Origin IGS: tgtttacgctataacacgaacggacaacatatgagatcacaagcgttcattcatacacataaaaaaggtgtaccaaaacattgcgttttgacacaccctcttttgtatgattcatacccaaagggagggggtta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaccccctccctttgggtatgaatcatacaaaagagggtgtgtcaaaacgcaatgttttggtacaccttttttatgtgtatgaatgaacgcttgtgatctcatatgttgtccgttcgtgttatagcgtaaaca Mask Tandem Repeat Region ================================================ tgtttacgctataacacgaacggacaacatatgagatcacaagcgttcattcatacacataaaaaaggtgtaccaaaacattgcgttttgacacaccctcttttgtatgattcatacccaaagggagggggtta Find is-nt database================================================ Query_seq: TF0701:TF0702|TF0701:TF0702:Fe-S-cluster redox enzyme:possible peptidyl-prolyl isomerase:->->:744983..745116 134 tgtttacgctataacacgaacggacaacatatgagatcacaagcgttcattcatacacataaaaaaggtgtaccaaaacattgcgttttgacacaccctcttttgtatgattcatacccaaagggagggggtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0701:TF0702|TF0701:TF0702:Fe-S-cluster redox enzyme:possible peptidyl-prolyl isomerase:->->:744983..745116 134 tgtttacgctataacacgaacggacaacatatgagatcacaagcgttcattcatacacataaaaaaggtgtaccaaaacattgcgttttgacacaccctcttttgtatgattcatacccaaagggagggggtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0701:TF0702|TF0701:TF0702:Fe-S-cluster redox enzyme:possible peptidyl-prolyl isomerase:->->:744983..745116 134 tgtttacgctataacacgaacggacaacatatgagatcacaagcgttcattcatacacataaaaaaggtgtaccaaaacattgcgttttgacacaccctcttttgtatgattcatacccaaagggagggggtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgtttacgctataacacgaacggacaacatatgagatcacaagcgttcattcatacacataaaaaaggtgtaccaaaacattgcgttttgacacaccctcttttgtatgattcatacccaaagggagggggtta Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 31 End: 132 .............................. M R S Q A F I H T H K K G V P K H C V L T H P L L Y D S Y P K G G G .. tgtttacgctataacacgaacggacaacatatgagatcacaagcgttcattcatacacataaaaaaggtgtaccaaaacattgcgttttgacacaccctcttttgtatgattcatacccaaagggagggggtta 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================================================ tgtttacgctataacacgaacggacaacatatgagatcacaagcgttcattcatacacataaaaaaggtgtaccaaaacattgcgttttgacacaccctcttttgtatgattcatacccaaagggagggggtta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 55 HP_score: -3.4 Tail_Score: -3.91421 Start: 66 End: 98 Full_Region: TCATACACATAAAAA AGGTGTACCAAAAC ATTGC GTTTTGACACACCC TCTTTTGTATGATTC .................................................................AGGTGTACCAAAACATTGCGTTTTGACACACCC.................................... TransTerm Strand: - Conf: 100 HP_score: -12.0 Tail_Score: -5.4492 Start: 67 End: 97 Full_Region: aatcatacaaaagag ggtgtgtcaaaacg caa tgttttggtacacc ttttttatgtgtatg ..................................................................ggtgtgtcaaaacgcaatgttttggtacacc..................................... Find igs database================================================ Query_seq: TF0701:TF0702|TF0701:TF0702:Fe-S-cluster redox enzyme:possible peptidyl-prolyl isomerase:->->:744983..745116 134 tgtttacgctataacacgaacggacaacatatgagatcacaagcgttcattcatacacataaaaaaggtgtaccaaaacattgcgttttgacacaccctcttttgtatgattcatacccaaagggagggggtta Intra-Species Hit: Count: 1 Min: 1 Max: 134 Len: 134 Subject: tfor_TF0701_TF0702|Fe-S-cluster redox enzyme:possible peptidyl-prolyl isomerase|POSITIVE:POSITIVE|[744983,745116]|134 HSP 1 e-value: 2.0E-70 bit: 266.0 Len: 134 Query Start:1 Query End:134 Subject Strand: POSITIVE Subject Start: 1 Subject End: 134 tgtttacgctataacacgaacggacaacatatgagatcacaagcgttcattcatacacataaaaaaggtgtaccaaaacattgcgttttgacacaccctcttttgtatgattcatacccaaagggagggggtta tgtttacgctataacacgaacggacaacatatgagatcacaagcgttcattcatacacataaaaaaggtgtaccaaaacattgcgttttgacacaccctcttttgtatgattcatacccaaagggagggggtta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUUUACGCUAUAACACGAACGGACAACAUAUGAGAUCACAAGCGUUCAUUCAUACACAUAAAAAAGGUGUACCAAAACAUUGCGUUUUGACACACCCUCUUUUGUAUGAUUCAUACCCAAAGGGAGGGGGUUA ((((.((((........(((((.....................))))).....(((((.........)))))..........))))...))))..((((((((((((((...)))))...)))))))))..... (-28.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACCCCCUCCCUUUGGGUAUGAAUCAUACAAAAGAGGGUGUGUCAAAACGCAAUGUUUUGGUACACCUUUUUUAUGUGUAUGAAUGAACGCUUGUGAUCUCAUAUGUUGUCCGUUCGUGUUAUAGCGUAAACA ..((((.........)))).....((((((((((((((((((..((((((.....))))))..)))))))))))...)))))))....(((((.(((((..(..(((.....)))..).))))))))))..... (-39.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 576 100 53 197 149 tfor:TF0662|5end_hypothetical_protein_708316..708546_POSITIVE 509 104 67 163 124 tfor:TF0187|5end_ferredoxin_202151..202381_POSITIVE 486 108 67 208 167 tfor:TF2593|5end_amino_acid_transport_protein_2762882..2763112_POSITIVE 448 103 67 229 194 tfor:TF1999|5end_ArgK_protein_with_ATPase_and_kinase_domains_2152769..2152999_POSITIVE 445 109 67 82 41 tfor:TF1046|5end_hypothetical_protein_1108178..1108408_POSITIVE 427 110 67 201 158 tfor:TF3007|5end_conserved_hypothetical_protein_3227256..3227486_POSITIVE 413 107 67 221 178 tfor:TF1505|5end_conserved_hypothetical_protein_1610773..1611003_POSITIVE 400 106 67 153 114 tfor:TF2947|5end_isochorismate_synthase_3153633..3153863_POSITIVE 354 96 67 231 202 tfor:TF2414|5end_hypothetical_protein_2590725..2590955_POSITIVE 352 105 66 160 125 tfor:TF2357|5end_collagenase_2522561..2522791_POSITIVE 324 130 81 62 6 tfor:TF0470|5end_hypothetical_protein_487253..487483_POSITIVE 319 110 67 147 105 tfor:TF2893|5end_conserved_hypothetical_protein;_possible_phosphoesterase_3080766..3080996_POSITIVE 311 109 67 171 128 tfor:TF0811|5end_conserved_hypothetical_protein;_posible_sugar_phosphate_isomerase_869787..870017_POSITIVE 304 109 67 177 135 tfor:TF2536|5end_subtilisin-like_serine_protease_2719286..2719516_POSITIVE 299 120 80 173 139 tfor:TF1234|5end_rhamnulose-1-phosphate_aldolase_1318875..1319105_POSITIVE 296 103 67 228 192 tfor:TF0184|5end_dihydroneopterin_aldolase_195629..195859_POSITIVE 294 107 67 172 127 tfor:TF0476|5end_conserved_hypothetical_protein_494944..495174_POSITIVE 290 44 6 145 116 tfor:TF2596|5end_conserved_hypothetical_protein;_possible_lipoprotein_2766667..2766897_POSITIVE 287 110 63 214 161 tfor:TF2289|5end_secretion_protein,_possible_HlyD_family_2442725..2442955_POSITIVE 278 129 83 218 167 tfor:TF1843|5end_surface_antigen_BspA_1992834..1993064_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 576 100 53 58 10 tfor:TF0661|3end_hypothetical_protein_708257..708407_POSITIVE 528 109 67 124 77 tfor:TF2413|3end_hypothetical_protein_2590680..2590830_POSITIVE 492 100 55 49 1 tfor:TF2765|3end_subtilisin-like_serine_protease_2951460..2951610_POSITIVE 486 108 67 53 12 tfor:TF2592|3end_conserved_hypothetical_protein_2762807..2762957_POSITIVE 448 103 67 66 31 tfor:TF1997|3end_ROK_family_transcriptional_regulator_2152686..2152836_POSITIVE 445 109 67 69 28 tfor:TF1045|3end_conserved_hypothetical_protein_1108245..1108395_POSITIVE 401 109 61 62 15 tfor:TF1416|3end_outer_membrane_protein_1499413..1499563_POSITIVE 364 126 82 39 1 tfor:TF0178|3end_ferritin_188223..188373_POSITIVE 302 107 78 33 1 tfor:TF1504|3end_conserved_hypothetical_protein_1610665..1610815_POSITIVE 299 120 80 73 39 tfor:TF1233|3end_dihydrodipicolinate_synthase_1318855..1319005_POSITIVE 296 121 85 38 1 tfor:TF3006|3end_response_regulator,_transcriptional_regulator_RprY_3227162..3227312_POSITIVE 296 103 67 47 11 tfor:TF0182|3end_DNA-binding_protein,_HU-related_195528..195678_POSITIVE 290 44 6 115 86 tfor:TF2595|3end_conserved_hypothetical_protein_2766717..2766867_POSITIVE 278 129 83 104 53 tfor:TF1842|3end_hypothetical_protein_1992800..1992950_POSITIVE 268 129 90 143 91 tfor:TF2182|3end_conserved_hypothetical_protein;_possible_integral_membrane_protein_2355400..2355550_POSITIVE 268 60 15 135 79 tfor:TF1899|3end_anti-sigma_factor_2053815..2053965_POSITIVE 268 130 81 115 55 tfor:TF0795|3end_hypothetical_protein_853199..853349_POSITIVE 267 130 88 56 6 tfor:TF2519|3end_membrane_protein,_metallopeptidase_M23/M37_family_2698997..2699147_POSITIVE 256 130 94 128 89 tfor:TF1682|3end_hydrolase_1797343..1797493_POSITIVE 255 110 65 74 30 tfor:TF2953|3end_possible_TonB-dependent_outer_membrane_receptor_3161501..3161651_POSITIVE