Origin IGS: gatagactccttttttattttataaatatataacacttaaattttatgttataaatatatcacatttaaatttagaaagcaagaatttatgtgccaaggtggcaattatttggaaaatctagatactctatgaatctctacttttttcttagactgttataaagtctgtcagaataagctttgtaggtgtagaagttagtttttacagaactaaattattctcctatttagaatctattaattcatattttataaattaa .........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 ttaatttataaaatatgaattaatagattctaaataggagaataatttagttctgtaaaaactaacttctacacctacaaagcttattctgacagactttataacagtctaagaaaaaagtagagattcatagagtatctagattttccaaataattgccaccttggcacataaattcttgctttctaaatttaaatgtgatatatttataacataaaatttaagtgttatatatttataaaataaaaaaggagtctatc Mask Tandem Repeat Region ================================================ gatagactccttnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnagaaagcaagaatttatgtgccaaggtggcaattatttggaaaatctagatactctatgaatctctacttttttcttagactgttataaagtctgtcagaataagctttgtaggtgtagaagttagtttttacagaactaaattattctcctatttagaatctattaattcatattttataaattaa Find is-nt database================================================ Query_seq: SMT_507:SMT_508|SMT_507:SMT_508:hypothetical protein:hypothetical protein:<-<-:438307..438566 260 gatagactccttttttattttataaatatataacacttaaattttatgttataaatatatcacatttaaatttagaaagcaagaatttatgtgccaaggtggcaattatttggaaaatctagatactctatgaatctctacttttttcttagactgttataaagtctgtcagaataagctttgtaggtgtagaagttagtttttacagaactaaattattctcctatttagaatctattaattcatattttataaattaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_507:SMT_508|SMT_507:SMT_508:hypothetical protein:hypothetical protein:<-<-:438307..438566 260 gatagactccttttttattttataaatatataacacttaaattttatgttataaatatatcacatttaaatttagaaagcaagaatttatgtgccaaggtggcaattatttggaaaatctagatactctatgaatctctacttttttcttagactgttataaagtctgtcagaataagctttgtaggtgtagaagttagtttttacagaactaaattattctcctatttagaatctattaattcatattttataaattaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_507:SMT_508|SMT_507:SMT_508:hypothetical protein:hypothetical protein:<-<-:438307..438566 260 gatagactccttttttattttataaatatataacacttaaattttatgttataaatatatcacatttaaatttagaaagcaagaatttatgtgccaaggtggcaattatttggaaaatctagatactctatgaatctctacttttttcttagactgttataaagtctgtcagaataagctttgtaggtgtagaagttagtttttacagaactaaattattctcctatttagaatctattaattcatattttataaattaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gatagactccttttttattttataaatatataacacttaaattttatgttataaatatatcacatttaaatttagaaagcaagaatttatgtgccaaggtggcaattatttggaaaatctagatactctatgaatctctacttttttcttagactgttataaagtctgtcagaataagctttgtaggtgtagaagttagtttttacagaactaaattattctcctatttagaatctattaattcatattttataaattaa Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 30 End: 119 ............................. M T L K F Y V I N I S H L N L E S K N L C A K V A I I W K I ............................................................................................................................................. Protein_Len: 30 Strand: + Start: 41 End: 130 ........................................ M L C Y K Y I T F K F R K Q E F M C Q G G N Y L E N L D T L .................................................................................................................................. Protein_Len: 34 Strand: + Start: 159 End: 257 .............................................................................................................................................................. M K S V R I S F V G V E V S F Y R T K L F S Y L E S I N S Y F I N * ... gatagactccttttttattttataaatatataacacttaaattttatgttataaatatatcacatttaaatttagaaagcaagaatttatgtgccaaggtggcaattatttggaaaatctagatactctatgaatctctacttttttcttagactgttataaagtctgtcagaataagctttgtaggtgtagaagttagtttttacagaactaaattattctcctatttagaatctattaattcatattttataaattaa 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: 83 Start: 69 End: 98 ....................................................................CTTGGCACATAAATTCTTGCTTTCTAAATT.................................................................................................................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ gatagactccttttttattttataaatatataacacttaaattttatgttataaatatatcacatttaaatttagaaagcaagaatttatgtgccaaggtggcaattatttggaaaatctagatactctatgaatctctacttttttcttagactgttataaagtctgtcagaataagctttgtaggtgtagaagttagtttttacagaactaaattattctcctatttagaatctattaattcatattttataaattaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_507:SMT_508|SMT_507:SMT_508:hypothetical protein:hypothetical protein:<-<-:438307..438566 260 gatagactccttttttattttataaatatataacacttaaattttatgttataaatatatcacatttaaatttagaaagcaagaatttatgtgccaaggtggcaattatttggaaaatctagatactctatgaatctctacttttttcttagactgttataaagtctgtcagaataagctttgtaggtgtagaagttagtttttacagaactaaattattctcctatttagaatctattaattcatattttataaattaa Intra-Species Hit: Count: 1 Min: 75 Max: 260 Len: 186 Subject: smit_SMT_507_SMT_508|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[438307,438566]|260 HSP 1 e-value: 1.0E-101 bit: 369.0 Len: 186 Query Start:75 Query End:260 Subject Strand: POSITIVE Subject Start: 75 Subject End: 260 ..........................................................................gaaagcaagaatttatgtgccaaggtggcaattatttggaaaatctagatactctatgaatctctacttttttcttagactgttataaagtctgtcagaataagctttgtaggtgtagaagttagtttttacagaactaaattattctcctatttagaatctattaattcatattttataaattaa ..........................................................................gaaagcaagaatttatgtgccaaggtggcaattatttggaaaatctagatactctatgaatctctacttttttcttagactgttataaagtctgtcagaataagctttgtaggtgtagaagttagtttttacagaactaaattattctcctatttagaatctattaattcatattttataaattaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAAAGCAAGAAUUUAUGUGCCAAGGUGGCAAUUAUUUGGAAAAUCUAGAUACUCUAUGAAUCUCUACUUUUUUCUUAGACUGUUAUAAAGUCUGUCAGAAUAAGCUUUGUAGGUGUAGAAGUUAGUUUUUACAGAACUAAAUUAUUCUCCUAUUUAGAAUCUAUUAAUUCAUAUUUUAUAAAUUAA .........((((((((((((.....))))..(((((((.....)))))))...(((((((.....(((..((((((((((.......))))))..)))).)))((..(((((...((((.(((((((.....)))))))....)))))))))..)).........)))))))...)))))))).. (-37.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAAUUUAUAAAAUAUGAAUUAAUAGAUUCUAAAUAGGAGAAUAAUUUAGUUCUGUAAAAACUAACUUCUACACCUACAAAGCUUAUUCUGACAGACUUUAUAACAGUCUAAGAAAAAAGUAGAGAUUCAUAGAGUAUCUAGAUUUUCCAAAUAAUUGCCACCUUGGCACAUAAAUUCUUGCUUUC ((((((((((...))))))))))...........((((((......((((((.......)))))))))))).......(((((...((((...(((((.......))))).)))).......((((.((.(((.....))))).))))........((((.....))))...........))))). (-28.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 805 50 1 215 166 smit:SMT_507|5end_hypothetical_protein_438216..438446_NEGATIVE 242 108 61 67 26 smit:SMT_1667|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1657567..1657797_NEGATIVE 242 108 61 167 126 smit:SMT_1666|5end_hypothetical_protein_1657467..1657697_NEGATIVE 241 118 77 64 15 smit:SMT_579|5end_ribosomal_large_subunit_pseudouridine_synthase_D_496512..496742_POSITIVE 237 108 64 140 97 smit:SMT_1021|5end_K05846_osmoprotectant_transport_system_permease_protein_957999..958229_NEGATIVE 236 105 67 147 106 smit:SMT_2108|5end_adenylosuccinate_lyase_1998851..1999081_NEGATIVE 236 105 67 147 106 smit:SMT_1886|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1840984..1841214_POSITIVE 236 105 67 147 106 smit:SMT_1187|5end_adenylosuccinate_lyase_1146362..1146592_NEGATIVE 234 126 81 187 147 smit:SMT_1233|5end_cadmium_resistance_protein_1194306..1194536_POSITIVE 228 108 61 138 84 smit:SMT_1514|5end_methylenetetrahydrofolate_dehydrogenase_(NADP+)_/_methenyltetrahydrofolate_cyclohydrolase_1496640..1496870_NEGATIVE 223 100 52 220 158 smit:SMT_1589|5end_hypothetical_protein_1578332..1578562_POSITIVE 222 31 7 27 2 smit:SMT_1460|5end_K02038_phosphate_transport_system_permease_protein_1441429..1441659_POSITIVE 219 80 32 119 57 smit:SMT_195|5end_30S_ribosomal_protein_S13_126877..127107_POSITIVE 218 55 19 62 24 smit:SMT_1909|5end_zinc_metalloprotease_ZmpB,_truncated_1856749..1856979_NEGATIVE 216 48 8 147 108 smit:SMT_1212|5end_acyl_carrier_protein,_putative_1171657..1171887_NEGATIVE 216 60 16 94 35 smit:SMT_215|5end_leucyl-tRNA_synthetase_147045..147275_POSITIVE 215 134 91 137 95 smit:SMT_1427|5end_S1_RNA_binding_domain_protein_1413429..1413659_NEGATIVE 215 124 88 69 27 smit:SMT_1120|5end_hypothetical_protein_1057063..1057293_NEGATIVE 213 110 62 174 120 smit:SMT_1798|5end_exonuclease_RexA_1773441..1773671_NEGATIVE 212 98 54 218 176 smit:SMT_967|5end_K01992_ABC-2_type_transport_system_permease_protein_913297..913527_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 284 145 104 55 4 smit:SMT_564|3end_23S_rRNA_Gm2251_methyltransferase_481989..482139_NEGATIVE 255 119 76 53 1 smit:SMT_1489|3end_K06147_ATP-binding_cassette,_subfamily_B,_bacterial_1470714..1470864_POSITIVE 241 118 77 74 25 smit:SMT_578|3end_lipoprotein_signal_peptidase_496602..496752_POSITIVE 237 108 64 147 104 smit:SMT_1022|3end_glycine_betaine_transport_ATP-binding_protein_957992..958142_NEGATIVE 236 105 67 83 42 smit:SMT_1188|3end_hypothetical_protein_1146426..1146576_NEGATIVE 222 31 7 37 12 smit:SMT_1459|3end_K02037_phosphate_transport_system_permease_protein_1441519..1441669_POSITIVE 219 80 32 101 39 smit:SMT_193|3end_50S_ribosomal_protein_L36_126939..127089_POSITIVE 216 48 8 141 102 smit:SMT_1213|3end_fatty_acid/phospholipid_synthesis_protein_PlsX_1171663..1171813_NEGATIVE 213 110 62 75 21 smit:SMT_1800|3end_exonuclease_RexA_1773540..1773690_NEGATIVE 213 99 51 135 89 smit:SMT_593|3end_K02030_polar_amino_acid_transport_system_substrate-binding_protein_510317..510467_POSITIVE 211 59 20 48 7 smit:SMT_792|3end_hypothetical_protein_predicted_by_Glimmer/Critica_702458..702608_NEGATIVE 209 100 52 106 40 smit:SMT_817|3end_aminotransferase_727533..727683_NEGATIVE 209 74 31 58 7 smit:SMT_207|3end_putative_two-component_sensor_histidine_kinase_138230..138380_NEGATIVE 208 131 93 59 19 smit:SMT_1567|3end_transketolase,_N-terminal_subunit_1560205..1560355_POSITIVE 205 136 95 52 5 smit:SMT_1655|3end_glucose-6-phosphate_1-dehydrogenase_1643534..1643684_NEGATIVE 205 28 4 98 69 smit:SMT_1251|3end_hypothetical_protein_1211329..1211479_NEGATIVE 204 130 81 99 45 smit:SMT_715|3end_DHH_subfamily_1_protein_622394..622544_POSITIVE 204 160 111 74 16 smit:SMT_150|3end_K02030_polar_amino_acid_transport_system_substrate-binding_protein_99400..99550_POSITIVE 203 78 58 65 44 smit:SMT_1773|3end_hypothetical_protein_1749905..1750055_POSITIVE 201 150 101 150 92 smit:SMT_941|3end_hypothetical_protein_892863..893013_NEGATIVE