364..2515514_POSITIVE 513 136 91 49 6 tfor:TF0724|3end_possible_transcriptional_regulator_776333..776483_POSITIVE 512 138 95 44 1 tfor:TF1761|3end_hypothetical_protein_1899579..1899729_POSITIVE 506 105 62 48 4 tfor:TF2169|3end_hypothetical_protein_2345354..2345504_POSITIVE 504 70 21 74 24 tfor:TF2342|3end_glutathione_peroxidase_2506639..2506789_POSITIVE 504 105 63 41 1 tfor:TF0343|3end_hypothetical_protein_366923..367073_POSITIVE 497 119 82 35 1 tfor:TF2047|3end_hypothetical_protein_2210298..2210448_POSITIVE