Origin IGS: aaaggtccagtgaacctttttatcccgagccttgaatataaaggcgaggaagctagaagtagcataaactaaggctttccgagttttcggagagcctatttttttattttgatacccacgctgatacccatattttwaaaaccaatgtaagaagcgaacttgtcggctactttgtcttttagatacaattataaaatagtggaatgtgagccttttacagtaatgaatgttataagggaataagatattgtaaaaattgctaagatttgatattataattgtatctgagtaaggaagcaggaatatggaaaggagtgagcctatatgaaaaaattatcataatgatagtctgttcaatctcttttcttgttttatctgcttgcgttagtaacaaaaaacttattcttcctgaaccctgaacgatctctgtaatttccctgcagnnnnnttaattaattaannnnnctttcaacgctaaataat .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 attatttagcgttgaaagnnnnnttaattaattaannnnnctgcagggaaattacagagatcgttcagggttcaggaagaataagttttttgttactaacgcaagcagataaaacaagaaaagagattgaacagactatcattatgataattttttcatataggctcactcctttccatattcctgcttccttactcagatacaattataatatcaaatcttagcaatttttacaatatcttattcccttataacattcattactgtaaaaggctcacattccactattttataattgtatctaaaagacaaagtagccgacaagttcgcttcttacattggttttwaaaatatgggtatcagcgtgggtatcaaaataaaaaaataggctctccgaaaactcggaaagccttagtttatgctacttctagcttcctcgcctttatattcaaggctcgggataaaaaggttcactggaccttt Mask Tandem Repeat Region ================================================ aaaggtccagtgaacctttttatcccgagccttgaatataaaggcgaggaagctagaagtagcataaactaaggctttccgagttttcggagagcctatttttttattttgatacccacgctgatacccatattttwaaaaccaatgtaagaagcgaacttgtcggctactttgtcttttagatacaattataaaatagtggaatgtgagccttttacagtaatgaatgttataagggaataagatattgtaaaaattgctaagatttgatattataattgtatctgagtaaggaagcaggaatatggaaaggagtgagcctatatgaaaaaattatcataatgatagtctgttcaatctcttttcttgttttatctgcttgcgttagtaacaaaaaacttattcttcctgaaccctgaacgatctctgtaatttccctgcagnnnnnttaattaattaannnnnctttcaacgctaaataat Find is-nt database================================================ Query_seq: SMT_625:SMT_626|SMT_625:SMT_626:50S ribosomal protein L27:1,4-alpha-glucan branching enzyme:->->:530461..530943 483 aaaggtccagtgaacctttttatcccgagccttgaatataaaggcgaggaagctagaagtagcataaactaaggctttccgagttttcggagagcctatttttttattttgatacccacgctgatacccatattttwaaaaccaatgtaagaagcgaacttgtcggctactttgtcttttagatacaattataaaatagtggaatgtgagccttttacagtaatgaatgttataagggaataagatattgtaaaaattgctaagatttgatattataattgtatctgagtaaggaagcaggaatatggaaaggagtgagcctatatgaaaaaattatcataatgatagtctgttcaatctcttttcttgttttatctgcttgcgttagtaacaaaaaacttattcttcctgaaccctgaacgatctctgtaatttccctgcagnnnnnttaattaattaannnnnctttcaacgctaaataat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_625:SMT_626|SMT_625:SMT_626:50S ribosomal protein L27:1,4-alpha-glucan branching enzyme:->->:530461..530943 483 aaaggtccagtgaacctttttatcccgagccttgaatataaaggcgaggaagctagaagtagcataaactaaggctttccgagttttcggagagcctatttttttattttgatacccacgctgatacccatattttwaaaaccaatgtaagaagcgaacttgtcggctactttgtcttttagatacaattataaaatagtggaatgtgagccttttacagtaatgaatgttataagggaataagatattgtaaaaattgctaagatttgatattataattgtatctgagtaaggaagcaggaatatggaaaggagtgagcctatatgaaaaaattatcataatgatagtctgttcaatctcttttcttgttttatctgcttgcgttagtaacaaaaaacttattcttcctgaaccctgaacgatctctgtaatttccctgcagnnnnnttaattaattaannnnnctttcaacgctaaataat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_625:SMT_626|SMT_625:SMT_626:50S ribosomal protein L27:1,4-alpha-glucan branching enzyme:->->:530461..530943 483 aaaggtccagtgaacctttttatcccgagccttgaatataaaggcgaggaagctagaagtagcataaactaaggctttccgagttttcggagagcctatttttttattttgatacccacgctgatacccatattttwaaaaccaatgtaagaagcgaacttgtcggctactttgtcttttagatacaattataaaatagtggaatgtgagccttttacagtaatgaatgttataagggaataagatattgtaaaaattgctaagatttgatattataattgtatctgagtaaggaagcaggaatatggaaaggagtgagcctatatgaaaaaattatcataatgatagtctgttcaatctcttttcttgttttatctgcttgcgttagtaacaaaaaacttattcttcctgaaccctgaacgatctctgtaatttccctgcagnnnnnttaattaattaannnnnctttcaacgctaaataat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaaggtccagtgaacctttttatcccgagccttgaatataaaggcgaggaagctagaagtagcataaactaaggctttccgagttttcggagagcctatttttttattttgatacccacgctgatacccatattttwaaaaccaatgtaagaagcgaacttgtcggctactttgtcttttagatacaattataaaatagtggaatgtgagccttttacagtaatgaatgttataagggaataagatattgtaaaaattgctaagatttgatattataattgtatctgagtaaggaagcaggaatatggaaaggagtgagcctatatgaaaaaattatcataatgatagtctgttcaatctcttttcttgttttatctgcttgcgttagtaacaaaaaacttattcttcctgaaccctgaacgatctctgtaatttccctgcagnnnnnttaattaattaannnnnctttcaacgctaaataat Predict ORF larger than 30AA ================================================ Protein_Len: 46 Strand: + Start: 279 End: 416 ...................................................................................................................................................................................................................................................................................... M Y L S K E A G I W K G V S L Y E K I I I M I V C S I S F L V L S A C V S N K K L I L P E P ................................................................... Protein_Len: 57 Strand: - Start: 263 End: 433 ...................................................................................................................................................................................................................................................................... S K I N Y N Y R L L S A P I H F P T L R Y S F I I M I I T Q E I E K R T K D A Q T L L L F S I R G S G Q V I E T M .................................................. Protein_Len: 30 Strand: - Start: 99 End: 188 .................................................................................................. K K I K I G V S I G M N X F G I Y S A F K D A V K D K L Y M ....................................................................................................................................................................................................................................................................................................... Protein_Len: 60 Strand: - Start: 1 End: 324 H L F R V Q R S S Q R K S V I I F Y H F T L R K C Y H I N Y P F L I N Y F N S L N S I I I T D S Y P L L F I S L L S G M ............................................................................................................................................................... aaaggtccagtgaacctttttatcccgagccttgaatataaaggcgaggaagctagaagtagcataaactaaggctttccgagttttcggagagcctatttttttattttgatacccacgctgatacccatattttwaaaaccaatgtaagaagcgaacttgtcggctactttgtcttttagatacaattataaaatagtggaatgtgagccttttacagtaatgaatgttataagggaataagatattgtaaaaattgctaagatttgatattataattgtatctgagtaaggaagcaggaatatggaaaggagtgagcctatatgaaaaaattatcataatgatagtctgttcaatctcttttcttgttttatctgcttgcgttagtaacaaaaaacttattcttcctgaaccctgaacgatctctgtaatttccctgcagnnnnnttaattaattaannnnnctttcaacgctaaataat 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: 85 Start: 246 End: 275 .....................................................................................................................................................................................................................................................ATTGTAAAAATTGCTAAGATTTGATATTAT................................................................................................................................................................................................................ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aaaggtccagtgaacctttttatcccgagccttgaatataaaggcgaggaagctagaagtagcataaactaaggctttccgagttttcggagagcctatttttttattttgatacccacgctgatacccatattttwaaaaccaatgtaagaagcgaacttgtcggctactttgtcttttagatacaattataaaatagtggaatgtgagccttttacagtaatgaatgttataagggaataagatattgtaaaaattgctaagatttgatattataattgtatctgagtaaggaagcaggaatatggaaaggagtgagcctatatgaaaaaattatcataatgatagtctgttcaatctcttttcttgttttatctgcttgcgttagtaacaaaaaacttattcttcctgaaccctgaacgatctctgtaatttccctgcagnnnnnttaattaattaannnnnctttcaacgctaaataat Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -10.6 Tail_Score: -6.11229 Start: 71 End: 98 Full_Region: GAAGTAGCATAAACT AAGGCTTTCCGA GTTT TCGGAGAGCCTA TTTTTTTATTTTGAT ......................................................................AAGGCTTTCCGAGTTTTCGGAGAGCCTA................................................................................................................................................................................................................................................................................................................................................................................................. TransTerm Strand: + Conf: 100 HP_score: -13.2 Tail_Score: -4.67109 Start: 73 End: 96 Full_Region: AGTAGCATAAACTAA GGCTTTCCGA GTTT TCGGAGAGCC TATTTTTTTATTTTG ........................................................................GGCTTTCCGAGTTTTCGGAGAGCC................................................................................................................................................................................................................................................................................................................................................................................................... TransTerm Strand: - Conf: 89 HP_score: -11.0 Tail_Score: -3.6363 Start: 73 End: 96 Full_Region: caaaataaaaaaata ggctctccga aaac tcggaaagcc ttagtttatgctact ........................................................................ggctctccgaaaactcggaaagcc................................................................................................................................................................................................................................................................................................................................................................................................... Find igs database================================================ Query_seq: SMT_625:SMT_626|SMT_625:SMT_626:50S ribosomal protein L27:1,4-alpha-glucan branching enzyme:->->:530461..530943 483 aaaggtccagtgaacctttttatcccgagccttgaatataaaggcgaggaagctagaagtagcataaactaaggctttccgagttttcggagagcctatttttttattttgatacccacgctgatacccatattttwaaaaccaatgtaagaagcgaacttgtcggctactttgtcttttagatacaattataaaatagtggaatgtgagccttttacagtaatgaatgttataagggaataagatattgtaaaaattgctaagatttgatattataattgtatctgagtaaggaagcaggaatatggaaaggagtgagcctatatgaaaaaattatcataatgatagtctgttcaatctcttttcttgttttatctgcttgcgttagtaacaaaaaacttattcttcctgaaccctgaacgatctctgtaatttccctgcagnnnnnttaattaattaannnnnctttcaacgctaaataat Intra-Species Hit: Count: 1 Min: 1 Max: 483 Len: 483 Subject: smit_SMT_625_SMT_626|50S ribosomal protein L27:1,4-alpha-glucan branching enzyme|POSITIVE:POSITIVE|[530461,530943]|483 HSP 1 e-value: 0.0 bit: 854.0 Len: 483 Query Start:1 Query End:483 Subject Strand: POSITIVE Subject Start: 1 Subject End: 483 aaaggtccagtgaacctttttatcccgagccttgaatataaaggcgaggaagctagaagtagcataaactaaggctttccgagttttcggagagcctannnnnnnattttgatacccacgctgatacccatattttwaaaaccaatgtaagaagcgaacttgtcggctactttgtcttttagatacaattataaaatagtggaatgtgagccttttacagtaatgaatgttataagggaataagatattgtaaaaattgctaagatttgatattataattgtatctgagtaaggaagcaggaatatggaaaggagtgagcctatatgaaaaaattatcataatgatagtctgttcaatctcttttcttgttttatctgcttgcgttagtaacaaaaaacttattcttcctgaaccctgaacgatctctgtaatttccctgcagnnnnnttaattaattaannnnnctttcaacgctaaataat aaaggtccagtgaacctttttatcccgagccttgaatataaaggcgaggaagctagaagtagcataaactaaggctttccgagttttcggagagcctatttttttattttgatacccacgctgatacccatattttwaaaaccaatgtaagaagcgaacttgtcggctactttgtcttttagatacaattataaaatagtggaatgtgagccttttacagtaatgaatgttataagggaataagatattgtaaaaattgctaagatttgatattataattgtatctgagtaaggaagcaggaatatggaaaggagtgagcctatatgaaaaaattatcataatgatagtctgttcaatctcttttcttgttttatctgcttgcgttagtaacaaaaaacttattcttcctgaaccctgaacgatctctgtaatttccctgcagnnnnnttaattaattaannnnnctttcaacgctaaataat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAGGUCCAGUGAACCUUUUUAUCCCGAGCCUUGAAUAUAAAGGCGAGGAAGCUAGAAGUAGCAUAAACUAAGGCUUUCCGAGUUUUCGGAGAGCCUAUUUUUUUAUUUUGAUACCCACGCUGAUACCCAUAUUUUWAAAACCAAUGUAAGAAGCGAACUUGUCGGCUACUUUGUCUUUUAGAUACAAUUAUAAAAUAGUGGAAUGUGAGCCUUUUACAGUAAUGAAUGUUAUAAGGGAAUAAGAUAUUGUAAAAAUUGCUAAGAUUUGAUAUUAUAAUUGUAUCUGAGUAAGGAAGCAGGAAUAUGGAAAGGAGUGAGCCUAUAUGAAAAAAUUAUCAUAAUGAUAGUCUGUUCAAUCUCUUUUCUUGUUUUAUCUGCUUGCGUUAGUAACAAAAAACUUAUUCUUCCUGAACCCUGAACGAUCUCUGUAAUUUCCCUGCAGNNNNNUUAAUUAAUUAANNNNNCUUUCAACGCUAAAUAAU ...(((.(((.(((..........((..(((((.......)))))..))..((((((((((((........((((((((((......)))))))))).............((((....((((..(((...................)))...))))....)))).))))))))....(((((((((((((((((....((.((((.(.(((.((((((((((.....(.((((......)))).)))))))))))...))).).)))).)).)))))))))))))))))...(.(((((((((((.((((((((((((((((((((((........)))))....)))...)))))..))))))))))))))...)))))).)..))))................)))))).)))...........(((((.......)))))........................................ (-111.31) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUAUUUAGCGUUGAAAGNNNNNUUAAUUAAUUAANNNNNCUGCAGGGAAAUUACAGAGAUCGUUCAGGGUUCAGGAAGAAUAAGUUUUUUGUUACUAACGCAAGCAGAUAAAACAAGAAAAGAGAUUGAACAGACUAUCAUUAUGAUAAUUUUUUCAUAUAGGCUCACUCCUUUCCAUAUUCCUGCUUCCUUACUCAGAUACAAUUAUAAUAUCAAAUCUUAGCAAUUUUUACAAUAUCUUAUUCCCUUAUAACAUUCAUUACUGUAAAAGGCUCACAUUCCACUAUUUUAUAAUUGUAUCUAAAAGACAAAGUAGCCGACAAGUUCGCUUCUUACAUUGGUUUUWAAAAUAUGGGUAUCAGCGUGGGUAUCAAAAUAAAAAAAUAGGCUCUCCGAAAACUCGGAAAGCCUUAGUUUAUGCUACUUCUAGCUUCCUCGCCUUUAUAUUCAAGGCUCGGGAUAAAAAGGUUCACUGGACCUUU ..((((((.((((((...........................(((((((.........((....)).(((...((((........(((((((((.....(....).......))))))))).(((..((((.(((.((((.....)))).))).))))......)))..)))).)))...))))))).....(((((((((((((((((((...........(((...(((((((.((.......................)).))))))).)))..............))))))))))))).........(((.(((.((....)).))).)))..................)))))))))))))))))).....(((((.....(((((.(((((....))))).)))))...)))))((((....)))).((((.(((((.......)))))..))))...(((((((.....))))))) (-98.91) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 360 388 342 134 77 smit:SMT_1734|5end_serine/threonine_protein_phosphatase_1718558..1718788_POSITIVE 308 100 60 62 25 smit:SMT_400|5end_hypothetical_protein_329090..329320_POSITIVE 303 93 51 77 34 smit:SMT_963|5end_K02015_iron_complex_transport_system_permease_protein_909632..909862_NEGATIVE 301 443 402 185 142 smit:SMT_1116|5end_K02244_competence_protein_ComGB_1053841..1054071_NEGATIVE 296 319 271 67 19 smit:SMT_1615|5end_K02016_iron_complex_transport_system_substrate-binding_protein_1602699..1602929_NEGATIVE 291 49 3 179 144 smit:SMT_1839|5end_6-phosphogluconate_dehydrogenase,_decarboxylating_1805999..1806229_NEGATIVE 285 400 351 105 54 smit:SMT_781|5end_hypothetical_protein_692427..692657_NEGATIVE 280 423 381 72 24 smit:SMT_1508|5end_hypothetical_protein_1491568..1491798_NEGATIVE 279 118 71 90 48 smit:SMT_1328|5end_hypothetical_protein_1304468..1304698_NEGATIVE 278 63 25 226 188 smit:SMT_1982|5end_conserved_hypothetical_protein_1913036..1913266_POSITIVE 278 63 25 199 161 smit:SMT_1972|5end_uncharacterized_conserved_phage_related_protein_1903662..1903892_POSITIVE 278 63 25 214 176 smit:SMT_1691|5end_putative_deoxyribonuclease_1674978..1675208_POSITIVE 278 55 15 48 7 smit:SMT_1301|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1263073..1263303_POSITIVE 278 63 25 177 139 smit:SMT_325|5end_K02029_polar_amino_acid_transport_system_permease_protein_263023..263253_NEGATIVE 277 96 51 44 2 smit:SMT_1201|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1163920..1164150_NEGATIVE 273 90 42 102 43 smit:SMT_1813|5end_amino_acid_transporter_1787142..1787372_POSITIVE 273 80 32 155 102 smit:SMT_580|5end_K04094_glucose_inhibited_division_protein_Gid_497421..497651_POSITIVE 269 74 43 50 17 smit:SMT_1366|5end_K02238_competence_protein_ComEC_1346888..1347118_NEGATIVE 264 437 398 228 183 smit:SMT_665|5end_NAD+_kinase_576745..576975_NEGATIVE 264 238 194 133 93 smit:SMT_215|5end_leucyl-tRNA_synthetase_147045..147275_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 360 388 342 132 75 smit:SMT_1733|3end_DNA_repair_protein_RecN_1718636..1718786_POSITIVE 308 100 60 48 11 smit:SMT_399|3end_cytochrome_c-type_biogenesis_protein_CcdA_329156..329306_POSITIVE 285 82 42 134 83 smit:SMT_479|3end_K03308_neurotransmitter:Na+_symporter,_NSS_family_415604..415754_NEGATIVE 280 423 381 70 22 smit:SMT_1509|3end_phosphopentomutase_1491570..1491720_NEGATIVE 279 118 71 80 38 smit:SMT_1329|3end_GTP-binding_protein_CgtA_1304478..1304628_NEGATIVE 276 116 73 79 37 smit:SMT_2046|3end_choline_binding_protein_C_1957280..1957430_NEGATIVE 275 176 143 67 34 smit:SMT_1951|3end_ABC_transporter,_ATP-binding_protein_1885141..1885291_NEGATIVE 275 330 283 80 28 smit:SMT_119|3end_K02027_multiple_sugar_transport_system_substrate-binding_protein_72021..72171_POSITIVE 273 90 42 73 14 smit:SMT_1812|3end_K07485_transposase_1787193..1787343_POSITIVE 273 80 32 82 29 smit:SMT_579|3end_ribosomal_large_subunit_pseudouridine_synthase_D_497428..497578_POSITIVE 269 74 43 66 33 smit:SMT_1367|3end_K02237_competence_protein_ComEA_1346872..1347022_NEGATIVE 266 83 41 77 34 smit:SMT_1115|3end_K02245_competence_protein_ComGC_1052473..1052623_NEGATIVE 264 238 194 74 34 smit:SMT_214|3end_leucyl-tRNA_synthetase_147066..147216_POSITIVE 263 82 42 130 88 smit:SMT_942|3end_hypothetical_protein_893528..893678_NEGATIVE 263 76 41 150 119 smit:SMT_331|3end_endo-beta-N-acetylglucosaminidase_271415..271565_POSITIVE 262 308 276 33 1 smit:SMT_2133|3end_hypothetical_protein_2013720..2013870_NEGATIVE 257 130 83 130 72 smit:SMT_1818|3end_tryptophan_synthase,_alpha_subunit_1793037..1793187_POSITIVE 257 179 148 86 53 smit:SMT_1525|3end_pneumococcal_histidine_triad_protein_A_precursor_1505873..1506023_NEGATIVE 256 61 25 140 102 smit:SMT_1902|3end_proton-translocating_NADH-quinone_oxidoreductase,_chain_L_1852028..1852178_NEGATIVE 255 49 1 71 21 smit:SMT_1198|3end_phosphoribosylaminoimidazole-succinocarboxamide_synthase_1158837..1158987_NEGATIVE