Origin IGS: caagacaccaataaaaaattnnnnnttaattaattaannnnngattttccatagggtaacttctgtagaagaccctaatactcttcgaaaatctctgcaaacaaatagaaaaagccttcaaaatcggctcttagccaactttgaagacctaatacatcagaaagc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gctttctgatgtattaggtcttcaaagttggctaagagccgattttgaaggctttttctatttgtttgcagagattttcgaagagtattagggtcttctacagaagttaccctatggaaaatcnnnnnttaattaattaannnnnaattttttattggtgtcttg Mask Tandem Repeat Region ================================================ caagacaccaataaaaaattnnnnnttaattaattaannnnngattttccatagggtaacttctgtagaagaccctaatactcttcgaaaatctctgcaaacaaatagaaaaagccttcaaaatcggctcttagccaactttgaagacctaatacatcagaaagc Find is-nt database================================================ Query_seq: SMT_741:SMT_742|SMT_741:SMT_742:K06147 ATP-binding cassette, subfamily B, bacterial:hypothetical protein:<-<-:645709..645873 165 caagacaccaataaaaaattnnnnnttaattaattaannnnngattttccatagggtaacttctgtagaagaccctaatactcttcgaaaatctctgcaaacaaatagaaaaagccttcaaaatcggctcttagccaactttgaagacctaatacatcagaaagc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_741:SMT_742|SMT_741:SMT_742:K06147 ATP-binding cassette, subfamily B, bacterial:hypothetical protein:<-<-:645709..645873 165 caagacaccaataaaaaattnnnnnttaattaattaannnnngattttccatagggtaacttctgtagaagaccctaatactcttcgaaaatctctgcaaacaaatagaaaaagccttcaaaatcggctcttagccaactttgaagacctaatacatcagaaagc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_741:SMT_742|SMT_741:SMT_742:K06147 ATP-binding cassette, subfamily B, bacterial:hypothetical protein:<-<-:645709..645873 165 caagacaccaataaaaaattnnnnnttaattaattaannnnngattttccatagggtaacttctgtagaagaccctaatactcttcgaaaatctctgcaaacaaatagaaaaagccttcaaaatcggctcttagccaactttgaagacctaatacatcagaaagc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 caagacaccaataaaaaattnnnnnttaattaattaannnnngattttccatagggtaacttctgtagaagaccctaatactcttcgaaaatctctgcaaacaaatagaaaaagccttcaaaatcggctcttagccaactttgaagacctaatacatcagaaagc Predict ORF larger than 30AA ================================================ Protein_Len: 40 Strand: + Start: 44 End: 163 ........................................... M F H R V T S V E D P N T L R K S L Q T N R K S L Q N R L L A N F E D L I H Q K .. Protein_Len: 32 Strand: - Start: 29 End: 124 ............................ N I L X X N E M P Y S R Y F V R I S K S F R Q L C I S F A K L M ......................................... caagacaccaataaaaaattnnnnnttaattaattaannnnngattttccatagggtaacttctgtagaagaccctaatactcttcgaaaatctctgcaaacaaatagaaaaagccttcaaaatcggctcttagccaactttgaagacctaatacatcagaaagc 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================================================ caagacaccaataaaaaattnnnnnttaattaattaannnnngattttccatagggtaacttctgtagaagaccctaatactcttcgaaaatctctgcaaacaaatagaaaaagccttcaaaatcggctcttagccaactttgaagacctaatacatcagaaagc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_741:SMT_742|SMT_741:SMT_742:K06147 ATP-binding cassette, subfamily B, bacterial:hypothetical protein:<-<-:645709..645873 165 caagacaccaataaaaaattnnnnnttaattaattaannnnngattttccatagggtaacttctgtagaagaccctaatactcttcgaaaatctctgcaaacaaatagaaaaagccttcaaaatcggctcttagccaactttgaagacctaatacatcagaaagc Intra-Species Hit: Count: 1 Min: 1 Max: 165 Len: 165 Subject: smit_SMT_741_SMT_742|K06147 ATP-binding cassette, subfamily B, bacterial:hypothetical protein|NEGATIVE:NEGATIVE|[645709,645873]|165 HSP 1 e-value: 5.0E-71 bit: 268.0 Len: 165 Query Start:1 Query End:165 Subject Strand: POSITIVE Subject Start: 1 Subject End: 165 caagacaccaataaaaaattnnnnnttaattaattaannnnngattttccatagggtaacttctgtagaagaccctaatactcttcgaaaatctctgcaaacaaatagaaaaagccttcaaaatcggctcttagccaactttgaagacctaatacatcagaaagc caagacaccaataaaaaattnnnnnttaattaattaannnnngattttccatagggtaacttctgtagaagaccctaatactcttcgaaaatctctgcaaacaaatagaaaaagccttcaaaatcggctcttagccaactttgaagacctaatacatcagaaagc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAAGACACCAAUAAAAAAUUNNNNNUUAAUUAAUUAANNNNNGAUUUUCCAUAGGGUAACUUCUGUAGAAGACCCUAAUACUCUUCGAAAAUCUCUGCAAACAAAUAGAAAAAGCCUUCAAAAUCGGCUCUUAGCCAACUUUGAAGACCUAAUACAUCAGAAAGC ............................................(((((..((((((..((((....))))))))))....((((((((....((((........))))................(((.....)))...))))))))............))))). (-25.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCUUUCUGAUGUAUUAGGUCUUCAAAGUUGGCUAAGAGCCGAUUUUGAAGGCUUUUUCUAUUUGUUUGCAGAGAUUUUCGAAGAGUAUUAGGGUCUUCUACAGAAGUUACCCUAUGGAAAAUCNNNNNUUAAUUAAUUAANNNNNAAUUUUUUAUUGGUGUCUUG ((...(.((((.(..(((((((((((((((((.....)))))))))))))))))..).)))).)...)).(((((..((((.......((((((((((....))))..)))))).(((((((......((((....))))......))))))).)))).))))). (-43.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 862 100 51 191 142 smit:SMT_741|5end_K06147_ATP-binding_cassette,_subfamily_B,_bacterial_645618..645848_NEGATIVE 331 102 75 147 120 smit:SMT_1783|5end_peptide_methionine_sulfoxide_reductase_1759756..1759986_POSITIVE 327 102 73 189 162 smit:SMT_1592|5end_putative_hemolysin_1579655..1579885_POSITIVE 305 116 74 144 101 smit:SMT_1200|5end_K06148_ATP-binding_cassette,_subfamily_C,_bacterial_1163235..1163465_NEGATIVE 303 118 74 147 101 smit:SMT_2133|5end_hypothetical_protein_2014007..2014237_NEGATIVE 303 118 74 147 101 smit:SMT_872|5end_hypothetical_protein_820618..820848_NEGATIVE 303 118 74 147 101 smit:SMT_385|5end_hypothetical_protein_319895..320125_POSITIVE 302 102 76 221 195 smit:SMT_496|5end_superoxide_dismutase,_manganese-dependent_430433..430663_POSITIVE 294 93 54 185 145 smit:SMT_1139|5end_rRNA_(guanine-N1-)-methyltransferase_1079755..1079985_POSITIVE 293 92 52 231 195 smit:SMT_776|5end_hypothetical_protein_686202..686432_POSITIVE 292 140 92 201 161 smit:SMT_1534|5end_signal_peptidase_I_1517218..1517448_POSITIVE 290 149 104 89 33 smit:SMT_1112|5end_K02248_competence_protein_ComGF_1051848..1052078_NEGATIVE 275 118 78 193 152 smit:SMT_236|5end_ribosomal_small_subunit_pseudouridine_synthase_A_174625..174855_POSITIVE 270 100 55 179 133 smit:SMT_1026|5end_sucrose_phosphorylase_962324..962554_NEGATIVE 269 100 52 218 170 smit:SMT_957|5end_UDP-glucose_4-epimerase_905003..905233_NEGATIVE 269 100 52 218 170 smit:SMT_950|5end_UDP-glucose_4-epimerase_898696..898926_NEGATIVE 253 159 112 57 15 smit:SMT_1077|5end_GTP_cyclohydrolase_I_1015410..1015640_NEGATIVE 251 160 113 138 86 smit:SMT_2032|5end_hydrolase,_alpha/beta_fold_family_1946421..1946651_NEGATIVE 250 137 93 221 180 smit:SMT_1287|5end_50S_ribosomal_protein_L9_1250358..1250588_POSITIVE 245 108 64 159 108 smit:SMT_1488|5end_K06147_ATP-binding_cassette,_subfamily_B,_bacterial_1467157..1467387_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 331 102 75 51 24 smit:SMT_1782|3end_hypothetical_protein_1759740..1759890_POSITIVE 307 118 78 141 100 smit:SMT_123|3end_hypothetical_protein_75623..75773_POSITIVE 304 102 64 59 24 smit:SMT_131|3end_phosphatase,_putative_83031..83181_NEGATIVE 297 126 82 139 98 smit:SMT_1911|3end_hypothetical_protein_1857840..1857990_POSITIVE 297 126 82 139 98 smit:SMT_867|3end_hypothetical_protein_816542..816692_POSITIVE 290 149 104 126 70 smit:SMT_1113|3end_hypothetical_protein_1051811..1051961_NEGATIVE 253 159 112 76 34 smit:SMT_1078|3end_folylpolyglutamate_synthase_1015391..1015541_NEGATIVE 250 129 81 83 44 smit:SMT_494|3end_K04767_acetoin_utilization_protein_AcuB_428891..429041_POSITIVE 244 90 52 150 112 smit:SMT_269|3end_phospho-N-acetylmuramoyl-pentapeptide-transferas_e_208785..208935_POSITIVE 243 99 55 124 82 smit:SMT_199|3end_K07166_ACT_domain-containing_protein_129817..129967_POSITIVE 237 100 52 47 12 smit:SMT_1669|3end_potassium_uptake_protein_KtrB_1658302..1658452_NEGATIVE 233 160 123 141 103 smit:SMT_128|3end_K03449_MFS_transporter,_CP_family,_cyanate_transporter_78702..78852_NEGATIVE 232 147 102 45 5 smit:SMT_948|3end_hypothetical_protein_predicted_by_Glimmer/Critica_896655..896805_NEGATIVE 229 100 54 137 96 smit:SMT_1646|3end_3-isopropylmalate_dehydratase_large_subunit_1633473..1633623_POSITIVE 229 108 63 71 15 smit:SMT_708|3end_hypothetical_protein_617125..617275_NEGATIVE 225 100 53 67 21 smit:SMT_1655|3end_glucose-6-phosphate_1-dehydrogenase_1643534..1643684_NEGATIVE 222 114 73 136 96 smit:SMT_963|3end_K02015_iron_complex_transport_system_permease_protein_908586..908736_NEGATIVE 222 138 105 96 65 smit:SMT_724|3end_hypothetical_protein_629770..629920_NEGATIVE 219 132 103 84 59 smit:SMT_342|3end_chaperone_protein_DnaJ_283016..283166_POSITIVE 218 137 115 61 40 smit:SMT_2053|3end_hypothetical_membrane_associated_protein_1963754..1963904_NEGATIVE