Origin IGS: aagttccttttctcctgactatgttgatagaaaactacacaccatttaggtattaacaaaattcattttactagaaaatttcgatactgtcaataatttctaacggcttatttaccatcaatcaatcgattcattgaaaaggagtattcattttctaatatttgattgagtaaacagaacggagcaattcggtcttttttctgttccctctttcttataacaagattgtgatagtttatatctttataacaaaagttttaaagacttgattgttttgaaagaatattttaaaataagattcagtaaaaatgaaagaggttttgaaa .........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 tttcaaaacctctttcatttttactgaatcttattttaaaatattctttcaaaacaatcaagtctttaaaacttttgttataaagatataaactatcacaatcttgttataagaaagagggaacagaaaaaagaccgaattgctccgttctgtttactcaatcaaatattagaaaatgaatactccttttcaatgaatcgattgattgatggtaaataagccgttagaaattattgacagtatcgaaattttctagtaaaatgaattttgttaatacctaaatggtgtgtagttttctatcaacatagtcaggagaaaaggaactt Mask Tandem Repeat Region ================================================ aagttccttttctcctgactatgttgatagaaaactacacaccatttaggtattaacaaaattcattttactagaaaatttcgatactgtcaataatttctaacggcttatttaccatcaatcaatcgattcattgaaaaggagtattcattttctaatatttgattgagtaaacagaacggagcaattcggtcttttttctgttccctctttcttataacaagattgtgatagtttatatctttataacaaaagttttaaagacttgattgttttgaaagaatattttaaaataagattcagtaaaaatgaaagaggttttgaaa Find is-nt database================================================ Query_seq: SMT_458:SMT_459|SMT_458:SMT_459:hypothetical protein predicted by Glimmer/Critica:hypothetical protein:<-->:397164..397489 326 aagttccttttctcctgactatgttgatagaaaactacacaccatttaggtattaacaaaattcattttactagaaaatttcgatactgtcaataatttctaacggcttatttaccatcaatcaatcgattcattgaaaaggagtattcattttctaatatttgattgagtaaacagaacggagcaattcggtcttttttctgttccctctttcttataacaagattgtgatagtttatatctttataacaaaagttttaaagacttgattgttttgaaagaatattttaaaataagattcagtaaaaatgaaagaggttttgaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_458:SMT_459|SMT_458:SMT_459:hypothetical protein predicted by Glimmer/Critica:hypothetical protein:<-->:397164..397489 326 aagttccttttctcctgactatgttgatagaaaactacacaccatttaggtattaacaaaattcattttactagaaaatttcgatactgtcaataatttctaacggcttatttaccatcaatcaatcgattcattgaaaaggagtattcattttctaatatttgattgagtaaacagaacggagcaattcggtcttttttctgttccctctttcttataacaagattgtgatagtttatatctttataacaaaagttttaaagacttgattgttttgaaagaatattttaaaataagattcagtaaaaatgaaagaggttttgaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_458:SMT_459|SMT_458:SMT_459:hypothetical protein predicted by Glimmer/Critica:hypothetical protein:<-->:397164..397489 326 aagttccttttctcctgactatgttgatagaaaactacacaccatttaggtattaacaaaattcattttactagaaaatttcgatactgtcaataatttctaacggcttatttaccatcaatcaatcgattcattgaaaaggagtattcattttctaatatttgattgagtaaacagaacggagcaattcggtcttttttctgttccctctttcttataacaagattgtgatagtttatatctttataacaaaagttttaaagacttgattgttttgaaagaatattttaaaataagattcagtaaaaatgaaagaggttttgaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aagttccttttctcctgactatgttgatagaaaactacacaccatttaggtattaacaaaattcattttactagaaaatttcgatactgtcaataatttctaacggcttatttaccatcaatcaatcgattcattgaaaaggagtattcattttctaatatttgattgagtaaacagaacggagcaattcggtcttttttctgttccctctttcttataacaagattgtgatagtttatatctttataacaaaagttttaaagacttgattgttttgaaagaatattttaaaataagattcagtaaaaatgaaagaggttttgaaa Predict ORF larger than 30AA ================================================ Protein_Len: 43 Strand: - Start: 111 End: 239 .............................................................................................................. K G D I L R N M S F S Y E N E L I Q N L L C F P A I R D K K Q E R K R I V L N H Y N M ....................................................................................... aagttccttttctcctgactatgttgatagaaaactacacaccatttaggtattaacaaaattcattttactagaaaatttcgatactgtcaataatttctaacggcttatttaccatcaatcaatcgattcattgaaaaggagtattcattttctaatatttgattgagtaaacagaacggagcaattcggtcttttttctgttccctctttcttataacaagattgtgatagtttatatctttataacaaaagttttaaagacttgattgttttgaaagaatattttaaaataagattcagtaaaaatgaaagaggttttgaaa 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: 91 Start: 65 End: 94 ................................................................ATTGACAGTATCGAAATTTTCTAGTAAAAT........................................................................................................................................................................................................................................ PromScan Matrix: RpoD-17 Strand: + Score: 85 Start: 265 End: 294 ........................................................................................................................................................................................................................................................................CTTGATTGTTTTGAAAGAATATTTTAAAAT................................ PromScan Matrix: RpoD-17 Strand: - Score: 82 Start: 285 End: 314 ............................................................................................................................................................................................................................................................................................TTTCATTTTTACTGAATCTTATTTTAAAAT............ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aagttccttttctcctgactatgttgatagaaaactacacaccatttaggtattaacaaaattcattttactagaaaatttcgatactgtcaataatttctaacggcttatttaccatcaatcaatcgattcattgaaaaggagtattcattttctaatatttgattgagtaaacagaacggagcaattcggtcttttttctgttccctctttcttataacaagattgtgatagtttatatctttataacaaaagttttaaagacttgattgttttgaaagaatattttaaaataagattcagtaaaaatgaaagaggttttgaaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_458:SMT_459|SMT_458:SMT_459:hypothetical protein predicted by Glimmer/Critica:hypothetical protein:<-->:397164..397489 326 aagttccttttctcctgactatgttgatagaaaactacacaccatttaggtattaacaaaattcattttactagaaaatttcgatactgtcaataatttctaacggcttatttaccatcaatcaatcgattcattgaaaaggagtattcattttctaatatttgattgagtaaacagaacggagcaattcggtcttttttctgttccctctttcttataacaagattgtgatagtttatatctttataacaaaagttttaaagacttgattgttttgaaagaatattttaaaataagattcagtaaaaatgaaagaggttttgaaa Intra-Species Hit: Count: 1 Min: 1 Max: 326 Len: 326 Subject: smit_SMT_458_SMT_459|hypothetical protein predicted by Glimmer/Critica:hypothetical protein|NEGATIVE:POSITIVE|[397164,397489]|326 HSP 1 e-value: 0.0 bit: 646.0 Len: 326 Query Start:1 Query End:326 Subject Strand: POSITIVE Subject Start: 1 Subject End: 326 aagttccttttctcctgactatgttgatagaaaactacacaccatttaggtattaacaaaattcattttactagaaaatttcgatactgtcaataatttctaacggcttatttaccatcaatcaatcgattcattgaaaaggagtattcattttctaatatttgattgagtaaacagaacggagcaattcggtcttttttctgttccctctttcttataacaagattgtgatagtttatatctttataacaaaagttttaaagacttgattgttttgaaagaatattttaaaataagattcagtaaaaatgaaagaggttttgaaa aagttccttttctcctgactatgttgatagaaaactacacaccatttaggtattaacaaaattcattttactagaaaatttcgatactgtcaataatttctaacggcttatttaccatcaatcaatcgattcattgaaaaggagtattcattttctaatatttgattgagtaaacagaacggagcaattcggtcttttttctgttccctctttcttataacaagattgtgatagtttatatctttataacaaaagttttaaagacttgattgttttgaaagaatattttaaaataagattcagtaaaaatgaaagaggttttgaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGUUCCUUUUCUCCUGACUAUGUUGAUAGAAAACUACACACCAUUUAGGUAUUAACAAAAUUCAUUUUACUAGAAAAUUUCGAUACUGUCAAUAAUUUCUAACGGCUUAUUUACCAUCAAUCAAUCGAUUCAUUGAAAAGGAGUAUUCAUUUUCUAAUAUUUGAUUGAGUAAACAGAACGGAGCAAUUCGGUCUUUUUUCUGUUCCCUCUUUCUUAUAACAAGAUUGUGAUAGUUUAUAUCUUUAUAACAAAAGUUUUAAAGACUUGAUUGUUUUGAAAGAAUAUUUUAAAAUAAGAUUCAGUAAAAAUGAAAGAGGUUUUGAAA ...(((((((((...(((...(((((((((..........(((.....)))..........(((.........)))..........))))))))).........((........))..............)))..)))))))))...((((..(((..(((..((..(((..(((((((..((((......).)))..)))))))..)))..))..)))...)))..)))).........(((((..((((((((((.....)))))..)))))...)))))...(((((((((....((((.......))))....))))))))) (-61.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUCAAAACCUCUUUCAUUUUUACUGAAUCUUAUUUUAAAAUAUUCUUUCAAAACAAUCAAGUCUUUAAAACUUUUGUUAUAAAGAUAUAAACUAUCACAAUCUUGUUAUAAGAAAGAGGGAACAGAAAAAAGACCGAAUUGCUCCGUUCUGUUUACUCAAUCAAAUAUUAGAAAAUGAAUACUCCUUUUCAAUGAAUCGAUUGAUUGAUGGUAAAUAAGCCGUUAGAAAUUAUUGACAGUAUCGAAAUUUUCUAGUAAAAUGAAUUUUGUUAAUACCUAAAUGGUGUGUAGUUUUCUAUCAACAUAGUCAGGAGAAAAGGAACUU ((((....((((((((........((((...((((....))))....))))..........(((((((.(((....))).))))))).........................)))))))).....)))).....((......((((...((((.............(((((((((((..(((((.....(((((((.((....))((((((((......))))))))...))))))).)))))....)))))))))))....(((..(((...(((((.....))))).)))..))).......))))...))))....))..... (-60.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 824 50 1 141 92 smit:SMT_458|5end_hypothetical_protein_predicted_by_Glimmer/Critica_397073..397303_NEGATIVE 346 209 164 163 108 smit:SMT_1091|5end_competence-specific_global_transcription_modulator_1033040..1033270_NEGATIVE 304 225 191 68 38 smit:SMT_1379|5end_thymidylate_kinase_1357438..1357668_NEGATIVE 258 219 171 202 161 smit:SMT_308|5end_trans-2-enoyl-ACP_reductase_II_249439..249669_POSITIVE 255 216 189 149 120 smit:SMT_1943|5end_alpha/beta_hydrolase_fold_1878968..1879198_NEGATIVE 247 235 198 195 152 smit:SMT_1886|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1840984..1841214_POSITIVE 247 235 198 195 152 smit:SMT_1187|5end_adenylosuccinate_lyase_1146362..1146592_NEGATIVE 242 48 3 68 28 smit:SMT_1646|5end_3-isopropylmalate_dehydratase_large_subunit_1632011..1632241_POSITIVE 241 202 161 104 65 smit:SMT_403|5end_two-component_sensor_kinase_YesM_331580..331810_POSITIVE 240 207 165 163 115 smit:SMT_1518|5end_sensor_histidine_kinase_1499009..1499239_NEGATIVE 239 144 103 150 115 smit:SMT_960|5end_putative_esterase_906818..907048_NEGATIVE 235 133 97 112 64 smit:SMT_2015|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1932655..1932885_POSITIVE 232 118 71 91 50 smit:SMT_2011|5end_lysyl-tRNA_synthetase_1930409..1930639_NEGATIVE 232 227 181 65 19 smit:SMT_1836|5end_cytidine/deoxycytidylate_deaminase_family_protein_1804498..1804728_NEGATIVE 232 205 169 219 176 smit:SMT_1695|5end_ribulose-phosphate_3-epimerase_1677563..1677793_POSITIVE 232 227 181 65 19 smit:SMT_1674|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1660501..1660731_NEGATIVE 229 185 141 204 157 smit:SMT_1718|5end_Holliday_junction_DNA_helicase_RuvA_1704877..1705107_NEGATIVE 228 210 164 58 1 smit:SMT_1927|5end_cell_division_protein_FtsH_1868779..1869009_NEGATIVE 227 50 2 165 97 smit:SMT_921|5end_putative_PP2C_protein_phosphatase_875238..875468_NEGATIVE 226 157 113 194 151 smit:SMT_1325|5end_cell_surface_protein_precursor_1300793..1301023_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 315 209 181 43 8 smit:SMT_1092|3end_transcription_antitermination_factor_1033160..1033310_NEGATIVE 258 219 171 84 43 smit:SMT_307|3end_K02078_acyl_carrier_protein_249401..249551_POSITIVE 255 216 189 42 13 smit:SMT_1944|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1879075..1879225_NEGATIVE 254 210 165 102 49 smit:SMT_1217|3end_hypothetical_protein_1176166..1176316_NEGATIVE 247 235 198 131 88 smit:SMT_1188|3end_hypothetical_protein_1146426..1146576_NEGATIVE 243 230 190 57 16 smit:SMT_1946|3end_sucrose-6-phosphate_hydrolase_1881205..1881355_POSITIVE 242 132 99 56 23 smit:SMT_1667|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1657439..1657589_NEGATIVE 242 48 3 64 24 smit:SMT_1645|3end_hypothetical_protein_1632087..1632237_POSITIVE 241 202 161 107 68 smit:SMT_402|3end_two-component_response_regulator_YesN_331663..331813_POSITIVE 235 170 124 51 5 smit:SMT_2077|3end_chloride_channel_protein_1979139..1979289_NEGATIVE 235 133 97 104 56 smit:SMT_2014|3end_tryptophan_synthase_beta_chain_1932727..1932877_POSITIVE 235 170 124 51 5 smit:SMT_1406|3end_chloride_channel_protein_1383963..1384113_NEGATIVE 232 214 171 102 58 smit:SMT_342|3end_chaperone_protein_DnaJ_283016..283166_POSITIVE 227 50 2 150 82 smit:SMT_922|3end_RNA-binding_protein_875253..875403_NEGATIVE 223 215 171 97 52 smit:SMT_630|3end_phosphoserine_phosphatase_536183..536333_POSITIVE 223 210 175 35 1 smit:SMT_141|3end_K03495_glucose_inhibited_division_protein_A_93401..93551_POSITIVE 222 146 114 42 9 smit:SMT_154|3end_K03647_protein_involved_in_ribonucleotide_reduction_102474..102624_POSITIVE 213 230 183 75 24 smit:SMT_1750|3end_anthranilate_phosphoribosyltransferase_1729095..1729245_POSITIVE 210 208 174 54 16 smit:SMT_2149|3end_UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-_diaminopimelate--D-alanyl-D-alanine_ligase_2024734..2024884_POSITIVE 208 50 5 135 89 smit:SMT_1696|3end_hypothetical_protein_1678924..1679074_POSITIVE