Origin IGS: aaagaggctgggacaaaaagattttgattttaggaattctttattataaaattttaaaatcgatagattagataaaaaagcgaacaaaacagaattctaagtttcagataactcgttttgttcgctttttatatttaaggttagacttttgtcccagcctcttttgatacctaaagttctataatgaagttagaagattagagaaatttgccaacatacttgataaaataaaacctcaaaataccactaatttatgaagtgaatttgaatcaagctggttattagctttaggggttattcaaagtttaagaagaattctaatgataggataaa .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 tttatcctatcattagaattcttcttaaactttgaataacccctaaagctaataaccagcttgattcaaattcacttcataaattagtggtattttgaggttttattttatcaagtatgttggcaaatttctctaatcttctaacttcattatagaactttaggtatcaaaagaggctgggacaaaagtctaaccttaaatataaaaagcgaacaaaacgagttatctgaaacttagaattctgttttgttcgcttttttatctaatctatcgattttaaaattttataataaagaattcctaaaatcaaaatctttttgtcccagcctcttt Mask Tandem Repeat Region ================================================ aaagaggctgggacaaaaagattttgattttaggaattctttattataaaattttaaaatcgatagattagataaaaaagcgaacaaaacagaattctaagtttcagataactcgttttgttcgctttttatatttaaggttagacttttgtcccagcctcttttgatacctaaagttctataatgaagttagaagattagagaaatttgccaacatacttgataaaataaaacctcaaaataccactaatttatgaagtgaatttgaatcaagctggttattagctttaggggttattcaaagtttaagaagaattctaatgataggataaa Find is-nt database================================================ Query_seq: SMT_1049:SMT_1050|SMT_1049:SMT_1050:hypothetical protein:transcriptional regulator PlcR, putative:-><-:989274..989606 333 aaagaggctgggacaaaaagattttgattttaggaattctttattataaaattttaaaatcgatagattagataaaaaagcgaacaaaacagaattctaagtttcagataactcgttttgttcgctttttatatttaaggttagacttttgtcccagcctcttttgatacctaaagttctataatgaagttagaagattagagaaatttgccaacatacttgataaaataaaacctcaaaataccactaatttatgaagtgaatttgaatcaagctggttattagctttaggggttattcaaagtttaagaagaattctaatgataggataaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1049:SMT_1050|SMT_1049:SMT_1050:hypothetical protein:transcriptional regulator PlcR, putative:-><-:989274..989606 333 aaagaggctgggacaaaaagattttgattttaggaattctttattataaaattttaaaatcgatagattagataaaaaagcgaacaaaacagaattctaagtttcagataactcgttttgttcgctttttatatttaaggttagacttttgtcccagcctcttttgatacctaaagttctataatgaagttagaagattagagaaatttgccaacatacttgataaaataaaacctcaaaataccactaatttatgaagtgaatttgaatcaagctggttattagctttaggggttattcaaagtttaagaagaattctaatgataggataaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1049:SMT_1050|SMT_1049:SMT_1050:hypothetical protein:transcriptional regulator PlcR, putative:-><-:989274..989606 333 aaagaggctgggacaaaaagattttgattttaggaattctttattataaaattttaaaatcgatagattagataaaaaagcgaacaaaacagaattctaagtttcagataactcgttttgttcgctttttatatttaaggttagacttttgtcccagcctcttttgatacctaaagttctataatgaagttagaagattagagaaatttgccaacatacttgataaaataaaacctcaaaataccactaatttatgaagtgaatttgaatcaagctggttattagctttaggggttattcaaagtttaagaagaattctaatgataggataaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaagaggctgggacaaaaagattttgattttaggaattctttattataaaattttaaaatcgatagattagataaaaaagcgaacaaaacagaattctaagtttcagataactcgttttgttcgctttttatatttaaggttagacttttgtcccagcctcttttgatacctaaagttctataatgaagttagaagattagagaaatttgccaacatacttgataaaataaaacctcaaaataccactaatttatgaagtgaatttgaatcaagctggttattagctttaggggttattcaaagtttaagaagaattctaatgataggataaa Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 72 End: 164 ....................................................................... M K K R T K Q N S K F Q I T R F V R F L Y L R L D F C P S L F ......................................................................................................................................................................... aaagaggctgggacaaaaagattttgattttaggaattctttattataaaattttaaaatcgatagattagataaaaaagcgaacaaaacagaattctaagtttcagataactcgttttgttcgctttttatatttaaggttagacttttgtcccagcctcttttgatacctaaagttctataatgaagttagaagattagagaaatttgccaacatacttgataaaataaaacctcaaaataccactaatttatgaagtgaatttgaatcaagctggttattagctttaggggttattcaaagtttaagaagaattctaatgataggataaa 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: 84 Start: 23 End: 52 ......................TTTGATTTTAGGAATTCTTTATTATAAAAT......................................................................................................................................................................................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aaagaggctgggacaaaaagattttgattttaggaattctttattataaaattttaaaatcgatagattagataaaaaagcgaacaaaacagaattctaagtttcagataactcgttttgttcgctttttatatttaaggttagacttttgtcccagcctcttttgatacctaaagttctataatgaagttagaagattagagaaatttgccaacatacttgataaaataaaacctcaaaataccactaatttatgaagtgaatttgaatcaagctggttattagctttaggggttattcaaagtttaagaagaattctaatgataggataaa Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 89 HP_score: -6.3 Tail_Score: -5.40625 Start: 80 End: 125 Full_Region: ccttaaatataaaaa gcgaacaaaacgagttatctg aaa cttagaattctgttttgttcgc ttttttatctaatct ...............................................................................gcgaacaaaacgagttatctgaaacttagaattctgttttgttcgc................................................................................................................................................................................................................ Find igs database================================================ Query_seq: SMT_1049:SMT_1050|SMT_1049:SMT_1050:hypothetical protein:transcriptional regulator PlcR, putative:-><-:989274..989606 333 aaagaggctgggacaaaaagattttgattttaggaattctttattataaaattttaaaatcgatagattagataaaaaagcgaacaaaacagaattctaagtttcagataactcgttttgttcgctttttatatttaaggttagacttttgtcccagcctcttttgatacctaaagttctataatgaagttagaagattagagaaatttgccaacatacttgataaaataaaacctcaaaataccactaatttatgaagtgaatttgaatcaagctggttattagctttaggggttattcaaagtttaagaagaattctaatgataggataaa Intra-Species Hit: Count: 2 Min: 1 Max: 333 Len: 333 Subject: smit_SMT_1049_SMT_1050|hypothetical protein:transcriptional regulator PlcR, putative|POSITIVE:NEGATIVE|[989274,989606]|333 HSP 1 e-value: 0.0 bit: 660.0 Len: 333 Query Start:1 Query End:333 Subject Strand: POSITIVE Subject Start: 1 Subject End: 333 aaagaggctgggacaaaaagattttgattttaggaattctttattataaaattttaaaatcgatagattagataaaaaagcgaacaaaacagaattctaagtttcagataactcgttttgttcgctttttatatttaaggttagacttttgtcccagcctcttttgatacctaaagttctataatgaagttagaagattagagaaatttgccaacatacttgataaaataaaacctcaaaataccactaatttatgaagtgaatttgaatcaagctggttattagctttaggggttattcaaagtttaagaagaattctaatgataggataaa aaagaggctgggacaaaaagattttgattttaggaattctttattataaaattttaaaatcgatagattagataaaaaagcgaacaaaacagaattctaagtttcagataactcgttttgttcgctttttatatttaaggttagacttttgtcccagcctcttttgatacctaaagttctataatgaagttagaagattagagaaatttgccaacatacttgataaaataaaacctcaaaataccactaatttatgaagtgaatttgaatcaagctggttattagctttaggggttattcaaagtttaagaagaattctaatgataggataaa Subject: smit_SMT_1264_SMT_1265|oligoendopeptidase F:hypothetical protein|POSITIVE:NEGATIVE|[1230795,1230961]|167 HSP 1 e-value: 5.0E-45 bit: 182.0 Len: 164 Query Start:2 Query End:165 Subject Strand: NEGATIVE Subject Start: 4 Subject End: 164 .aagaggctgggacaaaaagattttgattttaggaattctttattataaaattttaaaatcgatagattagataaaaaagcgaacaaaacagaattctaagtttcagataactcgttttgttcgctttttatatttaaggttagacttttgtcccagcctctttt........................................................................................................................................................................ .aagaggccaggacaaaaa-attttgattttaggaattctttattctaaatttttaaatta-atagattaga-aaaaaagcgaacaagacagaattctgagtgtcagataactcgttttgttcgttttttatatttaaggttagacttttatcccagactctttt........................................................................................................................................................................ Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAGAGGCUGGGACAAAAAGAUUUUGAUUUUAGGAAUUCUUUAUUAUAAAAUUUUAAAAUCGAUAGAUUAGAUAAAAAAGCGAACAAAACAGAAUUCUAAGUUUCAGAUAACUCGUUUUGUUCGCUUUUUAUAUUUAAGGUUAGACUUUUGUCCCAGCCUCUUUUGAUACCUAAAGUUCUAUAAUGAAGUUAGAAGAUUAGAGAAAUUUGCCAACAUACUUGAUAAAAUAAAACCUCAAAAUACCACUAAUUUAUGAAGUGAAUUUGAAUCAAGCUGGUUAUUAGCUUUAGGGGUUAUUCAAAGUUUAAGAAGAAUUCUAAUGAUAGGAUAAA ((((((((((((((((((.....((((((((((((................))))))))))))....(((((((((((((((((((((((((...(((.......)))...)).)))))))))))))))).)))))))........))))))))))))))))))...........(((((((......(((((((...((((....))))........(((((........((((((.......((((.........))))..........((((((.....))))))..)))))).........))))).....))))))).)))))))... (-88.92) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUAUCCUAUCAUUAGAAUUCUUCUUAAACUUUGAAUAACCCCUAAAGCUAAUAACCAGCUUGAUUCAAAUUCACUUCAUAAAUUAGUGGUAUUUUGAGGUUUUAUUUUAUCAAGUAUGUUGGCAAAUUUCUCUAAUCUUCUAACUUCAUUAUAGAACUUUAGGUAUCAAAAGAGGCUGGGACAAAAGUCUAACCUUAAAUAUAAAAAGCGAACAAAACGAGUUAUCUGAAACUUAGAAUUCUGUUUUGUUCGCUUUUUUAUCUAAUCUAUCGAUUUUAAAAUUUUAUAAUAAAGAAUUCCUAAAAUCAAAAUCUUUUUGUCCCAGCCUCUUU .....((((..((((((....(((.........)))...........(((((((....(((((((..((((..((((((.((((.......))))))))))...)))).))))))).))))))).......)))))).(((((.........)))))...)))).....(((((((((((((((((((.......(((.(((.((((((((((((((((((((..(((((...))))))))).))))))))))))))))))).)))......(((((((.((((((.......))))))..)))))))......))))))))))))))))))) (-86.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 290 305 266 45 8 smit:SMT_1595|5end_oligopeptide_transport_system_permease_protein_OppC_1584968..1585198_POSITIVE 277 171 138 148 111 smit:SMT_1627|5end_hypothetical_protein_1616415..1616645_NEGATIVE 272 313 272 67 18 smit:SMT_1581|5end_transcriptional_regulator,_biotin_repressor_family_1573635..1573865_NEGATIVE 268 170 121 85 20 smit:SMT_2042|5end_K04077_chaperonin_GroEL_(Hsp60)_1953889..1954119_NEGATIVE 267 172 138 186 156 smit:SMT_160|5end_folylpolyglutamate_synthase_104741..104971_POSITIVE 258 172 138 229 192 smit:SMT_116|5end_beta-N-acetylhexosaminidase_66396..66626_POSITIVE 254 165 122 136 91 smit:SMT_438|5end_hypothetical_protein_predicted_by_Glimmer/Critica_379136..379366_POSITIVE 251 160 112 183 133 smit:SMT_1897|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1848858..1849088_NEGATIVE 250 289 241 60 12 smit:SMT_1373|5end_K02838_ribosome_recycling_factor_1352274..1352504_NEGATIVE 249 160 112 169 116 smit:SMT_653|5end_positive_transcriptional_regulator_MutR_family_564155..564385_NEGATIVE 247 165 124 223 177 smit:SMT_1778|5end_ATP-dependent_RNA_helicase_1754954..1755184_NEGATIVE 242 295 260 105 64 smit:SMT_1808|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1784398..1784628_POSITIVE 242 169 138 214 172 smit:SMT_1194|5end_phosphoribosylformylglycinamidine_cyclo-ligase_1153171..1153401_NEGATIVE 239 169 121 214 159 smit:SMT_794|5end_hypothetical_protein_703487..703717_NEGATIVE 239 165 123 205 162 smit:SMT_534|5end_hypothetical_protein_predicted_by_Glimmer/Critica_453571..453801_POSITIVE 239 165 123 205 162 smit:SMT_531|5end_hypothetical_protein_predicted_by_Glimmer/Critica_452672..452902_POSITIVE 239 165 123 205 162 smit:SMT_527|5end_hypothetical_protein_predicted_by_Glimmer/Critica_451502..451732_POSITIVE 239 165 123 205 162 smit:SMT_511|5end_hypothetical_protein_predicted_by_Glimmer/Critica_439391..439621_POSITIVE 236 166 143 21 1 smit:SMT_1280|5end_cysteine_synthase_1244469..1244699_NEGATIVE 235 295 256 85 49 smit:SMT_1048|5end_K06518_holin-like_protein_988142..988372_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 647 160 111 82 33 smit:SMT_1264|3end_oligoendopeptidase_F_1230734..1230884_POSITIVE 309 165 133 91 54 smit:SMT_1049|3end_hypothetical_protein_989213..989363_POSITIVE 290 305 266 45 8 smit:SMT_1594|3end_oligopeptide_transport_system_permease_protein_OppB_1585048..1585198_POSITIVE 250 289 241 51 3 smit:SMT_1374|3end_uridylate_kinase_1352283..1352433_NEGATIVE 247 165 124 84 38 smit:SMT_1779|3end_hypothetical_protein_1755093..1755243_NEGATIVE 239 42 2 91 52 smit:SMT_1534|3end_signal_peptidase_I_1517912..1518062_POSITIVE 239 165 123 91 48 smit:SMT_533|3end_RNA_binding_protein_453537..453687_POSITIVE 239 165 123 91 48 smit:SMT_530|3end_RNA_binding_protein_452638..452788_POSITIVE 239 165 123 91 48 smit:SMT_526|3end_RNA_binding_protein_451468..451618_POSITIVE 239 165 123 91 48 smit:SMT_510|3end_hypothetical_protein_439357..439507_POSITIVE 238 185 145 135 73 smit:SMT_938|3end_hypothetical_protein_890813..890963_NEGATIVE 234 49 1 96 47 smit:SMT_1805|3end_2,3,4,5-tetrahydropyridine-2-carboxylate_N-succinyltransferase,_putative_1781241..1781391_POSITIVE 234 49 1 96 47 smit:SMT_1634|3end_2,3,4,5-tetrahydropyridine-2-carboxylate_N-succinyltransferase,_putative_1621438..1621588_POSITIVE 228 170 122 125 67 smit:SMT_1580|3end_MutT/NUDIX_family_protein_1573153..1573303_POSITIVE 228 196 156 129 86 smit:SMT_350|3end_immunity_protein_BlpL_290348..290498_POSITIVE 227 162 138 85 60 smit:SMT_160|3end_folylpolyglutamate_synthase_105342..105492_POSITIVE 226 165 138 82 48 smit:SMT_1306|3end_alpha-glycerophosphate_oxidase_1271673..1271823_POSITIVE 225 184 143 54 3 smit:SMT_606|3end_cytochrome_c-type_biogenesis_protein_CcdA_520147..520297_POSITIVE 221 190 143 120 62 smit:SMT_1620|3end_hypothetical_protein_1606695..1606845_NEGATIVE 221 158 112 81 42 smit:SMT_1069|3end_acetyl_xylan_esterase,_putative_1009595..1009745_POSITIVE