Origin IGS: aaatccgtcattatctctctcgttgcggcagagaattatgacgaacgatatcccaagaacgtatgaccgaatgctgaagaacagtcaggcagtgcagggcagagcagccggtca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgaccggctgctctgccctgcactgcctgactgttcttcagcattcggtcatacgttcttgggatatcgttcgtcataattctctgccgcaacgagagagataatgacggattt Mask Tandem Repeat Region ================================================ aaatccgtcattatctctctcgttgcggcagagaattatgacgaacgatatcccaagaacgtatgaccgaatgctgaagaacagtcaggcagtgcagggcagagcagccggtca Find is-nt database================================================ Query_seq: TF1475:TF1476|TF1475:TF1476:glucose-6-phosphate 1-dehydrogenase:outer membrane protein P49:->->:1569749..1569862 114 aaatccgtcattatctctctcgttgcggcagagaattatgacgaacgatatcccaagaacgtatgaccgaatgctgaagaacagtcaggcagtgcagggcagagcagccggtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1475:TF1476|TF1475:TF1476:glucose-6-phosphate 1-dehydrogenase:outer membrane protein P49:->->:1569749..1569862 114 aaatccgtcattatctctctcgttgcggcagagaattatgacgaacgatatcccaagaacgtatgaccgaatgctgaagaacagtcaggcagtgcagggcagagcagccggtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1475:TF1476|TF1475:TF1476:glucose-6-phosphate 1-dehydrogenase:outer membrane protein P49:->->:1569749..1569862 114 aaatccgtcattatctctctcgttgcggcagagaattatgacgaacgatatcccaagaacgtatgaccgaatgctgaagaacagtcaggcagtgcagggcagagcagccggtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaatccgtcattatctctctcgttgcggcagagaattatgacgaacgatatcccaagaacgtatgaccgaatgctgaagaacagtcaggcagtgcagggcagagcagccggtca Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 23 End: 112 ...................... M R Q R I M T N D I P R T Y D R M L K N S Q A V Q G R A A G .. aaatccgtcattatctctctcgttgcggcagagaattatgacgaacgatatcccaagaacgtatgaccgaatgctgaagaacagtcaggcagtgcagggcagagcagccggtca 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================================================ aaatccgtcattatctctctcgttgcggcagagaattatgacgaacgatatcccaagaacgtatgaccgaatgctgaagaacagtcaggcagtgcagggcagagcagccggtca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1475:TF1476|TF1475:TF1476:glucose-6-phosphate 1-dehydrogenase:outer membrane protein P49:->->:1569749..1569862 114 aaatccgtcattatctctctcgttgcggcagagaattatgacgaacgatatcccaagaacgtatgaccgaatgctgaagaacagtcaggcagtgcagggcagagcagccggtca Intra-Species Hit: Count: 1 Min: 1 Max: 114 Len: 114 Subject: tfor_TF1475_TF1476|glucose-6-phosphate 1-dehydrogenase:outer membrane protein P49|POSITIVE:POSITIVE|[1569749,1569862]|114 HSP 1 e-value: 1.0E-58 bit: 226.0 Len: 114 Query Start:1 Query End:114 Subject Strand: POSITIVE Subject Start: 1 Subject End: 114 aaatccgtcattatctctctcgttgcggcagagaattatgacgaacgatatcccaagaacgtatgaccgaatgctgaagaacagtcaggcagtgcagggcagagcagccggtca aaatccgtcattatctctctcgttgcggcagagaattatgacgaacgatatcccaagaacgtatgaccgaatgctgaagaacagtcaggcagtgcagggcagagcagccggtca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAUCCGUCAUUAUCUCUCUCGUUGCGGCAGAGAAUUAUGACGAACGAUAUCCCAAGAACGUAUGACCGAAUGCUGAAGAACAGUCAGGCAGUGCAGGGCAGAGCAGCCGGUCA .....((((((..(((((.(((...))).)))))...))))))....................((((((...((((.......(((..((...))..)))....)))))))))) (-30.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGACCGGCUGCUCUGCCCUGCACUGCCUGACUGUUCUUCAGCAUUCGGUCAUACGUUCUUGGGAUAUCGUUCGUCAUAAUUCUCUGCCGCAACGAGAGAGAUAAUGACGGAUUU (((((((..((..(((...)))..)).((.(((.....))))).))))))).................(((((((((...(((((..((...))..)))))..))))))))).. (-30.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 391 110 63 73 9 tfor:TF0610|5end_conserved_hypothetical_protein;_possible_phosphatidylglycerophosphate_synthase_643460..643690_POSITIVE 388 89 46 87 36 tfor:TF0605|5end_conserved_hypothetical_protein_636051..636281_POSITIVE 365 110 65 198 144 tfor:TF0088|5end_ABC_transporter,_permease_component_94299..94529_POSITIVE 359 100 51 129 61 tfor:TF2204|5end_conserved_hypothetical_protein_2378866..2379096_POSITIVE 359 109 64 226 168 tfor:TF1037|5end_iron_(III)_ABC_transporter,_ATP-binding_protein_1098194..1098424_POSITIVE 355 110 65 122 68 tfor:TF3067|5end_conserved_hypothetical_protein_3292432..3292662_POSITIVE 355 70 24 51 1 tfor:TF1046|5end_hypothetical_protein_1108178..1108408_POSITIVE 351 110 61 59 10 tfor:TF2143|5end_S-adenosylmethionine:tRNA_ribosyltransferase-isomerase_2319331..2319561_POSITIVE 350 110 72 149 113 tfor:TF2925|5end_beta-N-acetylglucosaminidase_3125700..3125930_POSITIVE 347 109 72 227 176 tfor:TF1473|5end_hypothetical_protein_1566341..1566571_POSITIVE 347 70 21 183 126 tfor:TF0754|5end_GDP-4-keto-6-deoxy-D-mannose-3,5-epimerase-4-redu_ctase_(GDP-L-fucose_synthetase)_801631..801861_POSITIVE 345 108 61 213 166 tfor:TF0995|5end_conserved_hypothetical_protein_1049695..1049925_POSITIVE 344 110 65 231 175 tfor:TF1550|5end_excinuclease_ABC,_subunit_B_1654841..1655071_POSITIVE 342 108 67 216 176 tfor:TF1558|5end_possible_heme_biosynthesis_protein_1664821..1665051_POSITIVE 339 70 21 203 157 tfor:TF2673|5end_conserved_hypothetical_protein_2846987..2847217_POSITIVE 334 109 63 116 54 tfor:TF2296|5end_hypothetical_protein_2448892..2449122_POSITIVE 332 110 66 32 2 tfor:TF3153|5end_conserved_hypothetical_protein_3386872..3387102_POSITIVE 329 107 64 146 102 tfor:TF2279|5end_hypothetical_protein_2438895..2439125_POSITIVE 329 109 61 83 29 tfor:TF0187|5end_ferredoxin_202151..202381_POSITIVE 328 108 64 73 4 tfor:TF2377|5end_orotidine_5'_phosphate_decarboxylase_2541799..2542029_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 383 89 46 148 101 tfor:TF0604|3end_hypothetical_protein_636196..636346_POSITIVE 370 110 68 54 13 tfor:TF3113|3end_hypothetical_protein_3349706..3349856_POSITIVE 347 109 72 143 92 tfor:TF1472|3end_acyl-ACP_thioesterase_1566337..1566487_POSITIVE 339 70 21 150 104 tfor:TF2672|3end_lipoic_acid_synthetase_2847014..2847164_POSITIVE 328 95 51 137 81 tfor:TF0589|3end_anti-sigma_factor_624603..624753_POSITIVE 327 100 52 117 69 tfor:TF2143|3end_S-adenosylmethionine:tRNA_ribosyltransferase-isomerase_2319704..2319854_POSITIVE 324 56 11 123 80 tfor:TF2661|3end_hypothetical_protein_2835265..2835415_POSITIVE 323 110 68 138 72 tfor:TF2704|3end_ribonuclease_HII_2876921..2877071_POSITIVE 323 110 67 61 13 tfor:TF1807|3end_thioesterase_family_protein_1949425..1949575_POSITIVE 322 49 3 88 42 tfor:TF1475|3end_glucose-6-phosphate_1-dehydrogenase_1569688..1569838_POSITIVE 316 107 67 128 80 tfor:TF1635|3end_conserved_hypothetical_protein;_possible_helicase_1746831..1746981_POSITIVE 313 110 67 90 46 tfor:TF0252|3end_hypothetical_protein_283759..283909_POSITIVE 312 69 21 145 93 tfor:TF1227|3end_hypothetical_protein_1314231..1314381_POSITIVE 312 99 53 66 16 tfor:TF1040|3end_dihydroorotate_dehydrogenase,_electron_transfer_subunit_1102118..1102268_POSITIVE 310 70 22 126 70 tfor:TF2676|3end_conserved_hypothetical_protein_2850831..2850981_POSITIVE 310 110 62 147 90 tfor:TF2275|3end_conserved_hypothetical_protein_2438300..2438450_POSITIVE 309 109 61 87 31 tfor:TF1311|3end_hypothetical_protein_1388558..1388708_POSITIVE 309 109 61 87 31 tfor:TF1310|3end_hypothetical_protein_1388335..1388485_POSITIVE 307 109 65 80 21 tfor:TF2749|3end_possible_hemolysin_2934518..2934668_POSITIVE 305 110 67 109 39 tfor:TF2774|3end_2-amino-4-hydroxy-6-hydroxymethyldihydropteridine_pyrophosphokinase_2959719..2959869_POSITIVE