Origin IGS: atctggttactcctttctactaagattttacaggttctgcacataagcatcaccatcctttcgattttgtaaccaccgtcttcacttctctgttaaactattgtaccatatattttcccctttgaaatccgcttttcaaataaatcatcatcagaatccgttctccatcctatacctgtcttttttcatctttccttcccttatttataggaaaatatggtaaaatagaacagactaaaaatcatcatttcacgaaaggatgcaag .........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 cttgcatcctttcgtgaaatgatgatttttagtctgttctattttaccatattttcctataaataagggaaggaaagatgaaaaaagacaggtataggatggagaacggattctgatgatgatttatttgaaaagcggatttcaaaggggaaaatatatggtacaatagtttaacagagaagtgaagacggtggttacaaaatcgaaaggatggtgatgcttatgtgcagaacctgtaaaatcttagtagaaaggagtaaccagat Mask Tandem Repeat Region ================================================ atctggttactcctttctactaagattttacaggttctgcacataagcatcaccatcctttcgattttgtaaccaccgtcttcacttctctgttaaactattgtaccatatattttcccctttgaaatccgcttttcaaataaatcatcatcagaatccgttctccatcctatacctgtcttttttcatctttccttcccttatttataggaaaatatggtaaaatagaacagactaaaaatcatcatttcacgaaaggatgcaag Find is-nt database================================================ Query_seq: SMT_999:SMT_1000|SMT_999:SMT_1000:hypothetical protein predicted by Glimmer/Critica:glutamyl-tRNA Gln amidotransferase subunit C:<-->:941733..941998 266 atctggttactcctttctactaagattttacaggttctgcacataagcatcaccatcctttcgattttgtaaccaccgtcttcacttctctgttaaactattgtaccatatattttcccctttgaaatccgcttttcaaataaatcatcatcagaatccgttctccatcctatacctgtcttttttcatctttccttcccttatttataggaaaatatggtaaaatagaacagactaaaaatcatcatttcacgaaaggatgcaag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_999:SMT_1000|SMT_999:SMT_1000:hypothetical protein predicted by Glimmer/Critica:glutamyl-tRNA Gln amidotransferase subunit C:<-->:941733..941998 266 atctggttactcctttctactaagattttacaggttctgcacataagcatcaccatcctttcgattttgtaaccaccgtcttcacttctctgttaaactattgtaccatatattttcccctttgaaatccgcttttcaaataaatcatcatcagaatccgttctccatcctatacctgtcttttttcatctttccttcccttatttataggaaaatatggtaaaatagaacagactaaaaatcatcatttcacgaaaggatgcaag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_999:SMT_1000|SMT_999:SMT_1000:hypothetical protein predicted by Glimmer/Critica:glutamyl-tRNA Gln amidotransferase subunit C:<-->:941733..941998 266 atctggttactcctttctactaagattttacaggttctgcacataagcatcaccatcctttcgattttgtaaccaccgtcttcacttctctgttaaactattgtaccatatattttcccctttgaaatccgcttttcaaataaatcatcatcagaatccgttctccatcctatacctgtcttttttcatctttccttcccttatttataggaaaatatggtaaaatagaacagactaaaaatcatcatttcacgaaaggatgcaag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atctggttactcctttctactaagattttacaggttctgcacataagcatcaccatcctttcgattttgtaaccaccgtcttcacttctctgttaaactattgtaccatatattttcccctttgaaatccgcttttcaaataaatcatcatcagaatccgttctccatcctatacctgtcttttttcatctttccttcccttatttataggaaaatatggtaaaatagaacagactaaaaatcatcatttcacgaaaggatgcaag Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: + Start: 100 End: 207 ................................................................................................... M V P Y I F P F E I R F S N K S S S E S V L H P I P V F F H L S F P Y L ........................................................... Protein_Len: 40 Strand: + Start: 101 End: 220 .................................................................................................... M Y H I F S P L K S A F Q I N H H Q N P F S I L Y L S F F I F P S L I Y R K I W .............................................. Protein_Len: 41 Strand: + Start: 144 End: 266 ............................................................................................................................................... M I I R I R S P S Y T C L F S S F L P L F I G K Y G K I E Q T K N H H F T K G C K atctggttactcctttctactaagattttacaggttctgcacataagcatcaccatcctttcgattttgtaaccaccgtcttcacttctctgttaaactattgtaccatatattttcccctttgaaatccgcttttcaaataaatcatcatcagaatccgttctccatcctatacctgtcttttttcatctttccttcccttatttataggaaaatatggtaaaatagaacagactaaaaatcatcatttcacgaaaggatgcaag 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================================================ atctggttactcctttctactaagattttacaggttctgcacataagcatcaccatcctttcgattttgtaaccaccgtcttcacttctctgttaaactattgtaccatatattttcccctttgaaatccgcttttcaaataaatcatcatcagaatccgttctccatcctatacctgtcttttttcatctttccttcccttatttataggaaaatatggtaaaatagaacagactaaaaatcatcatttcacgaaaggatgcaag Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_999:SMT_1000|SMT_999:SMT_1000:hypothetical protein predicted by Glimmer/Critica:glutamyl-tRNA Gln amidotransferase subunit C:<-->:941733..941998 266 atctggttactcctttctactaagattttacaggttctgcacataagcatcaccatcctttcgattttgtaaccaccgtcttcacttctctgttaaactattgtaccatatattttcccctttgaaatccgcttttcaaataaatcatcatcagaatccgttctccatcctatacctgtcttttttcatctttccttcccttatttataggaaaatatggtaaaatagaacagactaaaaatcatcatttcacgaaaggatgcaag Intra-Species Hit: Count: 1 Min: 1 Max: 266 Len: 266 Subject: smit_SMT_999_SMT_1000|hypothetical protein predicted by Glimmer/Critica:glutamyl-tRNA Gln amidotransferase subunit C|NEGATIVE:POSITIVE|[941733,941998]|266 HSP 1 e-value: 1.0E-149 bit: 527.0 Len: 266 Query Start:1 Query End:266 Subject Strand: POSITIVE Subject Start: 1 Subject End: 266 atctggttactcctttctactaagattttacaggttctgcacataagcatcaccatcctttcgattttgtaaccaccgtcttcacttctctgttaaactattgtaccatatattttcccctttgaaatccgcttttcaaataaatcatcatcagaatccgttctccatcctatacctgtcttttttcatctttccttcccttatttataggaaaatatggtaaaatagaacagactaaaaatcatcatttcacgaaaggatgcaag atctggttactcctttctactaagattttacaggttctgcacataagcatcaccatcctttcgattttgtaaccaccgtcttcacttctctgttaaactattgtaccatatattttcccctttgaaatccgcttttcaaataaatcatcatcagaatccgttctccatcctatacctgtcttttttcatctttccttcccttatttataggaaaatatggtaaaatagaacagactaaaaatcatcatttcacgaaaggatgcaag Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCUGGUUACUCCUUUCUACUAAGAUUUUACAGGUUCUGCACAUAAGCAUCACCAUCCUUUCGAUUUUGUAACCACCGUCUUCACUUCUCUGUUAAACUAUUGUACCAUAUAUUUUCCCCUUUGAAAUCCGCUUUUCAAAUAAAUCAUCAUCAGAAUCCGUUCUCCAUCCUAUACCUGUCUUUUUUCAUCUUUCCUUCCCUUAUUUAUAGGAAAAUAUGGUAAAAUAGAACAGACUAAAAAUCAUCAUUUCACGAAAGGAUGCAAG .....((...(((((((...............(((..(((......)))..)))........((((((.........((....))...((((((...(((((.((((((((.........(((((((......)))))))...........................(((((((..((.......................))..)))))))..)))))))).)))))))))))...))))))..........))))))).))... (-45.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUUGCAUCCUUUCGUGAAAUGAUGAUUUUUAGUCUGUUCUAUUUUACCAUAUUUUCCUAUAAAUAAGGGAAGGAAAGAUGAAAAAAGACAGGUAUAGGAUGGAGAACGGAUUCUGAUGAUGAUUUAUUUGAAAAGCGGAUUUCAAAGGGGAAAAUAUAUGGUACAAUAGUUUAACAGAGAAGUGAAGACGGUGGUUACAAAAUCGAAAGGAUGGUGAUGCUUAUGUGCAGAACCUGUAAAAUCUUAGUAGAAAGGAGUAACCAGAU .((((.(((((((.........(.(((((...(((((((((((.((((((((((((((....................((........)).........(((((..((..(((.(((((....))))).)))...))..)))))...))))))..)))))))).)))))...))))))))))).)....(((..((((....((....))..(((..(((......)))..))).)))).)))......)))))))))))...... (-57.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 932 80 31 171 122 smit:SMT_999|5end_hypothetical_protein_predicted_by_Glimmer/Critica_941642..941872_NEGATIVE 324 93 55 109 68 smit:SMT_338|5end_heat-inducible_transcription_repressor_HrcA_276825..277055_POSITIVE 321 186 146 179 132 smit:SMT_748|5end_prephenate_dehydratase_653498..653728_NEGATIVE 304 115 75 203 154 smit:SMT_1820|5end_cation_transporter_CorA_family_1793600..1793830_POSITIVE 289 135 99 150 116 smit:SMT_816|5end_SWF/SNF_family_helicase_727440..727670_NEGATIVE 286 196 153 101 53 smit:SMT_957|5end_UDP-glucose_4-epimerase_905003..905233_NEGATIVE 286 196 153 101 53 smit:SMT_950|5end_UDP-glucose_4-epimerase_898696..898926_NEGATIVE 283 60 14 95 51 smit:SMT_140|5end_NUDIX_family_hydrolase_90990..91220_POSITIVE 276 207 168 171 134 smit:SMT_705|5end_hypothetical_protein_615336..615566_NEGATIVE 275 200 155 129 79 smit:SMT_478|5end_hypothetical_protein_predicted_by_Glimmer/Critica_414644..414874_POSITIVE 275 76 32 145 105 smit:SMT_311|5end_3-oxoacyl-_252123..252353_POSITIVE 273 80 31 73 7 smit:SMT_158|5end_putative_Holliday_junction_resolvase_103795..104025_POSITIVE 270 195 153 119 75 smit:SMT_1838|5end_response_regulator_1805400..1805630_NEGATIVE 269 125 82 88 30 smit:SMT_1514|5end_methylenetetrahydrofolate_dehydrogenase_(NADP+)_/_methenyltetrahydrofolate_cyclohydrolase_1496640..1496870_NEGATIVE 269 110 61 123 57 smit:SMT_1428|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1414622..1414852_NEGATIVE 268 78 31 188 132 smit:SMT_1734|5end_serine/threonine_protein_phosphatase_1718558..1718788_POSITIVE 267 237 191 151 96 smit:SMT_846|5end_hypothetical_protein_792769..792999_NEGATIVE 266 119 73 217 171 smit:SMT_1626|5end_undecaprenyl-diphosphatase_1616028..1616258_NEGATIVE 264 65 24 110 72 smit:SMT_2100|5end_ribose_operon_repressor_1992689..1992919_POSITIVE 264 65 24 110 72 smit:SMT_1762|5end_sucrose_operon_repressor,_HTH_and_periplasmic_binding_domains_1737466..1737696_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 313 196 161 127 89 smit:SMT_1847|3end_hypothetical_protein_1812697..1812847_POSITIVE 304 115 75 78 29 smit:SMT_1819|3end_K03442_small_conductance_mechanosensitive_ion_channel,_MscS_family_1793555..1793705_POSITIVE 289 135 99 57 23 smit:SMT_817|3end_aminotransferase_727533..727683_NEGATIVE 283 60 14 83 39 smit:SMT_139|3end_hypothetical_protein_91058..91208_POSITIVE 275 76 32 123 83 smit:SMT_310|3end_3-oxoacyl-_252181..252331_POSITIVE 274 191 153 70 34 smit:SMT_1181|3end_phosphotransferase_system,_mannose/fructose-specific_component_IIA_1139413..1139563_NEGATIVE 273 80 31 69 3 smit:SMT_157|3end_hypothetical_protein_103871..104021_POSITIVE 270 195 153 107 63 smit:SMT_1839|3end_6-phosphogluconate_dehydrogenase,_decarboxylating_1805412..1805562_NEGATIVE 261 117 73 150 110 smit:SMT_1627|3end_hypothetical_protein_1616089..1616239_NEGATIVE 258 160 119 151 102 smit:SMT_354|3end_hypothetical_protein_291671..291821_POSITIVE 256 199 152 112 46 smit:SMT_850|3end_hypothetical_protein_796124..796274_NEGATIVE 253 117 84 120 81 smit:SMT_1107|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1047989..1048139_NEGATIVE 251 193 151 70 20 smit:SMT_1110|3end_hypothetical_protein_1050376..1050526_NEGATIVE 247 97 53 80 34 smit:SMT_1750|3end_anthranilate_phosphoribosyltransferase_1729095..1729245_POSITIVE 244 202 163 85 43 smit:SMT_487|3end_transcriptional_regulator,_TetR_family_423017..423167_POSITIVE 243 120 74 68 5 smit:SMT_1736|3end_acetyltransferase,_GNAT_family_1719862..1720012_POSITIVE 242 78 32 60 9 smit:SMT_1995|3end_phosphoglycerate_mutase_1920535..1920685_NEGATIVE 242 120 77 73 24 smit:SMT_1692|3end_hypothetical_protein_1675815..1675965_POSITIVE 242 57 11 120 81 smit:SMT_807|3end_hypothetical_protein_predicted_by_Glimmer/Critica_716708..716858_NEGATIVE 241 198 151 103 45 smit:SMT_336|3end_hypothetical_protein_275622..275772_POSITIVE