Origin IGS: aatagttaacctcttttctgatgtatagtaactattatactcgtggagcaattattgtcaaccaattttttaaaataaggtaacaaaaactgtaacggccgatttgctgactgggtaagttgttttcatcatttcgtaaaacatcaaaaaagaagcagacacatttgtatcggcttcttttttttcga .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tcgaaaaaaaagaagccgatacaaatgtgtctgcttcttttttgatgttttacgaaatgatgaaaacaacttacccagtcagcaaatcggccgttacagtttttgttaccttattttaaaaaattggttgacaataattgctccacgagtataatagttactatacatcagaaaagaggttaactatt Mask Tandem Repeat Region ================================================ aatagttaacctcttttctgatgtatagtaactattatactcgtggagcaattattgtcaaccaattttttaaaataaggtaacaaaaactgtaacggccgatttgctgactgggtaagttgttttcatcatttcgtaaaacatcaaaaaagaagcagacacatttgtatcggcttcttttttttcga Find is-nt database================================================ Query_seq: SMT_518:SMT_519|SMT_518:SMT_519:biotin synthase:glutathione reductase:<-<-:443842..444029 188 aatagttaacctcttttctgatgtatagtaactattatactcgtggagcaattattgtcaaccaattttttaaaataaggtaacaaaaactgtaacggccgatttgctgactgggtaagttgttttcatcatttcgtaaaacatcaaaaaagaagcagacacatttgtatcggcttcttttttttcga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_518:SMT_519|SMT_518:SMT_519:biotin synthase:glutathione reductase:<-<-:443842..444029 188 aatagttaacctcttttctgatgtatagtaactattatactcgtggagcaattattgtcaaccaattttttaaaataaggtaacaaaaactgtaacggccgatttgctgactgggtaagttgttttcatcatttcgtaaaacatcaaaaaagaagcagacacatttgtatcggcttcttttttttcga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_518:SMT_519|SMT_518:SMT_519:biotin synthase:glutathione reductase:<-<-:443842..444029 188 aatagttaacctcttttctgatgtatagtaactattatactcgtggagcaattattgtcaaccaattttttaaaataaggtaacaaaaactgtaacggccgatttgctgactgggtaagttgttttcatcatttcgtaaaacatcaaaaaagaagcagacacatttgtatcggcttcttttttttcga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aatagttaacctcttttctgatgtatagtaactattatactcgtggagcaattattgtcaaccaattttttaaaataaggtaacaaaaactgtaacggccgatttgctgactgggtaagttgttttcatcatttcgtaaaacatcaaaaaagaagcagacacatttgtatcggcttcttttttttcga Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: - Start: 73 End: 162 ........................................................................ F L T V F V T V A S K S V P Y T T K M M E Y F M L F S A S M .......................... aatagttaacctcttttctgatgtatagtaactattatactcgtggagcaattattgtcaaccaattttttaaaataaggtaacaaaaactgtaacggccgatttgctgactgggtaagttgttttcatcatttcgtaaaacatcaaaaaagaagcagacacatttgtatcggcttcttttttttcga 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================================================ aatagttaacctcttttctgatgtatagtaactattatactcgtggagcaattattgtcaaccaattttttaaaataaggtaacaaaaactgtaacggccgatttgctgactgggtaagttgttttcatcatttcgtaaaacatcaaaaaagaagcagacacatttgtatcggcttcttttttttcga Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_518:SMT_519|SMT_518:SMT_519:biotin synthase:glutathione reductase:<-<-:443842..444029 188 aatagttaacctcttttctgatgtatagtaactattatactcgtggagcaattattgtcaaccaattttttaaaataaggtaacaaaaactgtaacggccgatttgctgactgggtaagttgttttcatcatttcgtaaaacatcaaaaaagaagcagacacatttgtatcggcttcttttttttcga Intra-Species Hit: Count: 1 Min: 1 Max: 177 Len: 177 Subject: smit_SMT_518_SMT_519|biotin synthase:glutathione reductase|NEGATIVE:NEGATIVE|[443842,444029]|188 HSP 1 e-value: 5.0E-96 bit: 351.0 Len: 177 Query Start:1 Query End:177 Subject Strand: POSITIVE Subject Start: 1 Subject End: 177 aatagttaacctcttttctgatgtatagtaactattatactcgtggagcaattattgtcaaccaattttttaaaataaggtaacaaaaactgtaacggccgatttgctgactgggtaagttgttttcatcatttcgtaaaacatcaaaaaagaagcagacacatttgtatcggcttc........... aatagttaacctcttttctgatgtatagtaactattatactcgtggagcaattattgtcaaccaattttttaaaataaggtaacaaaaactgtaacggccgatttgctgactgggtaagttgttttcatcatttcgtaaaacatcaaaaaagaagcagacacatttgtatcggcttc........... Inter-species Hit: Count: 3 Min: 1 Max: 105 Len: 105 Subject: NC_003028_SP_0783_SP_0784|hypothetical protein:glutathione reductase|NEGATIVE:NEGATIVE|[736709,736904]|196 HSP 1 e-value: 5.0E-22 bit: 105.0 Len: 105 Query Start:1 Query End:105 Subject Strand: POSITIVE Subject Start: 1 Subject End: 105 aatagttaacctcttttctgatgtatagtaactattatactcgtggagcaattattgtcaaccaattttttaaaataaggtaacaaaaactgtaacggccgattt................................................................................... aatagttaacctcttttctaatgtatagtaactattatactcatataggagtcgatgtcaaccattttttaaaaacaaggtaacaaaaactgtaacagccgattt................................................................................... Subject: NC_008533_SPD_0684_SPD_0685|biotin synthase (BioY family protein), putative:glutathione-disulfide reductase|NEGATIVE:NEGATIVE|[698922,699117]|196 HSP 1 e-value: 1.0E-19 bit: 97.6 Len: 105 Query Start:1 Query End:105 Subject Strand: POSITIVE Subject Start: 1 Subject End: 105 aatagttaacctcttttctgatgtatagtaactattatactcgtggagcaattattgtcaaccaattttttaaaataaggtaacaaaaactgtaacggccgattt................................................................................... aatagttaacctcttttctaatgtatactaactattatactcatataggagtcgatgtcaaccattttttaaaaacaaggtaacaaaaactgtaacagccgattt................................................................................... Subject: NC_003098_spr0691_spr0692|Biotin synthase:glutathione reductase|NEGATIVE:NEGATIVE|[691391,691586]|196 HSP 1 e-value: 1.0E-19 bit: 97.6 Len: 105 Query Start:1 Query End:105 Subject Strand: POSITIVE Subject Start: 1 Subject End: 105 aatagttaacctcttttctgatgtatagtaactattatactcgtggagcaattattgtcaaccaattttttaaaataaggtaacaaaaactgtaacggccgattt................................................................................... aatagttaacctcttttctaatgtatactaactattatactcatataggagtcgatgtcaaccattttttaaaaacaaggtaacaaaaactgtaacagccgattt................................................................................... Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUAGUUAACCUCUUUUCUGAUGUAUAGUAACUAUUAUACUCGUGGAGCAAUUAUUGUCAACCAAUUUUUUAAAAUAAGGUAACAAAAACUGUAACGGCCGAUUU .((((((...((((....(((.(((((((....)))))))))).))))......((((..(((...............))).)))).))))))............ (-14.16) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAUCGGCCGUUACAGUUUUUGUUACCUUAUUUUAAAAAAUUGGUUGACAAUAAUUGCUCCACGAGUAUAAUAGUUACUAUACAUCAGAAAAGAGGUUAACUAUU .....((((....(((((.((((((((..((((....)))).)).)))))).)))))......(((((((........))))).))........))))....... (-16.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 799 50 1 141 92 smit:SMT_518|5end_biotin_synthase_443751..443981_NEGATIVE 290 49 6 99 54 smit:SMT_1497|5end_acetyltransferase,_GNAT_family_1481432..1481662_POSITIVE 240 45 2 131 90 smit:SMT_1244|5end_putative_repressor_protein_1204392..1204622_POSITIVE 221 50 10 147 100 smit:SMT_1658|5end_hypothetical_protein_1648201..1648431_POSITIVE 217 63 26 67 30 smit:SMT_1545|5end_choline-binding_protein_1530026..1530256_NEGATIVE 212 45 10 140 101 smit:SMT_338|5end_heat-inducible_transcription_repressor_HrcA_276825..277055_POSITIVE 204 47 9 131 97 smit:SMT_1965|5end_hypothetical_protein_1897044..1897274_POSITIVE 204 47 9 131 97 smit:SMT_74|5end_hypothetical_protein_2197..2427_NEGATIVE 201 46 3 137 83 smit:SMT_2027|5end_competence-specific_global_transcription_modulator_1943204..1943434_NEGATIVE 201 49 10 144 99 smit:SMT_1425|5end_hypothetical_protein_1410805..1411035_NEGATIVE 200 83 44 209 168 smit:SMT_1951|5end_ABC_transporter,_ATP-binding_protein_1886061..1886291_NEGATIVE 196 49 2 137 90 smit:SMT_1215|5end_aromatic_amino_acid_aminotransferase_1174588..1174818_NEGATIVE 195 40 2 127 90 smit:SMT_1622|5end_K03499_trk_system_potassium_uptake_protein_TrkA_1608243..1608473_POSITIVE 195 45 5 131 95 smit:SMT_643|5end_hypothetical_protein_548495..548725_NEGATIVE 195 50 3 71 11 smit:SMT_244|5end_PTS_system,_mannose-specific_IIAB_component_181857..182087_NEGATIVE 191 59 11 99 49 smit:SMT_1854|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1818375..1818605_POSITIVE 191 100 58 146 108 smit:SMT_777|5end_hypothetical_protein_686770..687000_NEGATIVE 191 44 10 131 100 smit:SMT_157|5end_hypothetical_protein_103525..103755_POSITIVE 190 58 11 146 103 smit:SMT_134|5end_LysM_domain_protein_85427..85657_POSITIVE 189 71 39 67 31 smit:SMT_1683|5end_phenylalanyl-tRNA_synthetase_beta_chain_1667171..1667401_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 290 49 6 109 64 smit:SMT_1496|3end_conserved_hypothetical_protein_TIGR00150_1481522..1481672_POSITIVE 280 80 33 149 102 smit:SMT_802|3end_aldo/keto_reductase_family_711486..711636_NEGATIVE 240 45 2 128 87 smit:SMT_1243|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1204469..1204619_POSITIVE 236 55 11 134 84 smit:SMT_339|3end_K03687_molecular_chaperone_GrpE_278490..278640_POSITIVE 220 67 26 131 92 smit:SMT_1711|3end_Xaa-Pro_dipeptidase_1696433..1696583_NEGATIVE 220 67 26 131 92 smit:SMT_1709|3end_aminopeptidase_P_1694956..1695106_NEGATIVE 201 49 10 85 40 smit:SMT_1426|3end_K03095_SprT-like_protein_1410864..1411014_NEGATIVE 200 80 32 75 32 smit:SMT_304|3end_hypothetical_protein_247583..247733_POSITIVE 195 50 3 65 5 smit:SMT_245|3end_hypothetical_protein_predicted_by_Glimmer/Critica_181863..182013_NEGATIVE 191 45 10 35 2 smit:SMT_644|3end_O-acetylhomoserine_(thiol)-lyase_548591..548741_NEGATIVE 191 44 10 44 13 smit:SMT_156|3end_hypothetical_protein_103518..103668_POSITIVE 181 49 5 43 6 smit:SMT_1034|3end_K05896_segregation_and_condensation_protein_A_976768..976918_NEGATIVE 180 49 14 126 74 smit:SMT_273|3end_glucan_1,6-alpha-glucosidase_215105..215255_POSITIVE 179 61 21 149 116 smit:SMT_1221|3end_choline_binding_protein_A_1183986..1184136_NEGATIVE 179 53 14 68 20 smit:SMT_336|3end_hypothetical_protein_275622..275772_POSITIVE 171 70 42 61 31 smit:SMT_929|3end_hypothetical_protein_883202..883352_NEGATIVE 170 71 41 110 74 smit:SMT_1517|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1498497..1498647_POSITIVE 170 84 41 150 113 smit:SMT_1108|3end_acetate_kinase_1048122..1048272_NEGATIVE 170 73 42 141 111 smit:SMT_307|3end_K02078_acyl_carrier_protein_249401..249551_POSITIVE 169 60 12 131 74 smit:SMT_1192|3end_phosphoribosylaminoimidazolecarboxamide_formyltransferase_/_IMP_cyclohydrolase_1149859..1150009_NEGATIVE