Origin IGS: gactcattttttttaacaaataaatattttttcatacaatctcatgacaaaggtagaaaaagaaaacagaaaaccggacttcatagcaaaaacttttttattgtgtctcatcaacaagaggcggaaaatttatctcctctctcccgcggacaaagcttttca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgaaaagctttgtccgcgggagagaggagataaattttccgcctcttgttgatgagacacaataaaaaagtttttgctatgaagtccggttttctgttttctttttctacctttgtcatgagattgtatgaaaaaatatttatttgttaaaaaaaatgagtc Mask Tandem Repeat Region ================================================ gactcattttttttaacaaataaatattttttcatacaatctcatgacaaaggtagaaaaagaaaacagaaaaccggacttcatagcaaaaacttttttattgtgtctcatcaacaagaggcggaaaatttatctcctctctcccgcggacaaagcttttca Find is-nt database================================================ Query_seq: TF0687:TF0688|TF0687:TF0688:hypothetical protein:membrane-associated protein, possible sulfatase family:->->:732738..732899 162 gactcattttttttaacaaataaatattttttcatacaatctcatgacaaaggtagaaaaagaaaacagaaaaccggacttcatagcaaaaacttttttattgtgtctcatcaacaagaggcggaaaatttatctcctctctcccgcggacaaagcttttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0687:TF0688|TF0687:TF0688:hypothetical protein:membrane-associated protein, possible sulfatase family:->->:732738..732899 162 gactcattttttttaacaaataaatattttttcatacaatctcatgacaaaggtagaaaaagaaaacagaaaaccggacttcatagcaaaaacttttttattgtgtctcatcaacaagaggcggaaaatttatctcctctctcccgcggacaaagcttttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0687:TF0688|TF0687:TF0688:hypothetical protein:membrane-associated protein, possible sulfatase family:->->:732738..732899 162 gactcattttttttaacaaataaatattttttcatacaatctcatgacaaaggtagaaaaagaaaacagaaaaccggacttcatagcaaaaacttttttattgtgtctcatcaacaagaggcggaaaatttatctcctctctcccgcggacaaagcttttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gactcattttttttaacaaataaatattttttcatacaatctcatgacaaaggtagaaaaagaaaacagaaaaccggacttcatagcaaaaacttttttattgtgtctcatcaacaagaggcggaaaatttatctcctctctcccgcggacaaagcttttca Predict ORF larger than 30AA ================================================ Protein_Len: 47 Strand: + Start: 20 End: 160 ................... M N I F S Y N L M T K V E K E N R K P D F I A K T F L L C L I N K R R K I Y L L S P A D K A F .. Protein_Len: 43 Strand: + Start: 34 End: 162 ................................. M Q S H D K G R K R K Q K T G L H S K N F F I V S H Q Q E A E N L S P L S R G Q S F S Protein_Len: 38 Strand: - Start: 16 End: 129 ............... C I F I K E Y L R M V F T S F S F L F G S K M A F V K K N H R M L L L R F M ................................. gactcattttttttaacaaataaatattttttcatacaatctcatgacaaaggtagaaaaagaaaacagaaaaccggacttcatagcaaaaacttttttattgtgtctcatcaacaagaggcggaaaatttatctcctctctcccgcggacaaagcttttca Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: + Score: 81 Start: 11 End: 40 ..........TTTTAACAAATAAATATTTTTTCATACAAT.......................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ gactcattttttttaacaaataaatattttttcatacaatctcatgacaaaggtagaaaaagaaaacagaaaaccggacttcatagcaaaaacttttttattgtgtctcatcaacaagaggcggaaaatttatctcctctctcccgcggacaaagcttttca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0687:TF0688|TF0687:TF0688:hypothetical protein:membrane-associated protein, possible sulfatase family:->->:732738..732899 162 gactcattttttttaacaaataaatattttttcatacaatctcatgacaaaggtagaaaaagaaaacagaaaaccggacttcatagcaaaaacttttttattgtgtctcatcaacaagaggcggaaaatttatctcctctctcccgcggacaaagcttttca Intra-Species Hit: Count: 1 Min: 15 Max: 162 Len: 148 Subject: tfor_TF0687_TF0688|hypothetical protein:membrane-associated protein, possible sulfatase family|POSITIVE:POSITIVE|[732738,732899]|162 HSP 1 e-value: 9.0E-79 bit: 293.0 Len: 148 Query Start:15 Query End:162 Subject Strand: POSITIVE Subject Start: 15 Subject End: 162 ..............aacaaataaatattttttcatacaatctcatgacaaaggtagaaaaagaaaacagaaaaccggacttcatagcaaaaacttttttattgtgtctcatcaacaagaggcggaaaatttatctcctctctcccgcggacaaagcttttca ..............aacaaataaatattttttcatacaatctcatgacaaaggtagaaaaagaaaacagaaaaccggacttcatagcaaaaacttttttattgtgtctcatcaacaagaggcggaaaatttatctcctctctcccgcggacaaagcttttca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AACAAAUAAAUAUUUUUUCAUACAAUCUCAUGACAAAGGUAGAAAAAGAAAACAGAAAACCGGACUUCAUAGCAAAAACUUUUUUAUUGUGUCUCAUCAACAAGAGGCGGAAAAUUUAUCUCCUCUCUCCCGCGGACAAAGCUUUUCA ..........(((((((((((........)))).)))))))......(((((.......(((.....(((((.((((....)))).)))))...........(((((.(((.......))))))))......))).......))))). (-17.54) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAAAAGCUUUGUCCGCGGGAGAGAGGAGAUAAAUUUUCCGCCUCUUGUUGAUGAGACACAAUAAAAAAGUUUUUGCUAUGAAGUCCGGUUUUCUGUUUUCUUUUUCUACCUUUGUCAUGAGAUUGUAUGAAAAAAUAUUUAUUUGUU .(((((.(.(..((.(((((((.(.(((((.....))))).)))))))).))..).............(((....))).........).))))).......(((((((((....(((....))).))).))))))............. (-26.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 305 136 97 188 147 tfor:TF0656|5end_acetyltransferase,_possible_GNAT_family_702045..702275_POSITIVE 304 137 91 76 27 tfor:TF3088|5end_conserved_hypothetical_protein_3322512..3322742_POSITIVE 303 135 93 175 142 tfor:TF3103|5end_outer_membrane_protein_3332982..3333212_POSITIVE 285 138 98 161 118 tfor:TF3110|5end_conserved_hypothetical_protein_with_helicase_domain_3342714..3342944_POSITIVE 285 135 91 143 93 tfor:TF2777|5end_hypothetical_protein_2961595..2961825_POSITIVE 285 138 106 51 6 tfor:TF2422|5end_hypothetical_protein_2601298..2601528_POSITIVE 283 130 85 230 175 tfor:TF1407|5end_hypothetical_protein_1482185..1482415_POSITIVE 280 136 93 144 107 tfor:TF2348|5end_outer_membrane_protein,_possibly_involved_in_nutrient_binding_2511088..2511318_POSITIVE 273 136 103 87 61 tfor:TF2409|5end_hypothetical_protein_2582972..2583202_POSITIVE 266 134 102 202 164 tfor:TF0554|5end_Bacteroides_aerotolerance_protein,_BatC_586303..586533_POSITIVE 261 136 97 167 122 tfor:TF1842|5end_hypothetical_protein_1992571..1992801_POSITIVE 260 134 105 110 81 tfor:TF1067|5end_conserved_hypothetical_protein_1136867..1137097_POSITIVE 259 139 103 63 30 tfor:TF2946|5end_conserved_hypothetical_protein;_possible_ATPase_3151750..3151980_POSITIVE 259 140 91 123 81 tfor:TF1763|5end_K+-dependent_Na+/Ca+_exchanger_related-protein_1900406..1900636_POSITIVE 254 134 107 91 62 tfor:TF2848|5end_cobalamin_biosynthesis_protein_3036368..3036598_POSITIVE 254 136 101 63 28 tfor:TF1229|5end_hypothetical_protein_1314619..1314849_POSITIVE 251 133 96 229 195 tfor:TF3149|5end_conserved_hypothetical_protein_3384424..3384654_POSITIVE 251 130 87 130 84 tfor:TF1470|5end_phosphohydrolase,_Icc_family_1563144..1563374_POSITIVE 250 134 103 190 146 tfor:TF0931|5end_superfamily_II_DNA/RNA_helicase,_SNF2_family_970031..970261_POSITIVE 248 135 97 210 167 tfor:TF2817|5end_hypothetical_protein_3007358..3007588_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 304 137 91 66 17 tfor:TF3087|3end_conserved_hypothetical_protein_3322582..3322732_POSITIVE 303 135 93 82 49 tfor:TF3102|3end_hypothetical_protein_3332969..3333119_POSITIVE 303 136 94 49 6 tfor:TF0369|3end_hypothetical_protein_386186..386336_POSITIVE 283 138 102 137 105 tfor:TF2902|3end_holliday_junction_DNA_helicase_3098480..3098630_POSITIVE 283 136 104 65 27 tfor:TF1762|3end_hypothetical_protein_1899648..1899798_POSITIVE 280 136 93 68 31 tfor:TF2347|3end_outer_membrane_protein,_TonB_dependent_receptor_2511092..2511242_POSITIVE 261 136 97 56 11 tfor:TF1841|3end_hypothetical_protein_1992267..1992417_POSITIVE 259 139 103 35 2 tfor:TF2945|3end_DNA-directed_RNA_polymerase_beta'_subunit_3151802..3151952_POSITIVE 254 134 107 112 83 tfor:TF2846|3end_cobyric_acid_synthase_3036469..3036619_POSITIVE 253 136 100 78 25 tfor:TF2657|3end_conserved_hypothetical_protein_2830873..2831023_POSITIVE 253 136 93 127 87 tfor:TF1296|3end_possible_DNA-binding_protein,_histone-like_family_1378982..1379132_POSITIVE 246 88 51 70 32 tfor:TF0281|3end_hypothetical_protein_309159..309309_POSITIVE 245 140 96 123 70 tfor:TF2946|3end_conserved_hypothetical_protein;_possible_ATPase_3153362..3153512_POSITIVE 245 98 78 82 62 tfor:TF2580|3end_RNA_polymerase,_alpha_subunit_2748884..2749034_POSITIVE 241 137 107 39 11 tfor:TF0460|3end_hypothetical_protein_477070..477220_POSITIVE 239 137 100 53 1 tfor:TF0662|3end_hypothetical_protein_708554..708704_POSITIVE 237 136 91 38 1 tfor:TF2374|3end_UDP-3-O-(R-3-hydoxymyristoyl)-glucosamine-N-acylt_ransferase_2540892..2541042_POSITIVE 237 137 101 87 34 tfor:TF0351|3end_hypothetical_protein_371226..371376_POSITIVE 235 136 104 56 21 tfor:TF2922|3end_surface_antigen_BspA_3121538..3121688_POSITIVE 235 98 53 86 44 tfor:TF2384|3end_thiol:disulfide_interchange_protein_2550756..2550906_POSITIVE