Origin IGS: cttaatgttctaatgacatgattcgtgcaaaagtcgtttttttctccgaaaaacaaaaatctatttcacctatattctgttcattctatctttttgtatcgcagacagcgctttcttgcgataactgttttatctttgcgcctcattttaacaggtgaag .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 cttcacctgttaaaatgaggcgcaaagataaaacagttatcgcaagaaagcgctgtctgcgatacaaaaagatagaatgaacagaatataggtgaaatagatttttgtttttcggagaaaaaaacgacttttgcacgaatcatgtcattagaacattaag Mask Tandem Repeat Region ================================================ cttaatgttctaatgacatgattcgtgcaaaagtcgtttttttctccgaaaaacaaaaatctatttcacctatattctgttcattctatctttttgtatcgcagacagcgctttcttgcgataactgttttatctttgcgcctcattttaacaggtgaag Find is-nt database================================================ Query_seq: TF0800:TF0801|TF0800:TF0801:conserved hypothetical protein:transport permease:->->:858566..858725 160 cttaatgttctaatgacatgattcgtgcaaaagtcgtttttttctccgaaaaacaaaaatctatttcacctatattctgttcattctatctttttgtatcgcagacagcgctttcttgcgataactgttttatctttgcgcctcattttaacaggtgaag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0800:TF0801|TF0800:TF0801:conserved hypothetical protein:transport permease:->->:858566..858725 160 cttaatgttctaatgacatgattcgtgcaaaagtcgtttttttctccgaaaaacaaaaatctatttcacctatattctgttcattctatctttttgtatcgcagacagcgctttcttgcgataactgttttatctttgcgcctcattttaacaggtgaag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0800:TF0801|TF0800:TF0801:conserved hypothetical protein:transport permease:->->:858566..858725 160 cttaatgttctaatgacatgattcgtgcaaaagtcgtttttttctccgaaaaacaaaaatctatttcacctatattctgttcattctatctttttgtatcgcagacagcgctttcttgcgataactgttttatctttgcgcctcattttaacaggtgaag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cttaatgttctaatgacatgattcgtgcaaaagtcgtttttttctccgaaaaacaaaaatctatttcacctatattctgttcattctatctttttgtatcgcagacagcgctttcttgcgataactgttttatctttgcgcctcattttaacaggtgaag Predict ORF larger than 30AA ================================================ Protein_Len: 47 Strand: + Start: 18 End: 155 ................. M I R A K V V F F S E K Q K S I S P I F C S F Y L F V S Q T A L S C D N C F I F A P H F N R * ..... Protein_Len: 45 Strand: + Start: 25 End: 159 ........................ M Q K S F F S P K N K N L F H L Y S V H S I F L Y R R Q R F L A I T V L S L R L I L T G E . cttaatgttctaatgacatgattcgtgcaaaagtcgtttttttctccgaaaaacaaaaatctatttcacctatattctgttcattctatctttttgtatcgcagacagcgctttcttgcgataactgttttatctttgcgcctcattttaacaggtgaag 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================================================ cttaatgttctaatgacatgattcgtgcaaaagtcgtttttttctccgaaaaacaaaaatctatttcacctatattctgttcattctatctttttgtatcgcagacagcgctttcttgcgataactgttttatctttgcgcctcattttaacaggtgaag Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 50 HP_score: -2.9 Tail_Score: -3.60431 Start: 120 End: 134 Full_Region: ACAGCGCTTTCTTGC GATAA CTGTT TTATC TTTGCGCCTCATTTT .......................................................................................................................GATAACTGTTTTATC.......................... Find igs database================================================ Query_seq: TF0800:TF0801|TF0800:TF0801:conserved hypothetical protein:transport permease:->->:858566..858725 160 cttaatgttctaatgacatgattcgtgcaaaagtcgtttttttctccgaaaaacaaaaatctatttcacctatattctgttcattctatctttttgtatcgcagacagcgctttcttgcgataactgttttatctttgcgcctcattttaacaggtgaag Intra-Species Hit: Count: 1 Min: 1 Max: 160 Len: 160 Subject: tfor_TF0800_TF0801|conserved hypothetical protein:transport permease|POSITIVE:POSITIVE|[858566,858725]|160 HSP 1 e-value: 2.0E-73 bit: 276.0 Len: 160 Query Start:1 Query End:160 Subject Strand: POSITIVE Subject Start: 1 Subject End: 160 cttaatgttctaatgacatgattcgtgcaaaagtcgnnnnnnnctccgaaaaacaaaaatctatttcacctatattctgttcattctatctttttgtatcgcagacagcgctttcttgcgataactgttttatctttgcgcctcattttaacaggtgaag cttaatgttctaatgacatgattcgtgcaaaagtcgtttttttctccgaaaaacaaaaatctatttcacctatattctgttcattctatctttttgtatcgcagacagcgctttcttgcgataactgttttatctttgcgcctcattttaacaggtgaag Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUUAAUGUUCUAAUGACAUGAUUCGUGCAAAAGUCGUUUUUUUCUCCGAAAAACAAAAAUCUAUUUCACCUAUAUUCUGUUCAUUCUAUCUUUUUGUAUCGCAGACAGCGCUUUCUUGCGAUAACUGUUUUAUCUUUGCGCCUCAUUUUAACAGGUGAAG .(((.((((..(((((........(((((((....(((((((.....))))))).........................................(((..((((....(((......)))....))))..))).))))))).)))))..))))..))).. (-24.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUUCACCUGUUAAAAUGAGGCGCAAAGAUAAAACAGUUAUCGCAAGAAAGCGCUGUCUGCGAUACAAAAAGAUAGAAUGAACAGAAUAUAGGUGAAAUAGAUUUUUGUUUUUCGGAGAAAAAAACGACUUUUGCACGAAUCAUGUCAUUAGAACAUUAAG .(((((((((.....((..................(((.((....)).))).((((((...........))))))......))....)))))))))...(((((.(((...(((..........))).....))).)))))................... (-29.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 355 145 101 63 1 tfor:TF1825|5end_mannose-6-phosphate_isomerase_1973578..1973808_POSITIVE 350 145 101 63 1 tfor:TF1981|5end_mannose-6-phosphate_isomerase_2130896..2131126_POSITIVE 318 145 109 216 179 tfor:TF0310|5end_conserved_hypothetical_protein_334685..334915_POSITIVE 314 145 101 67 24 tfor:TF2724|5end_anti-sigma_factor_2898193..2898423_POSITIVE 314 140 93 110 66 tfor:TF0761|5end_conserved_hypothetical_protein_806412..806642_POSITIVE 312 124 84 142 101 tfor:TF2704|5end_ribonuclease_HII_2876242..2876472_POSITIVE 302 150 101 220 170 tfor:TF2562|5end_50S_ribosomal_protein_L29_2739133..2739363_POSITIVE 293 144 101 51 3 tfor:TF2357|5end_collagenase_2522561..2522791_POSITIVE 291 127 94 50 17 tfor:TF0680|5end_tail-specific_protease_721393..721623_POSITIVE 283 129 84 184 128 tfor:TF2661|5end_hypothetical_protein_2833509..2833739_POSITIVE 283 150 110 227 191 tfor:TF0984|5end_possible_mucin-desulfating_sulfatase_(MdsC_protein)_1040259..1040489_POSITIVE 281 147 101 170 122 tfor:TF2657|5end_conserved_hypothetical_protein_2829729..2829959_POSITIVE 280 157 111 64 19 tfor:TF3094|5end_translation_elongation_factor_Ts_3326122..3326352_POSITIVE 280 109 77 129 89 tfor:TF1900|5end_conserved_hypothetical_protein_2053867..2054097_POSITIVE 280 120 73 113 63 tfor:TF0297|5end_RNA_polymerase_sigma-70_factor,_ECF_subfamily_322234..322464_POSITIVE 278 144 107 58 21 tfor:TF2007|5end_uracil_phosphoribosyltransferase_2158591..2158821_POSITIVE 277 130 95 226 181 tfor:TF1929|5end_conserved_hypothetical_protein_2076049..2076279_POSITIVE 277 146 101 215 170 tfor:TF0092|5end_outer_membrane_protein_98889..99119_POSITIVE 273 140 94 66 9 tfor:TF3138|5end_Na+-translocating_quinone_reductase,_subunit_D_3371948..3372178_POSITIVE 273 119 78 225 186 tfor:TF0497|5end_conserved_hypothetical_protein_524058..524288_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 343 110 80 30 1 tfor:TF3043|3end_conserved_hypothetical_protein_3272409..3272559_POSITIVE 328 145 109 139 93 tfor:TF1968|3end_conserved_hypothetical_protein_2115959..2116109_POSITIVE 313 150 101 90 15 tfor:TF1917|3end_hypothetical_protein_2070244..2070394_POSITIVE 312 124 84 137 96 tfor:TF2703|3end_conserved_hypothetical_protein_2876317..2876467_POSITIVE 306 109 68 118 86 tfor:TF2338|3end_conserved_hypothetical_protein_2500006..2500156_POSITIVE 298 142 106 130 97 tfor:TF0535|3end_surface_antigen_BspA_561701..561851_POSITIVE 293 119 76 84 35 tfor:TF2889|3end_50S_ribosomal_protein_L27_3078688..3078838_POSITIVE 291 127 94 66 33 tfor:TF0679|3end_hypothetical_protein_721489..721639_POSITIVE 284 141 101 96 50 tfor:TF0309|3end_conserved_hypothetical_protein_334775..334925_POSITIVE 283 129 84 135 79 tfor:TF2660|3end_hypothetical_protein_2833540..2833690_POSITIVE 280 120 73 56 6 tfor:TF0296|3end_hypothetical_protein_322257..322407_POSITIVE 274 142 101 148 107 tfor:TF0757|3end_50S_ribosomal_protein_L25;_general_stress_protein_805293..805443_POSITIVE 271 140 92 145 91 tfor:TF3120|3end_HD_superfamily_hydrolase_3354775..3354925_POSITIVE 267 119 74 100 40 tfor:TF2217|3end_hypothetical_protein_2390165..2390315_POSITIVE 267 143 102 63 9 tfor:TF0774|3end_membrane-fusion_protein;_36_kDa_antigen_823730..823880_POSITIVE 263 149 101 60 12 tfor:TF2581|3end_50S_ribosomal_protein_L17_2749370..2749520_POSITIVE 262 143 103 113 60 tfor:TF3006|3end_response_regulator,_transcriptional_regulator_RprY_3227162..3227312_POSITIVE 260 127 93 57 21 tfor:TF2143|3end_S-adenosylmethionine:tRNA_ribosyltransferase-isomerase_2319704..2319854_POSITIVE 260 119 77 140 104 tfor:TF1292|3end_sensor_histidine_protein_kinase_1374554..1374704_POSITIVE 258 141 101 149 108 tfor:TF1947|3end_conserved_hypothetical_protein_2096023..2096173_POSITIVE