Origin IGS: ttaannnnnttgctctagcacaggggcgtgcaatataaaaaatatttcgtttgaaacggctctaggtttaattgatttctatgataaaaatcatgaaaaatttgaagattaatctttggataatggcggattcttgaatagggtctgccttttcattttttggctagtaaaaagactgcacggttgatgcagccttttcttt .........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 aaagaaaaggctgcatcaaccgtgcagtctttttactagccaaaaaatgaaaaggcagaccctattcaagaatccgccattatccaaagattaatcttcaaatttttcatgatttttatcatagaaatcaattaaacctagagccgtttcaaacgaaatattttttatattgcacgcccctgtgctagagcaannnnnttaa Mask Tandem Repeat Region ================================================ ttaannnnnttgctctagcacaggggcgtgcaatataaaaaatatttcgtttgaaacggctctaggtttaattgatttctatgataaaaatcatgaaaaatttgaagattaatctttggataatggcggattcttgaatagggtctgccttttcattttttggctagtaaaaagactgcacggttgatgcagccttttcttt Find is-nt database================================================ Query_seq: SMT_322:SMT_323|SMT_322:SMT_323:hypothetical protein:amino acid transport ATP-binding protein:-><-:261407..261608 202 ttaannnnnttgctctagcacaggggcgtgcaatataaaaaatatttcgtttgaaacggctctaggtttaattgatttctatgataaaaatcatgaaaaatttgaagattaatctttggataatggcggattcttgaatagggtctgccttttcattttttggctagtaaaaagactgcacggttgatgcagccttttcttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_322:SMT_323|SMT_322:SMT_323:hypothetical protein:amino acid transport ATP-binding protein:-><-:261407..261608 202 ttaannnnnttgctctagcacaggggcgtgcaatataaaaaatatttcgtttgaaacggctctaggtttaattgatttctatgataaaaatcatgaaaaatttgaagattaatctttggataatggcggattcttgaatagggtctgccttttcattttttggctagtaaaaagactgcacggttgatgcagccttttcttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_322:SMT_323|SMT_322:SMT_323:hypothetical protein:amino acid transport ATP-binding protein:-><-:261407..261608 202 ttaannnnnttgctctagcacaggggcgtgcaatataaaaaatatttcgtttgaaacggctctaggtttaattgatttctatgataaaaatcatgaaaaatttgaagattaatctttggataatggcggattcttgaatagggtctgccttttcattttttggctagtaaaaagactgcacggttgatgcagccttttcttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttaannnnnttgctctagcacaggggcgtgcaatataaaaaatatttcgtttgaaacggctctaggtttaattgatttctatgataaaaatcatgaaaaatttgaagattaatctttggataatggcggattcttgaatagggtctgccttttcattttttggctagtaaaaagactgcacggttgatgcagccttttcttt Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: - Start: 18 End: 131 ................. C L P T C Y L F Y K T Q F P E L N L Q N R H Y F D H F I Q L N I K P Y H R M ....................................................................... ttaannnnnttgctctagcacaggggcgtgcaatataaaaaatatttcgtttgaaacggctctaggtttaattgatttctatgataaaaatcatgaaaaatttgaagattaatctttggataatggcggattcttgaatagggtctgccttttcattttttggctagtaaaaagactgcacggttgatgcagccttttcttt 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================================================ ttaannnnnttgctctagcacaggggcgtgcaatataaaaaatatttcgtttgaaacggctctaggtttaattgatttctatgataaaaatcatgaaaaatttgaagattaatctttggataatggcggattcttgaatagggtctgccttttcattttttggctagtaaaaagactgcacggttgatgcagccttttcttt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 83 HP_score: -6.4 Tail_Score: -4.86862 Start: 125 End: 149 Full_Region: TAATCTTTGGATAAT GGCGGATTCT TGAAT AGGGTCTGCC TTTTCATTTTTTGGC ............................................................................................................................GGCGGATTCTTGAATAGGGTCTGCC..................................................... TransTerm Strand: + Conf: 73 HP_score: -4.0 Tail_Score: -5.1101 Start: 135 End: 155 Full_Region: ATAATGGCGGATTCT TGAATAGG GTCTG CCTTTTCA TTTTTTGGCTAGTAA ......................................................................................................................................TGAATAGGGTCTGCCTTTTCA............................................... Find igs database================================================ Query_seq: SMT_322:SMT_323|SMT_322:SMT_323:hypothetical protein:amino acid transport ATP-binding protein:-><-:261407..261608 202 ttaannnnnttgctctagcacaggggcgtgcaatataaaaaatatttcgtttgaaacggctctaggtttaattgatttctatgataaaaatcatgaaaaatttgaagattaatctttggataatggcggattcttgaatagggtctgccttttcattttttggctagtaaaaagactgcacggttgatgcagccttttcttt Intra-Species Hit: Count: 1 Min: 10 Max: 202 Len: 193 Subject: smit_SMT_322_SMT_323|hypothetical protein:amino acid transport ATP-binding protein|POSITIVE:NEGATIVE|[261407,261608]|202 HSP 1 e-value: 1.0E-105 bit: 383.0 Len: 193 Query Start:10 Query End:202 Subject Strand: POSITIVE Subject Start: 10 Subject End: 202 .........ttgctctagcacaggggcgtgcaatataaaaaatatttcgtttgaaacggctctaggtttaattgatttctatgataaaaatcatgaaaaatttgaagattaatctttggataatggcggattcttgaatagggtctgccttttcattttttggctagtaaaaagactgcacggttgatgcagccttttcttt .........ttgctctagcacaggggcgtgcaatataaaaaatatttcgtttgaaacggctctaggtttaattgatttctatgataaaaatcatgaaaaatttgaagattaatctttggataatggcggattcttgaatagggtctgccttttcattttttggctagtaaaaagactgcacggttgatgcagccttttcttt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUGCUCUAGCACAGGGGCGUGCAAUAUAAAAAAUAUUUCGUUUGAAACGGCUCUAGGUUUAAUUGAUUUCUAUGAUAAAAAUCAUGAAAAAUUUGAAGAUUAAUCUUUGGAUAAUGGCGGAUUCUUGAAUAGGGUCUGCCUUUUCAUUUUUUGGCUAGUAAAAAGACUGCACGGUUGAUGCAGCCUUUUCUUU .....(((((..((((.(((.(((.................)))..))).))))............((((.(((((....))))))))).(((..((((....))))..)))...((((((((((.....)))))))))).............)))))..(((((.(((((.......))))).))))).... (-46.33) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAGAAAAGGCUGCAUCAACCGUGCAGUCUUUUUACUAGCCAAAAAAUGAAAAGGCAGACCCUAUUCAAGAAUCCGCCAUUAUCCAAAGAUUAAUCUUCAAAUUUUUCAUGAUUUUUAUCAUAGAAAUCAAUUAAACCUAGAGCCGUUUCAAACGAAAUAUUUUUUAUAUUGCACGCCCCUGUGCUAGAGCAA ...(((((((((((((.....))))))))))))).((((.......((((((((((.((..((.....))..)).)))........((((....)))).....)))))))((((((((...))))))))........)))).((.(((((....)))))............(((((....)))))....)).. (-40.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 320 140 98 195 156 smit:SMT_1116|5end_K02244_competence_protein_ComGB_1053841..1054071_NEGATIVE 312 156 111 61 9 smit:SMT_1112|5end_K02248_competence_protein_ComGF_1051848..1052078_NEGATIVE 302 190 144 138 93 smit:SMT_1897|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1848858..1849088_NEGATIVE 302 177 131 45 2 smit:SMT_1342|5end_protease_maturation_protein,_putative_1320214..1320444_NEGATIVE 300 179 131 86 39 smit:SMT_756|5end_3-dehydroquinate_dehydratase_660584..660814_NEGATIVE 298 142 107 73 36 smit:SMT_710|5end_hypothetical_protein_predicted_by_Glimmer/Critica_619320..619550_NEGATIVE 288 141 105 38 1 smit:SMT_1915|5end_pyridoxine_biosynthesis_protein_1860329..1860559_POSITIVE 288 178 131 148 95 smit:SMT_1694|5end_GTPase_1676674..1676904_POSITIVE 285 188 149 189 148 smit:SMT_953|5end_hypothetical_protein_901576..901806_NEGATIVE 279 159 111 117 69 smit:SMT_434|5end_orotidine_5'-phosphate_decarboxylase_376107..376337_POSITIVE 276 190 141 222 170 smit:SMT_878|5end_excinuclease_ABC,_subunit_C_826249..826479_NEGATIVE 273 177 131 189 137 smit:SMT_2002|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1924405..1924635_NEGATIVE 273 177 131 228 176 smit:SMT_1966|5end_DNA_polymerase_III_alpha_subunit_1897934..1898164_POSITIVE 273 177 131 189 137 smit:SMT_1942|5end_zinc_metalloprotease_ZmpB,_truncated_1877882..1878112_POSITIVE 273 177 131 229 177 smit:SMT_1926|5end_mevalonate_kinase_1867692..1867922_POSITIVE 273 177 131 210 158 smit:SMT_1885|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1840057..1840287_NEGATIVE 268 187 144 61 18 smit:SMT_1284|5end_predicted_amidophosphoribosyltransferase_1246962..1247192_POSITIVE 268 170 135 204 161 smit:SMT_624|5end_K07584_hypothetical_protein_529870..530100_POSITIVE 266 158 115 124 73 smit:SMT_412|5end_hypothetical_protein_predicted_by_Glimmer/Critica_356606..356836_NEGATIVE 265 157 113 180 142 smit:SMT_219|5end_phosphatidate_cytidylyltransferase_150922..151152_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 312 156 111 98 46 smit:SMT_1113|3end_hypothetical_protein_1051811..1051961_NEGATIVE 302 190 144 119 74 smit:SMT_1898|3end_aminotransferase_(class_V),_putative_1848877..1849027_NEGATIVE 300 179 131 89 42 smit:SMT_757|3end_K06969_putative_SAM-dependent_methyltransferase_660581..660731_NEGATIVE 298 142 107 123 86 smit:SMT_710|3end_hypothetical_protein_predicted_by_Glimmer/Critica_619270..619420_NEGATIVE 290 189 152 85 47 smit:SMT_1872|3end_K03217_preprotein_translocase_YidC_subunit_1830883..1831033_NEGATIVE 288 178 131 146 93 smit:SMT_1693|3end_dimethyladenosine_transferase_1676752..1676902_POSITIVE 285 188 149 88 47 smit:SMT_954|3end_cation-transporting_ATPase,_E1-E2_family_901677..901827_NEGATIVE 278 22 1 103 85 smit:SMT_1806|3end_aminoacylase/N-acyl-L-amino_acid_amidohydrolase/hippurate_hydrolase_1781644..1781794_POSITIVE 268 187 144 64 21 smit:SMT_1283|3end_K02240_competence_protein_ComFA_1247045..1247195_POSITIVE 268 170 135 66 23 smit:SMT_623|3end_50S_ribosomal_protein_L21_529812..529962_POSITIVE 263 172 135 71 34 smit:SMT_1604|3end_K05833_putative_ABC_transport_system_ATP-binding_protein_1595163..1595313_POSITIVE 259 180 131 124 75 smit:SMT_977|3end_conserved_hypothetical_protein,_Rrf2_family_protein_925252..925402_NEGATIVE 259 158 114 132 80 smit:SMT_591|3end_K02029_polar_amino_acid_transport_system_permease_protein_508829..508979_POSITIVE 259 53 12 82 25 smit:SMT_366|3end_hypothetical_protein_302398..302548_POSITIVE 254 186 157 68 33 smit:SMT_418|3end_putative_transcriptional_regulator_361232..361382_NEGATIVE 253 176 140 65 18 smit:SMT_1445|3end_hypothetical_protein_1427948..1428098_NEGATIVE 253 176 140 126 79 smit:SMT_1444|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1427887..1428037_NEGATIVE 253 156 118 136 82 smit:SMT_1149|3end_hypothetical_protein_1094040..1094190_NEGATIVE 246 146 103 57 3 smit:SMT_895|3end_cysteinyl-tRNA_synthetase_841694..841844_NEGATIVE 246 185 142 145 89 smit:SMT_596|3end_K03976_putative_transcription_regulator_512590..512740_NEGATIVE