Origin IGS: tgaatgacggtatgaacctaagcataaacttttatcggacagcaatgaaacaaaataagcgaagaagagtgttttacttataattagatccattttttttgttctgtgcttatttctaataaaatagggccatttttattttgccgtatcgataaaaaaagatcattaccacgaataaaagttggagaaataattttttttaacacttttgattaagggtttttgaggtgttatacgtcatatatgtaaagtgtggttgatagggtttaaatacttaggttaatctctca .........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 tgagagattaacctaagtatttaaaccctatcaaccacactttacatatatgacgtataacacctcaaaaacccttaatcaaaagtgttaaaaaaaattatttctccaacttttattcgtggtaatgatctttttttatcgatacggcaaaataaaaatggccctattttattagaaataagcacagaacaaaaaaaatggatctaattataagtaaaacactcttcttcgcttattttgtttcattgctgtccgataaaagtttatgcttaggttcataccgtcattca Mask Tandem Repeat Region ================================================ tgaatgacggtatgaacctaagcataaacttttatcggacagcaatgaaacaaaataagcgaagaagagtgttttacttataattagatccattttttttgttctgtgcttatttctaataaaatagggccatttttattttgccgtatcgataaaaaaagatcattaccacgaataaaagttggagaaataattttttttaacacttttgattaagggtttttgaggtgttatacgtcatatatgtaaagtgtggttgatagggtttaaatacttaggttaatctctca Find is-nt database================================================ Query_seq: TF2896:TF2897|TF2896:TF2897:conserved hypothetical protein; possible ATPase, AAA superfamily:iron(III) ABC transporter, permease component:->->:3085748..3086037 290 tgaatgacggtatgaacctaagcataaacttttatcggacagcaatgaaacaaaataagcgaagaagagtgttttacttataattagatccattttttttgttctgtgcttatttctaataaaatagggccatttttattttgccgtatcgataaaaaaagatcattaccacgaataaaagttggagaaataattttttttaacacttttgattaagggtttttgaggtgttatacgtcatatatgtaaagtgtggttgatagggtttaaatacttaggttaatctctca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2896:TF2897|TF2896:TF2897:conserved hypothetical protein; possible ATPase, AAA superfamily:iron(III) ABC transporter, permease component:->->:3085748..3086037 290 tgaatgacggtatgaacctaagcataaacttttatcggacagcaatgaaacaaaataagcgaagaagagtgttttacttataattagatccattttttttgttctgtgcttatttctaataaaatagggccatttttattttgccgtatcgataaaaaaagatcattaccacgaataaaagttggagaaataattttttttaacacttttgattaagggtttttgaggtgttatacgtcatatatgtaaagtgtggttgatagggtttaaatacttaggttaatctctca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2896:TF2897|TF2896:TF2897:conserved hypothetical protein; possible ATPase, AAA superfamily:iron(III) ABC transporter, permease component:->->:3085748..3086037 290 tgaatgacggtatgaacctaagcataaacttttatcggacagcaatgaaacaaaataagcgaagaagagtgttttacttataattagatccattttttttgttctgtgcttatttctaataaaatagggccatttttattttgccgtatcgataaaaaaagatcattaccacgaataaaagttggagaaataattttttttaacacttttgattaagggtttttgaggtgttatacgtcatatatgtaaagtgtggttgatagggtttaaatacttaggttaatctctca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgaatgacggtatgaacctaagcataaacttttatcggacagcaatgaaacaaaataagcgaagaagagtgttttacttataattagatccattttttttgttctgtgcttatttctaataaaatagggccatttttattttgccgtatcgataaaaaaagatcattaccacgaataaaagttggagaaataattttttttaacacttttgattaagggtttttgaggtgttatacgtcatatatgtaaagtgtggttgatagggtttaaatacttaggttaatctctca Predict ORF larger than 30AA ================================================ Protein_Len: 42 Strand: + Start: 88 End: 213 ....................................................................................... M H F F C S V L I S N K I G P F L F C R I D K K R S L P R I K V G E I I F F N T F D ............................................................................. Protein_Len: 40 Strand: - Start: 87 End: 206 ...................................................................................... I W K K Q E T S I E L L I P G N K N Q R I S L F L D N G R I F T P S I I K K L M .................................................................................... Protein_Len: 40 Strand: - Start: 1 End: 120 S H R Y S G L C L S K D S L L S V F Y A F F L T K S I I L D M K K T R H K N R M .......................................................................................................................................................................... tgaatgacggtatgaacctaagcataaacttttatcggacagcaatgaaacaaaataagcgaagaagagtgttttacttataattagatccattttttttgttctgtgcttatttctaataaaatagggccatttttattttgccgtatcgataaaaaaagatcattaccacgaataaaagttggagaaataattttttttaacacttttgattaagggtttttgaggtgttatacgtcatatatgtaaagtgtggttgatagggtttaaatacttaggttaatctctca 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================================================ tgaatgacggtatgaacctaagcataaacttttatcggacagcaatgaaacaaaataagcgaagaagagtgttttacttataattagatccattttttttgttctgtgcttatttctaataaaatagggccatttttattttgccgtatcgataaaaaaagatcattaccacgaataaaagttggagaaataattttttttaacacttttgattaagggtttttgaggtgttatacgtcatatatgtaaagtgtggttgatagggtttaaatacttaggttaatctctca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2896:TF2897|TF2896:TF2897:conserved hypothetical protein; possible ATPase, AAA superfamily:iron(III) ABC transporter, permease component:->->:3085748..3086037 290 tgaatgacggtatgaacctaagcataaacttttatcggacagcaatgaaacaaaataagcgaagaagagtgttttacttataattagatccattttttttgttctgtgcttatttctaataaaatagggccatttttattttgccgtatcgataaaaaaagatcattaccacgaataaaagttggagaaataattttttttaacacttttgattaagggtttttgaggtgttatacgtcatatatgtaaagtgtggttgatagggtttaaatacttaggttaatctctca Intra-Species Hit: Count: 1 Min: 1 Max: 290 Len: 290 Subject: tfor_TF2896_TF2897|conserved hypothetical protein; possible ATPase, AAA superfamily:iron(III) ABC transporter, permease component|POSITIVE:POSITIVE|[3085748,3086037]|290 HSP 1 e-value: 1.0E-122 bit: 438.0 Len: 290 Query Start:1 Query End:290 Subject Strand: POSITIVE Subject Start: 1 Subject End: 290 tgaatgacggtatgaacctaagcataaacttttatcggacagcaatgaaacaaaataagcgaagaagagtgttttacttataattagatccannnnnnnngttctgtgcttatttctaataaaatagggccatttttattttgccgtatcgatnnnnnnngatcattaccacgaataaaagttggagaaataannnnnnnnaacacttttgattaagggtttttgaggtgttatacgtcatatatgtaaagtgtggttgatagggtttaaatacttaggttaatctctca tgaatgacggtatgaacctaagcataaacttttatcggacagcaatgaaacaaaataagcgaagaagagtgttttacttataattagatccattttttttgttctgtgcttatttctaataaaatagggccatttttattttgccgtatcgataaaaaaagatcattaccacgaataaaagttggagaaataattttttttaacacttttgattaagggtttttgaggtgttatacgtcatatatgtaaagtgtggttgatagggtttaaatacttaggttaatctctca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAAUGACGGUAUGAACCUAAGCAUAAACUUUUAUCGGACAGCAAUGAAACAAAAUAAGCGAAGAAGAGUGUUUUACUUAUAAUUAGAUCCAUUUUUUUUGUUCUGUGCUUAUUUCUAAUAAAAUAGGGCCAUUUUUAUUUUGCCGUAUCGAUAAAAAAAGAUCAUUACCACGAAUAAAAGUUGGAGAAAUAAUUUUUUUUAACACUUUUGAUUAAGGGUUUUUGAGGUGUUAUACGUCAUAUAUGUAAAGUGUGGUUGAUAGGGUUUAAAUACUUAGGUUAAUCUCUCA ....(((.((....((((((((..((((((((((((((((.((((.......(((((((((((((((((((..((...........))..))))))))))......)))))))))..(((((((.........))))))))))).)).)))))))).....((((..((((((...((((((((......))))))))..(((((((((.(((.....)))...)))))))))..................))))))))))..))))))....))))))))...)).))) (-58.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAGAGAUUAACCUAAGUAUUUAAACCCUAUCAACCACACUUUACAUAUAUGACGUAUAACACCUCAAAAACCCUUAAUCAAAAGUGUUAAAAAAAAUUAUUUCUCCAACUUUUAUUCGUGGUAAUGAUCUUUUUUUAUCGAUACGGCAAAAUAAAAAUGGCCCUAUUUUAUUAGAAAUAAGCACAGAACAAAAAAAAUGGAUCUAAUUAUAAGUAAAACACUCUUCUUCGCUUAUUUUGUUUCAUUGCUGUCCGAUAAAAGUUUAUGCUUAGGUUCAUACCGUCAUUCA ((((..((.((((((((((..(((((...(((((((((............(((.((.....)).))).............((((((......................))))))....)))))..))))....((((((((..(((((((....((((((....))))))....(((((((((..(((.((.......))..))).......(((.....))).......)))))))))......))))))).))))))))))))))))))))))).))..).))).... (-50.65) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 320 257 215 138 94 tfor:TF0205|5end_exsB_protein_231523..231753_POSITIVE 281 259 211 48 7 tfor:TF2324|5end_conserved_hypothetical_protein;_possible_cobalamin_adenosyltransferase_2483714..2483944_POSITIVE 281 149 125 76 51 tfor:TF0609|5end_conserved_hypothetical_protein_641666..641896_POSITIVE 273 266 225 185 140 tfor:TF1346|5end_hypothetical_protein_1425880..1426110_POSITIVE 267 286 245 173 131 tfor:TF2735|5end_hypothetical_protein_2916754..2916984_POSITIVE 267 48 5 197 153 tfor:TF1340|5end_pantoate--beta-alanine_ligase_1421280..1421510_POSITIVE 264 153 127 186 157 tfor:TF2781|5end_hypothetical_protein_2965822..2966052_POSITIVE 264 108 62 93 47 tfor:TF0703|5end_conserved_hypothetical_protein_747252..747482_POSITIVE 260 50 5 231 184 tfor:TF0630|5end_hypothetical_protein_666287..666517_POSITIVE 259 68 28 148 108 tfor:TF2722|5end_conserved_hypothetical_protein_2896792..2897022_POSITIVE 257 164 127 54 26 tfor:TF2893|5end_conserved_hypothetical_protein;_possible_phosphoesterase_3080766..3080996_POSITIVE 256 146 101 128 87 tfor:TF0312|5end_outer_membrane_protein_336473..336703_POSITIVE 254 65 29 183 147 tfor:TF3081|5end_ISPg7,_transposase_3314517..3314747_POSITIVE 249 70 29 189 141 tfor:TF1828|5end_hypothetical_protein_1977049..1977279_POSITIVE 239 130 91 165 127 tfor:TF1300|5end_conserved_hypothetical_protein_1382389..1382619_POSITIVE 238 170 129 220 173 tfor:TF1651|5end_integrase_1761296..1761526_POSITIVE 236 43 1 58 12 tfor:TF3043|5end_conserved_hypothetical_protein_3271925..3272155_POSITIVE 236 49 8 48 4 tfor:TF2163|5end_hypothetical_protein_2340802..2341032_POSITIVE 234 256 217 61 17 tfor:TF1900|5end_conserved_hypothetical_protein_2053867..2054097_POSITIVE 232 268 222 75 38 tfor:TF1995|5end_exonuclease_2147148..2147378_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 320 257 215 135 91 tfor:TF0204|3end_cation_efflux_system_protein_231600..231750_POSITIVE 313 55 17 88 52 tfor:TF0297|3end_RNA_polymerase_sigma-70_factor,_ECF_subfamily_322916..323066_POSITIVE 280 148 101 150 105 tfor:TF1914|3end_conserved_hypothetical_protein_2067656..2067806_POSITIVE 278 259 217 39 1 tfor:TF2322|3end_conserved_hypothetical_protein;_possible_lipoprotein_2483785..2483935_POSITIVE 269 149 105 122 82 tfor:TF2546|3end_S-adenosylmethionine_synthetase_2730603..2730753_POSITIVE 267 286 245 77 35 tfor:TF2734|3end_conserved_hypothetical_protein_2916738..2916888_POSITIVE 241 59 30 80 47 tfor:TF1991|3end_hypothetical_protein_2143584..2143734_POSITIVE 239 130 91 131 93 tfor:TF1299|3end_conserved_hypothetical_protein_1382435..1382585_POSITIVE 234 147 102 142 92 tfor:TF1411|3end_conserved_hypothetical_protein_1491197..1491347_POSITIVE 233 151 126 141 115 tfor:TF0196|3end_conserved_hypothetical_protein_221037..221187_POSITIVE 232 268 222 75 38 tfor:TF1994|3end_acyl-CoA_synthetase_2147228..2147378_POSITIVE 232 69 21 75 21 tfor:TF0035|3end_sialidase_35901..36051_POSITIVE 226 69 24 52 6 tfor:TF2365|3end_conserved_hypothetical_protein_2531280..2531430_POSITIVE 225 261 234 45 12 tfor:TF2529|3end_nucleotidyl_transferase_family;_possible_mannose-1-phosphate_guanyltransferase_2711496..2711646_POSITIVE 224 50 1 148 92 tfor:TF2976|3end_hypothetical_protein_3185308..3185458_POSITIVE 221 154 125 53 21 tfor:TF2153|3end_6-phosphofructokinase_2329172..2329322_POSITIVE 221 260 217 143 101 tfor:TF0724|3end_possible_transcriptional_regulator_776333..776483_POSITIVE 218 248 204 148 100 tfor:TF0278|3end_conserved_hypothetical_protein_307194..307344_POSITIVE 217 206 169 53 20 tfor:TF0014|3end_beta-glucosidase_(beta-D-glucoside_glucohydrolase),_periplasmic_9583..9733_POSITIVE 215 43 6 52 18 tfor:TF2803|3end_dehydrogenase,_possible_NADH-dependent_dehydrogenase_2993467..2993617_POSITIVE