Origin IGS: tagattacaccctccgtcccttattgttaatattcaaaatttaaacaacactaaaaatatcggccggcttcgccgaccagctgaagcaagacggcgagata .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tatctcgccgtcttgcttcagctggtcggcgaagccggccgatatttttagtgttgtttaaattttgaatattaacaataagggacggagggtgtaatcta Mask Tandem Repeat Region ================================================ tagattacaccctccgtcccttattgttaatattcaaaatttaaacaacactaaaaatatcggccggcttcgccgaccagctgaagcaagacggcgagata Find is-nt database================================================ Query_seq: TF0256:TF0257|TF0256:TF0257:conserved hypothetical protein:hypothetical protein:->->:287649..287749 101 tagattacaccctccgtcccttattgttaatattcaaaatttaaacaacactaaaaatatcggccggcttcgccgaccagctgaagcaagacggcgagata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0256:TF0257|TF0256:TF0257:conserved hypothetical protein:hypothetical protein:->->:287649..287749 101 tagattacaccctccgtcccttattgttaatattcaaaatttaaacaacactaaaaatatcggccggcttcgccgaccagctgaagcaagacggcgagata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0256:TF0257|TF0256:TF0257:conserved hypothetical protein:hypothetical protein:->->:287649..287749 101 tagattacaccctccgtcccttattgttaatattcaaaatttaaacaacactaaaaatatcggccggcttcgccgaccagctgaagcaagacggcgagata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagattacaccctccgtcccttattgttaatattcaaaatttaaacaacactaaaaatatcggccggcttcgccgaccagctgaagcaagacggcgagata Predict ORF larger than 30AA ================================================ tagattacaccctccgtcccttattgttaatattcaaaatttaaacaacactaaaaatatcggccggcttcgccgaccagctgaagcaagacggcgagata 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================================================ tagattacaccctccgtcccttattgttaatattcaaaatttaaacaacactaaaaatatcggccggcttcgccgaccagctgaagcaagacggcgagata Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0256:TF0257|TF0256:TF0257:conserved hypothetical protein:hypothetical protein:->->:287649..287749 101 tagattacaccctccgtcccttattgttaatattcaaaatttaaacaacactaaaaatatcggccggcttcgccgaccagctgaagcaagacggcgagata Intra-Species Hit: Count: 1 Min: 1 Max: 101 Len: 101 Subject: tfor_TF0256_TF0257|conserved hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[287649,287749]|101 HSP 1 e-value: 6.0E-51 bit: 200.0 Len: 101 Query Start:1 Query End:101 Subject Strand: POSITIVE Subject Start: 1 Subject End: 101 tagattacaccctccgtcccttattgttaatattcaaaatttaaacaacactaaaaatatcggccggcttcgccgaccagctgaagcaagacggcgagata tagattacaccctccgtcccttattgttaatattcaaaatttaaacaacactaaaaatatcggccggcttcgccgaccagctgaagcaagacggcgagata Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGAUUACACCCUCCGUCCCUUAUUGUUAAUAUUCAAAAUUUAAACAACACUAAAAAUAUCGGCCGGCUUCGCCGACCAGCUGAAGCAAGACGGCGAGAUA ...........(.(((((.....(((((...............)))))...........(((((((((...))))....))))).....))))).)..... (-17.76) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAUCUCGCCGUCUUGCUUCAGCUGGUCGGCGAAGCCGGCCGAUAUUUUUAGUGUUGUUUAAAUUUUGAAUAUUAACAAUAAGGGACGGAGGGUGUAAUCUA ...(((.(((((((.........(((((((...)))))))..((((.((((((((............)))))))).)))).))))))).)))......... (-29.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 429 100 60 75 42 tfor:TF3070|5end_conserved_hypothetical_protein_3294380..3294610_POSITIVE 416 98 61 88 45 tfor:TF2206|5end_conserved_hypothetical_protein;_possible_sugar_phosphate_isomerase/epimerase_2379969..2380199_POSITIVE 414 99 60 71 21 tfor:TF0063|5end_conserved_hypothetical_protein_66110..66340_POSITIVE 408 98 60 205 166 tfor:TF1304|5end_conserved_hypothetical_protein_1385008..1385238_POSITIVE 400 98 57 76 20 tfor:TF0248|5end_hypothetical_protein_278249..278479_POSITIVE 393 98 58 88 35 tfor:TF2378|5end_peptide_chain_release_factor_1_2542682..2542912_POSITIVE 393 100 60 84 39 tfor:TF0819|5end_phosphoglycerate_mutase_878447..878677_POSITIVE 393 99 57 113 48 tfor:TF0253|5end_conserved_hypothetical_protein_283707..283937_POSITIVE 386 99 60 168 131 tfor:TF2666|5end_hypothetical_protein_2841818..2842048_POSITIVE 383 99 58 56 1 tfor:TF0847|5end_hypothetical_protein_897633..897863_POSITIVE 379 100 63 55 17 tfor:TF1189|5end_outer_membrane_protein,_TonB_dependent_receptor_1270586..1270816_POSITIVE 373 99 60 188 142 tfor:TF1440|5end_hypothetical_protein_1524599..1524829_POSITIVE 372 99 62 209 159 tfor:TF0746|5end_possible_DNA_polymerase_III_792261..792491_POSITIVE 367 100 61 55 17 tfor:TF1026|5end_beta-N-acetylglucosaminidase;_beta_lactamase_1082560..1082790_POSITIVE 365 100 58 61 11 tfor:TF1245|5end_LemA_protein_1328822..1329052_POSITIVE 365 97 63 42 10 tfor:TF0712|5end_TPR-repeat-containing_protein_761348..761578_POSITIVE 364 98 59 211 166 tfor:TF2520|5end_conserved_hypothetical_protein_2698917..2699147_POSITIVE 364 94 60 219 174 tfor:TF2255|5end_transfer_region-related_protein,_TraH_2427504..2427734_POSITIVE 364 96 63 66 32 tfor:TF2134|5end_conserved_hypothetical_protein_2308689..2308919_POSITIVE 362 94 59 166 121 tfor:TF2674|5end_conserved_hypothetical_protein;_possible_phosphoesterase_2848176..2848406_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 416 98 61 49 6 tfor:TF2205|3end_conserved_hypothetical_protein;_possible_transcriptional_regulator_2380010..2380160_POSITIVE 414 99 60 61 11 tfor:TF0062|3end_conserved_hypothetical_protein_66180..66330_POSITIVE 400 98 57 95 39 tfor:TF0247|3end_conserved_hypothetical_protein_278348..278498_POSITIVE 393 100 60 74 29 tfor:TF0818|3end_bifunctional_protein:__aspartokinase_I;_homoserine_dehydrogenase_878517..878667_POSITIVE 393 99 57 85 20 tfor:TF0252|3end_hypothetical_protein_283759..283909_POSITIVE 365 97 61 52 9 tfor:TF0699|3end_pyridoxal_phosphate_biosynthetic_protein_742745..742895_POSITIVE 364 96 63 66 32 tfor:TF2132|3end_TIM-barrel_protein,_NifR3_family_2308769..2308919_POSITIVE 362 99 60 121 84 tfor:TF2640|3end_hypothetical_protein_2809533..2809683_POSITIVE 362 99 60 121 84 tfor:TF2438|3end_hypothetical_protein_2616157..2616307_POSITIVE 362 99 60 121 84 tfor:TF1167|3end_hypothetical_protein_1248932..1249082_POSITIVE 362 95 58 122 95 tfor:TF1066|3end_hypothetical_protein_1136858..1137008_POSITIVE 362 100 59 55 8 tfor:TF0328|3end_conserved_hypothetical_protein_355266..355416_POSITIVE 361 98 57 150 112 tfor:TF2687|3end_iron-regulated_ABC-type_transporter_membrane_component_2864962..2865112_POSITIVE 359 98 61 48 9 tfor:TF0326|3end_hypothetical_protein_354317..354467_POSITIVE 349 100 60 61 7 tfor:TF2263|3end_transfer_region-related_protein,_TraN_2432964..2433114_POSITIVE 345 95 62 121 74 tfor:TF2392|3end_alpha-galactosidase_2565506..2565656_POSITIVE 345 98 60 67 28 tfor:TF0809|3end_cation_efflux_protein_868518..868668_POSITIVE 343 97 60 119 84 tfor:TF2921|3end_hypothetical_protein_3118790..3118940_POSITIVE 340 98 60 42 4 tfor:TF1818|3end_conserved_hypothetical_protein_1958754..1958904_POSITIVE 339 99 60 62 12 tfor:TF0065|3end_conserved_hypothetical_protein_70800..70950_POSITIVE