Origin IGS: tgaggaacaaggaatcgtccgaaaagatgatttcatccccctgattccccgttttgtacaaaaagatacgaaacggggaatattttaagataaaaatttggtcacttccgtatttcttctttcctttgcccccgtaaaaaaaataaaacgtatcattctaaaaaattcgaattgcctattgcatagacattactctgaaatcaatctttaggacgta .........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 tacgtcctaaagattgatttcagagtaatgtctatgcaataggcaattcgaattttttagaatgatacgttttattttttttacgggggcaaaggaaagaagaaatacggaagtgaccaaatttttatcttaaaatattccccgtttcgtatctttttgtacaaaacggggaatcagggggatgaaatcatcttttcggacgattccttgttcctca Mask Tandem Repeat Region ================================================ tgaggaacaaggaatcgtccgaaaagatgatttcatccccctgattccccgttttgtacaaaaagatacgaaacggggaatattttaagataaaaatttggtcacttccgtatttcttctttcctttgcccccgtaaaaaaaataaaacgtatcattctaaaaaattcgaattgcctattgcatagacattactctgaaatcaatctttaggacgta Find is-nt database================================================ Query_seq: TF1444:TF1445|TF1444:TF1445:conserved hypothetical protein; possible hemin receptor:RNA polymerase sigma factor:->->:1529971..1530187 217 tgaggaacaaggaatcgtccgaaaagatgatttcatccccctgattccccgttttgtacaaaaagatacgaaacggggaatattttaagataaaaatttggtcacttccgtatttcttctttcctttgcccccgtaaaaaaaataaaacgtatcattctaaaaaattcgaattgcctattgcatagacattactctgaaatcaatctttaggacgta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1444:TF1445|TF1444:TF1445:conserved hypothetical protein; possible hemin receptor:RNA polymerase sigma factor:->->:1529971..1530187 217 tgaggaacaaggaatcgtccgaaaagatgatttcatccccctgattccccgttttgtacaaaaagatacgaaacggggaatattttaagataaaaatttggtcacttccgtatttcttctttcctttgcccccgtaaaaaaaataaaacgtatcattctaaaaaattcgaattgcctattgcatagacattactctgaaatcaatctttaggacgta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1444:TF1445|TF1444:TF1445:conserved hypothetical protein; possible hemin receptor:RNA polymerase sigma factor:->->:1529971..1530187 217 tgaggaacaaggaatcgtccgaaaagatgatttcatccccctgattccccgttttgtacaaaaagatacgaaacggggaatattttaagataaaaatttggtcacttccgtatttcttctttcctttgcccccgtaaaaaaaataaaacgtatcattctaaaaaattcgaattgcctattgcatagacattactctgaaatcaatctttaggacgta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgaggaacaaggaatcgtccgaaaagatgatttcatccccctgattccccgttttgtacaaaaagatacgaaacggggaatattttaagataaaaatttggtcacttccgtatttcttctttcctttgcccccgtaaaaaaaataaaacgtatcattctaaaaaattcgaattgcctattgcatagacattactctgaaatcaatctttaggacgta Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: + Start: 98 End: 208 ................................................................................................. M V T S V F L L S F A P V K K I K R I I L K N S N C L L H R H Y S E I N L ......... Protein_Len: 32 Strand: - Start: 2 End: 97 . L F L S D D S F I I E D G Q N G T K Y L F I R F P S Y K L I F M ........................................................................................................................ tgaggaacaaggaatcgtccgaaaagatgatttcatccccctgattccccgttttgtacaaaaagatacgaaacggggaatattttaagataaaaatttggtcacttccgtatttcttctttcctttgcccccgtaaaaaaaataaaacgtatcattctaaaaaattcgaattgcctattgcatagacattactctgaaatcaatctttaggacgta 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================================================ tgaggaacaaggaatcgtccgaaaagatgatttcatccccctgattccccgttttgtacaaaaagatacgaaacggggaatattttaagataaaaatttggtcacttccgtatttcttctttcctttgcccccgtaaaaaaaataaaacgtatcattctaaaaaattcgaattgcctattgcatagacattactctgaaatcaatctttaggacgta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -10.2 Tail_Score: -4.13945 Start: 43 End: 82 Full_Region: TGATTTCATCCCCCT GATTCCCCGTTTTGTA CAAAAAGA TACGAAACGGGGAATA TTTTAAGATAAAAAT ..........................................GATTCCCCGTTTTGTACAAAAAGATACGAAACGGGGAATA....................................................................................................................................... TransTerm Strand: + Conf: 95 HP_score: -12.8 Tail_Score: -3.6692 Start: 45 End: 80 Full_Region: ATTTCATCCCCCTGA TTCCCCGTTTTGTA CAAAAAGA TACGAAACGGGGAA TATTTTAAGATAAAA ............................................TTCCCCGTTTTGTACAAAAAGATACGAAACGGGGAA......................................................................................................................................... TransTerm Strand: - Conf: 78 HP_score: -2.3 Tail_Score: -5.75342 Start: 144 End: 160 Full_Region: gcaattcgaattttt tagaatg ata cgtttta ttttttttacggggg ...............................................................................................................................................tagaatgatacgtttta......................................................... Find igs database================================================ Query_seq: TF1444:TF1445|TF1444:TF1445:conserved hypothetical protein; possible hemin receptor:RNA polymerase sigma factor:->->:1529971..1530187 217 tgaggaacaaggaatcgtccgaaaagatgatttcatccccctgattccccgttttgtacaaaaagatacgaaacggggaatattttaagataaaaatttggtcacttccgtatttcttctttcctttgcccccgtaaaaaaaataaaacgtatcattctaaaaaattcgaattgcctattgcatagacattactctgaaatcaatctttaggacgta Intra-Species Hit: Count: 1 Min: 1 Max: 217 Len: 217 Subject: tfor_TF1444_TF1445|conserved hypothetical protein; possible hemin receptor:RNA polymerase sigma factor|POSITIVE:POSITIVE|[1529971,1530187]|217 HSP 1 e-value: 1.0E-105 bit: 383.0 Len: 217 Query Start:1 Query End:217 Subject Strand: POSITIVE Subject Start: 1 Subject End: 217 tgaggaacaaggaatcgtccgaaaagatgatttcatccccctgattccccgttttgtacaaaaagatacgaaacggggaatattttaagataaaaatttggtcacttccgtatttcttctttcctttgcccccgtnnnnnnnntaaaacgtatcattctaaaaaattcgaattgcctattgcatagacattactctgaaatcaatctttaggacgta tgaggaacaaggaatcgtccgaaaagatgatttcatccccctgattccccgttttgtacaaaaagatacgaaacggggaatattttaagataaaaatttggtcacttccgtatttcttctttcctttgcccccgtaaaaaaaataaaacgtatcattctaaaaaattcgaattgcctattgcatagacattactctgaaatcaatctttaggacgta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAGGAACAAGGAAUCGUCCGAAAAGAUGAUUUCAUCCCCCUGAUUCCCCGUUUUGUACAAAAAGAUACGAAACGGGGAAUAUUUUAAGAUAAAAAUUUGGUCACUUCCGUAUUUCUUCUUUCCUUUGCCCCCGUAAAAAAAAUAAAACGUAUCAUUCUAAAAAAUUCGAAUUGCCUAUUGCAUAGACAUUACUCUGAAAUCAAUCUUUAGGACGUA ...............(((((..(((((((((((((........(((((((((((((((........))))))))))))))).....((((...((((.(((......))).))))..))))...(((((....)))))...........(((....((((............(((.....)))))))...)))..))))))).)))))).))))).. (-48.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UACGUCCUAAAGAUUGAUUUCAGAGUAAUGUCUAUGCAAUAGGCAAUUCGAAUUUUUUAGAAUGAUACGUUUUAUUUUUUUUACGGGGGCAAAGGAAAGAAGAAAUACGGAAGUGACCAAAUUUUUAUCUUAAAAUAUUCCCCGUUUCGUAUCUUUUUGUACAAAACGGGGAAUCAGGGGGAUGAAAUCAUCUUUUCGGACGAUUCCUUGUUCCUCA ..(((.(((((((.....(((.((((..(((((((...)))))))))))))).))))))).)))....................((((((((.((((((((((..(((....))).......(((((((((.....(((((((((((.((((......)))).)))))))))))....)))))))))...)))))).......)))))))))))).. (-58.51) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 353 76 36 80 29 tfor:TF0190|5end_cell_division_protein_FtsH_204029..204259_POSITIVE 308 56 11 215 160 tfor:TF2561|5end_50S_ribosomal_protein_L16_2738693..2738923_POSITIVE 306 57 12 150 93 tfor:TF2407|5end_glycosyltransferase_2581574..2581804_POSITIVE 304 57 15 61 24 tfor:TF2781|5end_hypothetical_protein_2965822..2966052_POSITIVE 300 70 27 150 102 tfor:TF2128|5end_3-oxoacyl-(acyl-carrier_protein)_synthase_2304258..2304488_POSITIVE 298 50 13 121 84 tfor:TF0340|5end_hypothetical_protein_363893..364123_POSITIVE 297 131 101 187 152 tfor:TF0339|5end_hypothetical_protein_363470..363700_POSITIVE 290 50 16 127 101 tfor:TF2172|5end_hypothetical_protein_2345822..2346052_POSITIVE 290 50 16 121 95 tfor:TF2173|5end_hypothetical_protein_2345816..2346046_POSITIVE 290 50 16 121 95 tfor:TF2171|5end_hypothetical_protein_2345485..2345715_POSITIVE 290 50 16 121 95 tfor:TF2166|5end_hypothetical_protein_2342115..2342345_POSITIVE 287 58 20 230 193 tfor:TF0286|5end_hypothetical_protein_315543..315773_POSITIVE 284 133 95 130 75 tfor:TF0662|5end_hypothetical_protein_708316..708546_POSITIVE 284 50 15 121 89 tfor:TF0366|5end_hypothetical_protein_383564..383794_POSITIVE 284 50 15 121 89 tfor:TF0362|5end_hypothetical_protein_379952..380182_POSITIVE 284 48 2 85 37 tfor:TF0024|5end_conserved_hypothetical_protein;_possible_ATPase_20191..20421_POSITIVE 281 135 100 127 77 tfor:TF2226|5end_CTn_excision_protein_2395529..2395759_POSITIVE 281 49 5 72 43 tfor:TF1516|5end_transposase_fragment_1626407..1626637_POSITIVE 281 49 5 186 157 tfor:TF1275|5end_transcription-repair_coupling_factor_1357866..1358096_POSITIVE 281 50 15 121 89 tfor:TF0346|5end_hypothetical_protein_367048..367278_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 389 81 44 47 10 tfor:TF1444|3end_conserved_hypothetical_protein;_possible_hemin_receptor_1529910..1530060_POSITIVE 353 76 36 61 10 tfor:TF0189|3end_phosphatidate_cytidylytransferase_(CDP-diglyceride_synthetase)_204090..204240_POSITIVE 304 57 15 91 54 tfor:TF2779|3end_fucose_permease_2965932..2966082_POSITIVE 303 50 2 66 31 tfor:TF2480|3end_hypothetical_protein_2657708..2657858_POSITIVE 300 70 27 118 70 tfor:TF2127|3end_hypothetical_protein_2304306..2304456_POSITIVE 288 50 15 58 17 tfor:TF1588|3end_hypothetical_protein_1702560..1702710_POSITIVE 287 58 20 141 104 tfor:TF0285|3end_conserved_hypothetical_protein_315534..315684_POSITIVE 281 135 100 120 70 tfor:TF2225|3end_CTn_excision_protein_2395602..2395752_POSITIVE 281 49 5 135 106 tfor:TF1274|3end_hypothetical_protein_1357895..1358045_POSITIVE 277 79 35 145 93 tfor:TF2950|3end_chloromuconate_cycloisomerase_3158549..3158699_POSITIVE 275 134 96 129 81 tfor:TF2042|3end_sugar_phosphate_isomerase,_polysialic_acid_capsule_expression_protein_2202356..2202506_POSITIVE 275 135 99 78 39 tfor:TF0664|3end_small_protein_B_(SMPB)_709570..709720_POSITIVE 270 80 40 116 69 tfor:TF0409|3end_conserved_hypothetical_protein_427672..427822_POSITIVE 267 133 102 142 105 tfor:TF0539|3end_hypothetical_protein_567323..567473_POSITIVE 261 51 12 148 98 tfor:TF2406|3end_anti-sigma_factor_2581659..2581809_POSITIVE 261 52 11 134 85 tfor:TF0207|3end_conserved_hypothetical_protein_233505..233655_POSITIVE 260 79 41 147 108 tfor:TF0131|3end_hypothetical_protein_143038..143188_POSITIVE 259 48 4 79 28 tfor:TF2793|3end_possible_L-lysine_2,3-aminomutase_2979888..2980038_POSITIVE 256 134 99 99 59 tfor:TF1249|3end_phosphoglycerate_kinase_(cytosolic_phosphoglycerate_kinase)_1332356..1332506_POSITIVE 254 133 98 106 69 tfor:TF1851|3end_methionine_synthase_I_2004681..2004831_POSITIVE