Origin IGS: aattacataagataagttatgtaaacaaaataaagctgacgagaaactttgtatcttttaggtacggagctcttcgtccttaatatcttagtatagaattggagaggtc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gacctctccaattctatactaagatattaaggacgaagagctccgtacctaaaagatacaaagtttctcgtcagctttattttgtttacataacttatcttatgtaatt Mask Tandem Repeat Region ================================================ aattacataagataagttatgtaaacaaaataaagctgacgagaaactttgtatcttttaggtacggagctcttcgtccttaatatcttagtatagaattggagaggtc Find is-nt database================================================ Query_seq: SMT_1401:SMT_1402|SMT_1401:SMT_1402:pyruvate dehydrogenase E1 component beta subunit:pyruvate dehydrogenase E2 component (dihydrolipoamide acetyltransferase):->->:1378146..1378254 109 aattacataagataagttatgtaaacaaaataaagctgacgagaaactttgtatcttttaggtacggagctcttcgtccttaatatcttagtatagaattggagaggtc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1401:SMT_1402|SMT_1401:SMT_1402:pyruvate dehydrogenase E1 component beta subunit:pyruvate dehydrogenase E2 component (dihydrolipoamide acetyltransferase):->->:1378146..1378254 109 aattacataagataagttatgtaaacaaaataaagctgacgagaaactttgtatcttttaggtacggagctcttcgtccttaatatcttagtatagaattggagaggtc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1401:SMT_1402|SMT_1401:SMT_1402:pyruvate dehydrogenase E1 component beta subunit:pyruvate dehydrogenase E2 component (dihydrolipoamide acetyltransferase):->->:1378146..1378254 109 aattacataagataagttatgtaaacaaaataaagctgacgagaaactttgtatcttttaggtacggagctcttcgtccttaatatcttagtatagaattggagaggtc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aattacataagataagttatgtaaacaaaataaagctgacgagaaactttgtatcttttaggtacggagctcttcgtccttaatatcttagtatagaattggagaggtc Predict ORF larger than 30AA ================================================ aattacataagataagttatgtaaacaaaataaagctgacgagaaactttgtatcttttaggtacggagctcttcgtccttaatatcttagtatagaattggagaggtc 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================================================ aattacataagataagttatgtaaacaaaataaagctgacgagaaactttgtatcttttaggtacggagctcttcgtccttaatatcttagtatagaattggagaggtc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_1401:SMT_1402|SMT_1401:SMT_1402:pyruvate dehydrogenase E1 component beta subunit:pyruvate dehydrogenase E2 component (dihydrolipoamide acetyltransferase):->->:1378146..1378254 109 aattacataagataagttatgtaaacaaaataaagctgacgagaaactttgtatcttttaggtacggagctcttcgtccttaatatcttagtatagaattggagaggtc Intra-Species Hit: Count: 2 Min: 1 Max: 109 Len: 109 Subject: smit_SMT_1890_SMT_1891|hypothetical protein:putative dihydrolipoamide S-acetyltransferase|POSITIVE:POSITIVE|[1844192, 1844512]|321 HSP 1 e-value: 1.0E-55 bit: 216.0 Len: 109 Query Start:1 Query End:109 Subject Strand: POSITIVE Subject Start: 213 Subject End: 321 aattacataagataagttatgtaaacaaaataaagctgacgagaaactttgtatcttttaggtacggagctcttcgtccttaatatcttagtatagaattggagaggtc aattacataagataagttatgtaaacaaaataaagctgacgagaaactttgtatcttttaggtacggagctcttcgtccttaatatcttagtatagaattggagaggtc Subject: smit_SMT_1401_SMT_1402|pyruvate dehydrogenase E1 component beta subunit:pyruvate dehydrogenase E2 component (dihydrolipoamide acetyltransferase)|POSITIVE:POSITIVE|[1378146, 1378254]|109 HSP 1 e-value: 1.0E-55 bit: 216.0 Len: 109 Query Start:1 Query End:109 Subject Strand: POSITIVE Subject Start: 1 Subject End: 109 aattacataagataagttatgtaaacaaaataaagctgacgagaaactttgtatcttttaggtacggagctcttcgtccttaatatcttagtatagaattggagaggtc aattacataagataagttatgtaaacaaaataaagctgacgagaaactttgtatcttttaggtacggagctcttcgtccttaatatcttagtatagaattggagaggtc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUACAUAAGAUAAGUUAUGUAAACAAAAUAAAGCUGACGAGAAACUUUGUAUCUUUUAGGUACGGAGCUCUUCGUCCUUAAUAUCUUAGUAUAGAAUUGGAGAGGUC ...(((.(((((((.(((.....)))...........(((((..(.(((((((((.....))))))))).)..))))).....))))))))))................ (-22.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GACCUCUCCAAUUCUAUACUAAGAUAUUAAGGACGAAGAGCUCCGUACCUAAAAGAUACAAAGUUUCUCGUCAGCUUUAUUUUGUUUACAUAACUUAUCUUAUGUAAUU ...................(((((((.....(((((..((((..(((.(.....).)))..))))..))))).....))))))).((((((((......)))))))).. (-21.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 322 80 33 167 120 smit:SMT_1891|5end_putative_dihydrolipoamide_S-acetyltransferase_1844373..1844603_POSITIVE 294 80 35 226 181 smit:SMT_1816|5end_K02026_multiple_sugar_transport_system_permease_protein_1790813..1791043_POSITIVE 275 80 36 191 129 smit:SMT_1720|5end_hypothetical_protein_1706959..1707189_POSITIVE 265 77 33 76 33 smit:SMT_1142|5end_K02027_multiple_sugar_transport_system_substrate-binding_protein_1085546..1085776_POSITIVE 264 80 33 164 115 smit:SMT_1705|5end_UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-_diaminopimelate--D-alanyl-D-alanine_ligase_1688558..1688788_POSITIVE 261 79 35 211 156 smit:SMT_1358|5end_dihydroorotate_dehydrogenase_B_1337192..1337422_NEGATIVE 257 96 51 148 99 smit:SMT_1933|5end_K02006_cobalt_transport_system_ATP-binding_protein_1872222..1872452_NEGATIVE 247 78 32 47 2 smit:SMT_1540|5end_hypothetical_protein_1525005..1525235_NEGATIVE 246 90 56 114 82 smit:SMT_1257|5end_acetolactate_synthase_small_subunit_1223173..1223403_NEGATIVE 241 80 35 104 42 smit:SMT_2117|5end_transcription-repair_coupling_factor_2004560..2004790_NEGATIVE 238 77 48 107 72 smit:SMT_1388|5end_hypothetical_protein_1365214..1365444_POSITIVE 237 80 36 53 5 smit:SMT_765|5end_hypothetical_protein_672620..672850_NEGATIVE 233 80 34 209 163 smit:SMT_1645|5end_hypothetical_protein_1631738..1631968_POSITIVE 226 80 37 62 19 smit:SMT_1481|5end_endopeptidase_O_1462229..1462459_POSITIVE 224 71 32 209 170 smit:SMT_1629|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1616725..1616955_POSITIVE 224 71 32 209 170 smit:SMT_1240|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1200474..1200704_POSITIVE 224 71 32 209 170 smit:SMT_249|5end_hypothetical_protein_predicted_by_Glimmer/Critica_184551..184781_POSITIVE 222 80 36 104 58 smit:SMT_412|5end_hypothetical_protein_predicted_by_Glimmer/Critica_356606..356836_NEGATIVE 219 80 35 181 121 smit:SMT_1806|5end_aminoacylase/N-acyl-L-amino_acid_amidohydrolase/hippurate_hydrolase_1781229..1781459_POSITIVE 219 78 46 40 5 smit:SMT_1802|5end_tyrosyl-tRNA_synthetase_1776712..1776942_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 352 74 34 76 23 smit:SMT_1482|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1463061..1463211_NEGATIVE 322 80 33 57 10 smit:SMT_1401|3end_pyruvate_dehydrogenase_E1_component_beta_subunit_1378085..1378235_POSITIVE 264 80 33 80 31 smit:SMT_1704|3end_D-alanine-D-alanine_ligase_1688554..1688704_POSITIVE 246 90 56 121 89 smit:SMT_1258|3end_acetolactate_synthase_large_subunit_1223166..1223316_NEGATIVE 245 90 44 88 44 smit:SMT_340|3end_chaperone_protein_280566..280716_POSITIVE 238 77 48 50 15 smit:SMT_1387|3end_hypothetical_protein_1365237..1365387_POSITIVE 235 70 32 141 87 smit:SMT_864|3end_K07485_transposase_814971..815121_POSITIVE 229 74 34 85 44 smit:SMT_110|3end_alpha-L-fucosidase_59207..59357_POSITIVE 226 78 34 71 26 smit:SMT_541|3end_K03697_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpE_457120..457270_NEGATIVE 222 74 39 85 52 smit:SMT_116|3end_beta-N-acetylhexosaminidase_68356..68506_POSITIVE 219 80 35 113 53 smit:SMT_1805|3end_2,3,4,5-tetrahydropyridine-2-carboxylate_N-succinyltransferase,_putative_1781241..1781391_POSITIVE 219 80 35 113 53 smit:SMT_1634|3end_2,3,4,5-tetrahydropyridine-2-carboxylate_N-succinyltransferase,_putative_1621438..1621588_POSITIVE 218 87 54 68 36 smit:SMT_1920|3end_ABC_transporter,_ATP-binding_protein_1862736..1862886_NEGATIVE 216 72 35 138 101 smit:SMT_2052|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1960662..1960812_NEGATIVE 214 79 36 139 85 smit:SMT_1703|3end_recombination_protein_RecR_1687336..1687486_POSITIVE 214 88 54 151 122 smit:SMT_1644|3end_3-isopropylmalate_dehydrogenase_1631821..1631971_POSITIVE 214 77 33 59 12 smit:SMT_124|3end_hypothetical_protein_75590..75740_NEGATIVE 208 70 23 102 50 smit:SMT_459|3end_hypothetical_protein_397690..397840_POSITIVE 207 89 41 144 85 smit:SMT_705|3end_hypothetical_protein_614674..614824_NEGATIVE 205 77 41 131 97 smit:SMT_2160|3end_cell_division_protein_FtsA_2034926..2035076_POSITIVE