Origin IGS: taatgtcatttgtgagttgcttgcaagtagaaaaggcgtttagtatctaaattgtccggattttttctgcatggagaaatgtcggagaactaccggacggttgaatgaaacagaatgtaaacgatttaacaacaaaagaaagaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttctttcttttgttgttaaatcgtttacattctgtttcattcaaccgtccggtagttctccgacatttctccatgcagaaaaaatccggacaatttagatactaaacgccttttctacttgcaagcaactcacaaatgacatta Mask Tandem Repeat Region ================================================ taatgtcatttgtgagttgcttgcaagtagaaaaggcgtttagtatctaaattgtccggattttttctgcatggagaaatgtcggagaactaccggacggttgaatgaaacagaatgtaaacgatttaacaacaaaagaaagaa Find is-nt database================================================ Query_seq: TF3092:TF3093|TF3092:TF3093:30S ribosomal protein S9:30S ribosomal protein S2:->->:3325240..3325383 144 taatgtcatttgtgagttgcttgcaagtagaaaaggcgtttagtatctaaattgtccggattttttctgcatggagaaatgtcggagaactaccggacggttgaatgaaacagaatgtaaacgatttaacaacaaaagaaagaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF3092:TF3093|TF3092:TF3093:30S ribosomal protein S9:30S ribosomal protein S2:->->:3325240..3325383 144 taatgtcatttgtgagttgcttgcaagtagaaaaggcgtttagtatctaaattgtccggattttttctgcatggagaaatgtcggagaactaccggacggttgaatgaaacagaatgtaaacgatttaacaacaaaagaaagaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF3092:TF3093|TF3092:TF3093:30S ribosomal protein S9:30S ribosomal protein S2:->->:3325240..3325383 144 taatgtcatttgtgagttgcttgcaagtagaaaaggcgtttagtatctaaattgtccggattttttctgcatggagaaatgtcggagaactaccggacggttgaatgaaacagaatgtaaacgatttaacaacaaaagaaagaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatgtcatttgtgagttgcttgcaagtagaaaaggcgtttagtatctaaattgtccggattttttctgcatggagaaatgtcggagaactaccggacggttgaatgaaacagaatgtaaacgatttaacaacaaaagaaagaa Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: - Start: 43 End: 135 .......................................... Y R F Q G S K K Q M S F H R L V V P R N F S V S H L R N L L M ......... taatgtcatttgtgagttgcttgcaagtagaaaaggcgtttagtatctaaattgtccggattttttctgcatggagaaatgtcggagaactaccggacggttgaatgaaacagaatgtaaacgatttaacaacaaaagaaagaa 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================================================ taatgtcatttgtgagttgcttgcaagtagaaaaggcgtttagtatctaaattgtccggattttttctgcatggagaaatgtcggagaactaccggacggttgaatgaaacagaatgtaaacgatttaacaacaaaagaaagaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF3092:TF3093|TF3092:TF3093:30S ribosomal protein S9:30S ribosomal protein S2:->->:3325240..3325383 144 taatgtcatttgtgagttgcttgcaagtagaaaaggcgtttagtatctaaattgtccggattttttctgcatggagaaatgtcggagaactaccggacggttgaatgaaacagaatgtaaacgatttaacaacaaaagaaagaa Intra-Species Hit: Count: 1 Min: 1 Max: 144 Len: 144 Subject: tfor_TF3092_TF3093|30S ribosomal protein S9:30S ribosomal protein S2|POSITIVE:POSITIVE|[3325240,3325383]|144 HSP 1 e-value: 2.0E-76 bit: 285.0 Len: 144 Query Start:1 Query End:144 Subject Strand: POSITIVE Subject Start: 1 Subject End: 144 taatgtcatttgtgagttgcttgcaagtagaaaaggcgtttagtatctaaattgtccggattttttctgcatggagaaatgtcggagaactaccggacggttgaatgaaacagaatgtaaacgatttaacaacaaaagaaagaa taatgtcatttgtgagttgcttgcaagtagaaaaggcgtttagtatctaaattgtccggattttttctgcatggagaaatgtcggagaactaccggacggttgaatgaaacagaatgtaaacgatttaacaacaaaagaaagaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUGUCAUUUGUGAGUUGCUUGCAAGUAGAAAAGGCGUUUAGUAUCUAAAUUGUCCGGAUUUUUUCUGCAUGGAGAAAUGUCGGAGAACUACCGGACGGUUGAAUGAAACAGAAUGUAAACGAUUUAACAACAAAAGAAAGAA .....(((((((..((...))..))))).))....((((((.((.((..((((((((((...((((((((((......))).)))))))...))))))))))....)).)).)))))).......................... (-37.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUCUUUCUUUUGUUGUUAAAUCGUUUACAUUCUGUUUCAUUCAACCGUCCGGUAGUUCUCCGACAUUUCUCCAUGCAGAAAAAAUCCGGACAAUUUAGAUACUAAACGCCUUUUCUACUUGCAAGCAACUCACAAAUGACAUUA ..........(((..((....((((((...((((((......))).((((((...((.((.(.(((......)))).)).))...)))))).....)))...))))))..........(((....)))......))..)))... (-20.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 375 100 52 144 93 tfor:TF0819|5end_phosphoglycerate_mutase_878447..878677_POSITIVE 363 100 51 121 50 tfor:TF3141|5end_NADH:_ubiquinone_oxidoreductase,_subunit_A_3374667..3374897_POSITIVE 343 118 71 146 99 tfor:TF1938|5end_hypothetical_protein_2085717..2085947_POSITIVE 331 59 12 117 57 tfor:TF2456|5end_ABC_transporter,_ATP-binding_protein_2632376..2632606_POSITIVE 327 108 63 207 163 tfor:TF2379|5end_phosphoribosylformylglycinamidine_cyclo-ligase_(AIR_synthase)_2543849..2544079_POSITIVE 324 120 72 71 24 tfor:TF0620|5end_phosphoribosylaminoimidazole-succinocarboxamide_synthase_654711..654941_POSITIVE 322 108 69 94 46 tfor:TF0611|5end_lysine_decarboxylase_642750..642980_POSITIVE 321 96 51 84 37 tfor:TF0851|5end_helicase_SNF2_family_899486..899716_POSITIVE 316 100 51 86 35 tfor:TF3156|5end_conserved_hypothetical_protein_3391364..3391594_POSITIVE 316 100 54 216 159 tfor:TF2747|5end_heat_shock_protein,_HSP90_family_2928279..2928509_POSITIVE 315 100 56 91 42 tfor:TF3145|5end_conserved_hypothetical_protein;_possible_GTP_cyclohydrolase_I_family_3381254..3381484_POSITIVE 315 107 71 208 172 tfor:TF1498|5end_GTP-binding_protein_1597520..1597750_POSITIVE 310 99 51 83 31 tfor:TF2158|5end_conserved_hypothetical_protein_2333857..2334087_POSITIVE 307 108 61 59 5 tfor:TF1746|5end_histidine_ammonia-lyase_1879529..1879759_POSITIVE 306 106 62 214 174 tfor:TF2606|5end_conserved_hypothetical_protein_2782260..2782490_POSITIVE 302 100 51 69 17 tfor:TF2600|5end_ribose-phosphate_pyrophosphokinase_2773688..2773918_POSITIVE 300 60 12 231 174 tfor:TF0369|5end_hypothetical_protein_385933..386163_POSITIVE 298 100 51 167 112 tfor:TF0243|5end_conserved_hypothetical_protein_273728..273958_POSITIVE 298 60 11 203 144 tfor:TF0241|5end_UDP-N-acetyl_glucosamine_-2-epimerase_271321..271551_POSITIVE 297 60 11 50 4 tfor:TF0361|5end_hypothetical_protein_379458..379688_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 375 100 52 134 83 tfor:TF0818|3end_bifunctional_protein:__aspartokinase_I;_homoserine_dehydrogenase_878517..878667_POSITIVE 331 59 12 98 38 tfor:TF2455|3end_conserved_hypothetical_protein;_possible_membrane_protein_2632437..2632587_POSITIVE 327 108 63 149 105 tfor:TF2378|3end_peptide_chain_release_factor_1_2543871..2544021_POSITIVE 325 115 73 113 66 tfor:TF2799|3end_RNA_polymerase_ECF-type_sigma_factor_2985052..2985202_POSITIVE 324 120 72 61 14 tfor:TF0619|3end_ubiquinone_biosynthesis_methyltransferase_654781..654931_POSITIVE 322 108 69 77 29 tfor:TF0609|3end_conserved_hypothetical_protein_642813..642963_POSITIVE 316 100 51 86 35 tfor:TF3155|3end_glycosyltransferase,_group_2_family_protein_3391444..3391594_POSITIVE 316 100 54 103 46 tfor:TF2746|3end_hypothetical_protein_2928246..2928396_POSITIVE 315 107 71 127 91 tfor:TF1497|3end_GTP-binding_protein,_Era/ThdF_family_1597519..1597669_POSITIVE 312 115 81 48 1 tfor:TF2158|3end_conserved_hypothetical_protein_2334584..2334734_POSITIVE 310 99 51 70 18 tfor:TF2157|3end_conserved_hypothetical_protein_2333924..2334074_POSITIVE 306 99 51 148 105 tfor:TF2887|3end_phosphomannomutase/phosphoglucomutase_3077792..3077942_POSITIVE 306 106 62 148 108 tfor:TF2605|3end_outer_membrane_protein,_TonB_dependent_receptor_2782274..2782424_POSITIVE 301 75 31 40 1 tfor:TF0209|3end_transposase_related_recombinase/integrase_235216..235366_POSITIVE 297 100 51 119 65 tfor:TF2143|3end_S-adenosylmethionine:tRNA_ribosyltransferase-isomerase_2319704..2319854_POSITIVE 297 60 11 50 4 tfor:TF0360|3end_hypothetical_protein_379538..379688_POSITIVE 296 102 61 142 94 tfor:TF2809|3end_conserved_hypothetical_protein;_possible_translation_factor_(SUA5)_3000511..3000661_POSITIVE 294 94 51 72 17 tfor:TF0120|3end_hexouronate_transporter_132811..132961_POSITIVE 292 124 81 64 21 tfor:TF3022|3end_chorismate_synthase_3247301..3247451_POSITIVE 292 100 52 132 80 tfor:TF0251|3end_conserved_hypothetical_protein;_possible_exporter_283529..283679_POSITIVE