Origin IGS: taaacttctaacgacttaaacattcaattatgaaacgtaccaatatatatataatgtgcgctgctatcactttagcagccacatcagcgaaagctcagacaatacaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttgtattgtctgagctttcgctgatgtggctgctaaagtgatagcagcgcacattatatatatattggtacgtttcataattgaatgtttaagtcgttagaagttta Mask Tandem Repeat Region ================================================ taaacttctaacgacttaaacattcaattatgaaacgtaccaatatatatataatgtgcgctgctatcactttagcagccacatcagcgaaagctcagacaatacaa Find is-nt database================================================ Query_seq: PI1764:PI1765|PI1764:PI1765:conserved hypothetical protein:fructanase, glycoside hydrolase family:->->:1691314..1691420 107 taaacttctaacgacttaaacattcaattatgaaacgtaccaatatatatataatgtgcgctgctatcactttagcagccacatcagcgaaagctcagacaatacaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1764:PI1765|PI1764:PI1765:conserved hypothetical protein:fructanase, glycoside hydrolase family:->->:1691314..1691420 107 taaacttctaacgacttaaacattcaattatgaaacgtaccaatatatatataatgtgcgctgctatcactttagcagccacatcagcgaaagctcagacaatacaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1764:PI1765|PI1764:PI1765:conserved hypothetical protein:fructanase, glycoside hydrolase family:->->:1691314..1691420 107 taaacttctaacgacttaaacattcaattatgaaacgtaccaatatatatataatgtgcgctgctatcactttagcagccacatcagcgaaagctcagacaatacaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaacttctaacgacttaaacattcaattatgaaacgtaccaatatatatataatgtgcgctgctatcactttagcagccacatcagcgaaagctcagacaatacaa Predict ORF larger than 30AA ================================================ taaacttctaacgacttaaacattcaattatgaaacgtaccaatatatatataatgtgcgctgctatcactttagcagccacatcagcgaaagctcagacaatacaa 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================================================ taaacttctaacgacttaaacattcaattatgaaacgtaccaatatatatataatgtgcgctgctatcactttagcagccacatcagcgaaagctcagacaatacaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1764:PI1765|PI1764:PI1765:conserved hypothetical protein:fructanase, glycoside hydrolase family:->->:1691314..1691420 107 taaacttctaacgacttaaacattcaattatgaaacgtaccaatatatatataatgtgcgctgctatcactttagcagccacatcagcgaaagctcagacaatacaa Intra-Species Hit: Count: 1 Min: 1 Max: 107 Len: 107 Subject: pint_PI1764_PI1765|conserved hypothetical protein:fructanase, glycoside hydrolase family|POSITIVE:POSITIVE|[1691314,1691420]|107 HSP 1 e-value: 2.0E-54 bit: 212.0 Len: 107 Query Start:1 Query End:107 Subject Strand: POSITIVE Subject Start: 1 Subject End: 107 taaacttctaacgacttaaacattcaattatgaaacgtaccaatatatatataatgtgcgctgctatcactttagcagccacatcagcgaaagctcagacaatacaa taaacttctaacgacttaaacattcaattatgaaacgtaccaatatatatataatgtgcgctgctatcactttagcagccacatcagcgaaagctcagacaatacaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAACUUCUAACGACUUAAACAUUCAAUUAUGAAACGUACCAAUAUAUAUAUAAUGUGCGCUGCUAUCACUUUAGCAGCCACAUCAGCGAAAGCUCAGACAAUACAA ......((....))........((((....))))..(((..............(((((.(((((((......)))))))))))).(((....))).......))).. (-24.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUGUAUUGUCUGAGCUUUCGCUGAUGUGGCUGCUAAAGUGAUAGCAGCGCACAUUAUAUAUAUAUUGGUACGUUUCAUAAUUGAAUGUUUAAGUCGUUAGAAGUUUA ..........((((((((...((((((((((((((......))))))).)))))))........((((.(((((.((....))))))))))).......)))))))) (-26.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 345 90 41 195 139 pint:PI0410|5end_glutamyl-tRNA_synthetase_(glutamate--tRNA_ligase)_375947..376177_POSITIVE 339 90 41 176 123 pint:PI0667|5end_hypothetical_protein_610113..610343_POSITIVE 330 95 57 230 195 pint:PI1769|5end_hypothetical_protein_1696507..1696737_POSITIVE 323 100 55 97 41 pint:PI1971|5end_possible_IS1249-related_transposase_1928027..1928257_POSITIVE 323 100 55 97 41 pint:PI1533|5end_conserved_hypothetical_protein;_possible_transposase_1452667..1452897_POSITIVE 323 100 55 97 41 pint:PI0534|5end_conserved_hypothetical_protein;_possible_transposase_488568..488798_POSITIVE 320 94 54 85 41 pint:PI1501|5end_GTP-binding_elongation_factor_family_protein_TypA/BipA_1421424..1421654_POSITIVE 302 99 55 52 4 pint:PI1542|5end_mobilization_protein_1461728..1461958_POSITIVE 287 98 54 61 24 pint:PI1651|5end_hypothetical_protein_1563845..1564075_POSITIVE 282 99 53 56 8 pint:PI0864|5end_dihydrodipicolinate_synthase_800527..800757_POSITIVE 280 99 54 165 103 pint:PI1069|5end_hypothetical_protein_988067..988297_POSITIVE 279 99 56 189 142 pint:PI0088|5end_S-adenosylmethionine_synthetase_86663..86893_POSITIVE 278 97 56 70 12 pint:PI1985|5end_hypothetical_protein_1940291..1940521_POSITIVE 273 94 55 79 28 pint:PI0587|5end_conserved_hypothetical_protein_534416..534646_POSITIVE 270 91 56 73 30 pint:PI1230|5end_probable_metallo-beta-lactamase_family_protein_1151840..1152070_POSITIVE 269 97 51 55 12 pint:PI0812|5end_conserved_hypothetical_protein;_possible_ferredoxin_750185..750415_POSITIVE 269 100 55 199 153 pint:PI0264|5end_transfer_region-related_protein,_TraN_256494..256724_POSITIVE 268 96 56 58 22 pint:PI1139|5end_endopeptidase,_endothelin-converting_enzyme_1065216..1065446_POSITIVE 266 95 60 128 81 pint:PI0198|5end_hypothetical_protein_190719..190949_POSITIVE 264 91 55 73 34 pint:PI2112|5end_phosphopantetheine_adenylyltransferase_2063194..2063424_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 345 90 41 137 81 pint:PI0409|3end_3-deoxy-D-manno-octulosonic-acid_transferase_(kdotransferase)_375969..376119_POSITIVE 305 98 51 120 66 pint:PI0721|3end_hypothetical_protein_654982..655132_POSITIVE 302 99 55 128 80 pint:PI1541|3end_hypothetical_protein_1461884..1462034_POSITIVE 282 84 54 37 7 pint:PI1764|3end_conserved_hypothetical_protein_1691253..1691403_POSITIVE 278 98 55 82 37 pint:PI0684|3end_coproporphyrinogen_III_oxidase_620507..620657_POSITIVE 276 98 54 37 3 pint:PI1650|3end_N-acetylmuramoyl-L-alanine_amidase_1563901..1564051_POSITIVE 274 98 55 151 115 pint:PI0666|3end_chorismate_synthase_610171..610321_POSITIVE 264 91 55 57 18 pint:PI2111|3end_conserved_hypothetical_protein_2063258..2063408_POSITIVE 264 89 41 136 100 pint:PI0521|3end_hypothetical_protein_479061..479211_POSITIVE 264 93 55 137 89 pint:PI0210|3end_hypothetical_protein_203798..203948_POSITIVE 259 89 58 104 74 pint:PI0565|3end_hypothetical_protein_511657..511807_POSITIVE 257 95 51 134 80 pint:PI0422|3end_conserved_hypothetical_protein_388025..388175_POSITIVE 256 80 31 147 92 pint:PI0753|3end_hypothetical_protein_683851..684001_POSITIVE 255 97 53 51 8 pint:PI2096|3end_conserved_hypothetical_protein;_possible_phosphoesterase_2050884..2051034_POSITIVE 252 100 56 57 1 pint:PI1766|3end_sugar_transporter,_possible_glucose/galactose_transporter_1694350..1694500_POSITIVE 248 100 56 66 25 pint:PI2169|3end_hypothetical_protein_2112325..2112475_POSITIVE 248 91 55 99 49 pint:PI0805|3end_conserved_hypothetical_protein_743807..743957_POSITIVE 248 96 59 48 15 pint:PI0139|3end_pyridoxine_biosynthesis_protein_132724..132874_POSITIVE 246 100 57 149 107 pint:PI0767|3end_possible_TonB-dependent_receptor_704025..704175_POSITIVE 245 92 51 76 16 pint:PI2093|3end_hypothetical_protein_2049440..2049590_POSITIVE