Origin IGS: agatatagtttaccagattttgacaagatataaaactaattgatagattttgcctttgccttcaagaaacgaaaaacatttctcactctcccctgaatatgctaaaatagatttaaatgaaatgaaaaaggagcattt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaatgctcctttttcatttcatttaaatctattttagcatattcaggggagagtgagaaatgtttttcgtttcttgaaggcaaaggcaaaatctatcaattagttttatatcttgtcaaaatctggtaaactatatct Mask Tandem Repeat Region ================================================ agatatagtttaccagattttgacaagatataaaactaattgatagattttgcctttgccttcaagaaacgaaaaacatttctcactctcccctgaatatgctaaaatagatttaaatgaaatgaaaaaggagcattt Find is-nt database================================================ Query_seq: SSA_1325:SSA_1326|SSA_1325:SSA_1326:Ketoacyl reductase hetN, putative:Peptidase T, putative:<-->:1342434..1342571 138 agatatagtttaccagattttgacaagatataaaactaattgatagattttgcctttgccttcaagaaacgaaaaacatttctcactctcccctgaatatgctaaaatagatttaaatgaaatgaaaaaggagcattt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_1325:SSA_1326|SSA_1325:SSA_1326:Ketoacyl reductase hetN, putative:Peptidase T, putative:<-->:1342434..1342571 138 agatatagtttaccagattttgacaagatataaaactaattgatagattttgcctttgccttcaagaaacgaaaaacatttctcactctcccctgaatatgctaaaatagatttaaatgaaatgaaaaaggagcattt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_1325:SSA_1326|SSA_1325:SSA_1326:Ketoacyl reductase hetN, putative:Peptidase T, putative:<-->:1342434..1342571 138 agatatagtttaccagattttgacaagatataaaactaattgatagattttgcctttgccttcaagaaacgaaaaacatttctcactctcccctgaatatgctaaaatagatttaaatgaaatgaaaaaggagcattt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agatatagtttaccagattttgacaagatataaaactaattgatagattttgcctttgccttcaagaaacgaaaaacatttctcactctcccctgaatatgctaaaatagatttaaatgaaatgaaaaaggagcattt Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 47 End: 136 .............................................. M L P L P S R N E K H F S L S P E Y A K I D L N E M K K E H .. Protein_Len: 37 Strand: - Start: 13 End: 123 ............ W I K V L Y L V L Q Y I K G K G E L F S F C K E S E G S Y A L I S K F S M ............... agatatagtttaccagattttgacaagatataaaactaattgatagattttgcctttgccttcaagaaacgaaaaacatttctcactctcccctgaatatgctaaaatagatttaaatgaaatgaaaaaggagcattt 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: 79 End: 108 ..............................................................................TTTCTCACTCTCCCCTGAATATGCTAAAAT.............................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ agatatagtttaccagattttgacaagatataaaactaattgatagattttgcctttgccttcaagaaacgaaaaacatttctcactctcccctgaatatgctaaaatagatttaaatgaaatgaaaaaggagcattt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SSA_1325:SSA_1326|SSA_1325:SSA_1326:Ketoacyl reductase hetN, putative:Peptidase T, putative:<-->:1342434..1342571 138 agatatagtttaccagattttgacaagatataaaactaattgatagattttgcctttgccttcaagaaacgaaaaacatttctcactctcccctgaatatgctaaaatagatttaaatgaaatgaaaaaggagcattt Intra-Species Hit: Count: 1 Min: 1 Max: 138 Len: 138 Subject: NC_009009_SSA_1325_SSA_1326|Ketoacyl reductase hetN, putative:Peptidase T, putative|NEGATIVE:POSITIVE|[1342434,1342571]|138 HSP 1 e-value: 7.0E-73 bit: 274.0 Len: 138 Query Start:1 Query End:138 Subject Strand: POSITIVE Subject Start: 1 Subject End: 138 agatatagtttaccagattttgacaagatataaaactaattgatagattttgcctttgccttcaagaaacgaaaaacatttctcactctcccctgaatatgctaaaatagatttaaatgaaatgaaaaaggagcattt agatatagtttaccagattttgacaagatataaaactaattgatagattttgcctttgccttcaagaaacgaaaaacatttctcactctcccctgaatatgctaaaatagatttaaatgaaatgaaaaaggagcattt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGAUAUAGUUUACCAGAUUUUGACAAGAUAUAAAACUAAUUGAUAGAUUUUGCCUUUGCCUUCAAGAAACGAAAAACAUUUCUCACUCUCCCCUGAAUAUGCUAAAAUAGAUUUAAAUGAAAUGAAAAAGGAGCAUUU .......((((......((((((..(((..((((((((.....))).)))))..)))....)))))).........((((((....((......)).(((......))).........))))))......)))).... (-10.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAUGCUCCUUUUUCAUUUCAUUUAAAUCUAUUUUAGCAUAUUCAGGGGAGAGUGAGAAAUGUUUUUCGUUUCUUGAAGGCAAAGGCAAAAUCUAUCAAUUAGUUUUAUAUCUUGUCAAAAUCUGGUAAACUAUAUCU .....(((((((..........(((((.....))))).......)))))))...((((((((.....))))))))...(((((.((..(((.(((.....))).)))...))))))).......((((.....)))). (-17.03) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 873 100 51 191 142 NC_009009:SSA_1325|5end_Ketoacyl_reductase_hetN,_putative_1342343..1342573_NEGATIVE 297 95 52 173 124 NC_009009:SSA_1368|5end_hypothetical_protein_1384077..1384307_NEGATIVE 290 95 52 106 45 NC_009009:SSA_1253|5end_hypothetical_protein_1281245..1281475_NEGATIVE 280 94 51 115 68 NC_009009:SSA_1610|5end_hypothetical_protein_1614909..1615139_NEGATIVE 260 99 52 220 170 NC_009009:SSA_2122|5end_hypothetical_protein_2127607..2127837_NEGATIVE 256 95 57 129 93 NC_009009:SSA_1308|5end_hypothetical_protein_1326818..1327048_NEGATIVE 256 102 70 69 38 NC_009009:SSA_0835|5end_Accessory_secretory_protein_Asp3,_putative_821036..821266_POSITIVE 254 97 56 109 70 NC_009009:SSA_2217|5end_Cps9H,_putative_2219045..2219275_NEGATIVE 248 100 51 57 6 NC_009009:SSA_1210|5end_GTP_pyrophosphokinase,_putative_1234655..1234885_NEGATIVE 239 60 14 171 135 NC_009009:SSA_0291|5end_Oxidoreductase,_putative_285362..285592_POSITIVE 232 115 77 106 56 NC_009009:SSA_1254|5end_hypothetical_protein_1281484..1281714_NEGATIVE 231 90 46 66 29 NC_009009:SSA_0483|5end_Siroheme_synthase,_putative_484045..484275_POSITIVE 230 107 61 213 172 NC_009009:SSA_0239|5end_7,8-dihydro-8-oxoguanine-triphosphatase,_putative_232961..233191_POSITIVE 228 98 53 64 22 NC_009009:SSA_1911|5end_Conserved_uncharacterized_protein_1903105..1903335_NEGATIVE 226 91 51 105 53 NC_009009:SSA_1208|5end_23S_rRNA_pseudouridine_synthase,_putative_1233185..1233415_NEGATIVE 222 69 34 145 107 NC_009009:SSA_1236|5end_Mutator_protein,_putative_1261704..1261934_NEGATIVE 222 82 50 230 195 NC_009009:SSA_0978|5end_hypothetical_protein_983736..983966_POSITIVE 221 59 11 224 179 NC_009009:SSA_0796|5end_ABC-NBD_transporters_with_duplicated_ATPase_domains,_putative_777085..777315_POSITIVE 220 91 53 163 134 NC_009009:SSA_1231|5end_hypothetical_protein_1254758..1254988_NEGATIVE 220 103 63 205 170 NC_009009:SSA_0185|5end_Competence_protein_ComYB,_putative_189057..189287_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 297 95 52 108 59 NC_009009:SSA_1369|3end_FmtA-like_protein,_putative_1384142..1384292_NEGATIVE 290 95 52 109 48 NC_009009:SSA_1254|3end_hypothetical_protein_1281242..1281392_NEGATIVE 256 102 70 72 41 NC_009009:SSA_0834|3end_Accessory_secretory_protein_Asp2,_putative_821119..821269_POSITIVE 232 115 77 134 84 NC_009009:SSA_1255|3end_hypothetical_protein_1281456..1281606_NEGATIVE 231 90 46 54 17 NC_009009:SSA_0482|3end_ATP:cobalamin_adenosyl_transferase,_putative_484113..484263_POSITIVE 228 98 53 56 14 NC_009009:SSA_1912|3end_hypothetical_protein_1903113..1903263_NEGATIVE 226 91 51 108 56 NC_009009:SSA_1209|3end_Inorganic_polyphosphate/ATP-NAD_kinase,_putative_1233182..1233332_NEGATIVE 222 69 34 136 98 NC_009009:SSA_1237|3end_Uracil-DNA_glycosylase,_putative_1261713..1261863_NEGATIVE 221 59 11 124 79 NC_009009:SSA_0795|3end_hypothetical_protein_777065..777215_POSITIVE 220 91 53 115 86 NC_009009:SSA_1232|3end_Topoisomerase_IV_subunit_B,_putative_1254806..1254956_NEGATIVE 220 78 46 43 4 NC_009009:SSA_0242|3end_hypothetical_protein_235810..235960_POSITIVE 218 97 51 77 7 NC_009009:SSA_2261|3end_Transcriptional_repressor_(arginine_synthesis),_putative_2258229..2258379_NEGATIVE 216 87 44 65 23 NC_009009:SSA_1949|3end_AliA_protein,_putative_1942403..1942553_NEGATIVE 208 105 86 131 111 NC_009009:SSA_1759|3end_hypothetical_protein_1746664..1746814_NEGATIVE 202 90 42 49 5 NC_009009:SSA_1585|3end_hypothetical_protein_1586975..1587125_NEGATIVE 202 88 41 68 14 NC_009009:SSA_0971|3end_Conserved_uncharacterized_protein_980069..980219_POSITIVE 202 107 63 74 14 NC_009009:SSA_0459|3end_hypothetical_protein_462513..462663_POSITIVE 201 90 45 147 95 NC_009009:SSA_2241|3end_Conserved_uncharacterized_protein_2237677..2237827_NEGATIVE 200 93 51 121 80 NC_009009:SSA_0279|3end_Sugar-binding_transcriptional_repressor_(DeoR),_putative_273370..273520_POSITIVE 199 100 54 55 16 NC_009009:SSA_1850|3end_DNA-directed_RNA_polymerase,_subunit_K/omega,_putative_1845710..1845860_NEGATIVE