Origin IGS: atgattttcggattaagttgttgaaacagcaattagttagtgatgaaatgtataatgtagagctactatcagttctttgtgccatagcggttgtttatgttgttcataatgactataaacatatgatatctctagtaaaaag .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ctttttactagagatatcatatgtttatagtcattatgaacaacataaacaaccgctatggcacaaagaactgatagtagctctacattatacatttcatcactaactaattgctgtttcaacaacttaatccgaaaatcat Mask Tandem Repeat Region ================================================ atgattttcggattaagttgttgaaacagcaattagttagtgatgaaatgtataatgtagagctactatcagttctttgtgccatagcggttgtttatgttgttcataatgactataaacatatgatatctctagtaaaaag Find is-nt database================================================ Query_seq: SMT_439:SMT_440|SMT_439:SMT_440:hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica:->->:379719..379860 142 atgattttcggattaagttgttgaaacagcaattagttagtgatgaaatgtataatgtagagctactatcagttctttgtgccatagcggttgtttatgttgttcataatgactataaacatatgatatctctagtaaaaag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_439:SMT_440|SMT_439:SMT_440:hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica:->->:379719..379860 142 atgattttcggattaagttgttgaaacagcaattagttagtgatgaaatgtataatgtagagctactatcagttctttgtgccatagcggttgtttatgttgttcataatgactataaacatatgatatctctagtaaaaag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_439:SMT_440|SMT_439:SMT_440:hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica:->->:379719..379860 142 atgattttcggattaagttgttgaaacagcaattagttagtgatgaaatgtataatgtagagctactatcagttctttgtgccatagcggttgtttatgttgttcataatgactataaacatatgatatctctagtaaaaag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atgattttcggattaagttgttgaaacagcaattagttagtgatgaaatgtataatgtagagctactatcagttctttgtgccatagcggttgtttatgttgttcataatgactataaacatatgatatctctagtaaaaag Predict ORF larger than 30AA ================================================ Protein_Len: 43 Strand: + Start: 12 End: 140 ........... M K L L K Q Q L V S D E M Y N V E L L S V L C A I A V V Y V V H N D Y K H M I S L V K .. Protein_Len: 30 Strand: - Start: 40 End: 129 ....................................... H H F T Y H L A V I L E K H W L P Q K H Q E Y H S Y V Y S M ............. atgattttcggattaagttgttgaaacagcaattagttagtgatgaaatgtataatgtagagctactatcagttctttgtgccatagcggttgtttatgttgttcataatgactataaacatatgatatctctagtaaaaag 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: 82 Start: 20 End: 49 ...................GTTGAAACAGCAATTAGTTAGTGATGAAAT............................................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ atgattttcggattaagttgttgaaacagcaattagttagtgatgaaatgtataatgtagagctactatcagttctttgtgccatagcggttgtttatgttgttcataatgactataaacatatgatatctctagtaaaaag Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_439:SMT_440|SMT_439:SMT_440:hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica:->->:379719..379860 142 atgattttcggattaagttgttgaaacagcaattagttagtgatgaaatgtataatgtagagctactatcagttctttgtgccatagcggttgtttatgttgttcataatgactataaacatatgatatctctagtaaaaag Intra-Species Hit: Count: 1 Min: 1 Max: 142 Len: 142 Subject: smit_SMT_439_SMT_440|hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica|POSITIVE:POSITIVE|[379719,379860]|142 HSP 1 e-value: 3.0E-75 bit: 281.0 Len: 142 Query Start:1 Query End:142 Subject Strand: POSITIVE Subject Start: 1 Subject End: 142 atgattttcggattaagttgttgaaacagcaattagttagtgatgaaatgtataatgtagagctactatcagttctttgtgccatagcggttgtttatgttgttcataatgactataaacatatgatatctctagtaaaaag atgattttcggattaagttgttgaaacagcaattagttagtgatgaaatgtataatgtagagctactatcagttctttgtgccatagcggttgtttatgttgttcataatgactataaacatatgatatctctagtaaaaag Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUGAUUUUCGGAUUAAGUUGUUGAAACAGCAAUUAGUUAGUGAUGAAAUGUAUAAUGUAGAGCUACUAUCAGUUCUUUGUGCCAUAGCGGUUGUUUAUGUUGUUCAUAAUGACUAUAAACAUAUGAUAUCUCUAGUAAAAAG ...............((((((((...))))))))..((((.((((....((((((...((((((......)))))))))))).........(((((((((..(.....)..)).))))))).....)))).))))....... (-24.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUUUUUACUAGAGAUAUCAUAUGUUUAUAGUCAUUAUGAACAACAUAAACAACCGCUAUGGCACAAAGAACUGAUAGUAGCUCUACAUUAUACAUUUCAUCACUAACUAAUUGCUGUUUCAACAACUUAAUCCGAAAAUCAU ..........((((((.((..(((((((((...)))))))))............(((((..((........))...)))))..............................)).))))))...................... (-15.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 272 109 77 141 115 smit:SMT_174|5end_30S_ribosomal_protein_S19_117431..117661_POSITIVE 263 107 69 91 55 smit:SMT_811|5end_ATP-dependent_RNA_helicase_721025..721255_POSITIVE 257 107 61 63 1 smit:SMT_1131|5end_threonine_synthase_1066755..1066985_NEGATIVE 256 104 68 98 62 smit:SMT_1918|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1861935..1862165_NEGATIVE 254 100 60 86 43 smit:SMT_611|5end_aspartate-semialdehyde_dehydrogenase_522492..522722_POSITIVE 252 105 61 180 132 smit:SMT_1147|5end_hypothetical_protein_1092144..1092374_NEGATIVE 251 106 63 53 19 smit:SMT_1163|5end_hypothetical_protein_1110025..1110255_NEGATIVE 249 107 61 91 38 smit:SMT_746|5end_LPS_biosynthesis_protein_651222..651452_NEGATIVE 247 95 61 102 66 smit:SMT_1382|5end_glutamate_5-kinase_1360744..1360974_NEGATIVE 242 103 62 38 5 smit:SMT_188|5end_LSU_ribosomal_protein_L30P_123505..123735_POSITIVE 236 90 43 172 132 smit:SMT_1647|5end_3-isopropylmalate_dehydratase_small_subunit_1633403..1633633_POSITIVE 236 128 84 112 55 smit:SMT_1143|5end_K02025_multiple_sugar_transport_system_permease_protein_1086928..1087158_POSITIVE 233 101 68 51 14 smit:SMT_1945|5end_putative_dihydrolipoamide_S-acetyltransferase_1879961..1880191_POSITIVE 233 90 48 58 15 smit:SMT_1200|5end_K06148_ATP-binding_cassette,_subfamily_C,_bacterial_1163235..1163465_NEGATIVE 232 105 61 51 2 smit:SMT_1078|5end_folylpolyglutamate_synthase_1016713..1016943_NEGATIVE 231 105 63 199 147 smit:SMT_2077|5end_chloride_channel_protein_1979429..1979659_NEGATIVE 227 105 61 205 145 smit:SMT_578|5end_lipoprotein_signal_peptidase_496061..496291_POSITIVE 224 88 56 94 65 smit:SMT_1644|5end_3-isopropylmalate_dehydrogenase_1630704..1630934_POSITIVE 221 106 65 218 176 smit:SMT_1104|5end_K06346_spoIIIJ-associated_protein_1046784..1047014_NEGATIVE 220 94 56 45 1 smit:SMT_956|5end_hypothetical_protein_predicted_by_Glimmer/Critica_904789..905019_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 275 99 55 82 37 smit:SMT_1441|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1424887..1425037_NEGATIVE 272 109 77 37 11 smit:SMT_173|3end_50S_ribosomal_protein_L2_117407..117557_POSITIVE 263 107 69 94 58 smit:SMT_810|3end_oxidoreductase_721108..721258_POSITIVE 247 95 61 51 15 smit:SMT_1383|3end_ribonucleoside-diphosphate_reductase_alpha_chain_1360795..1360945_NEGATIVE 241 107 63 146 91 smit:SMT_156|3end_hypothetical_protein_103518..103668_POSITIVE 237 100 60 136 100 smit:SMT_2074|3end_dTDP-glucose_4,6-dehydratase_1977802..1977952_POSITIVE 224 105 61 139 96 smit:SMT_2042|3end_K04077_chaperonin_GroEL_(Hsp60)_1952960..1953110_NEGATIVE 224 88 56 82 53 smit:SMT_1643|3end_2-isopropylmalate_synthase_1630772..1630922_POSITIVE 221 107 62 115 72 smit:SMT_2105|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1996984..1997134_POSITIVE 220 94 56 58 14 smit:SMT_957|3end_UDP-glucose_4-epimerase_904776..904926_NEGATIVE 220 94 56 143 99 smit:SMT_956|3end_hypothetical_protein_predicted_by_Glimmer/Critica_904691..904841_NEGATIVE 218 112 71 63 37 smit:SMT_640|3end_PTS_system,_lactose-specific_IIBC_component_545099..545249_NEGATIVE 215 96 62 79 46 smit:SMT_929|3end_hypothetical_protein_883202..883352_NEGATIVE 214 104 61 149 106 smit:SMT_1347|3end_SsrA-binding_protein_1324718..1324868_NEGATIVE 213 92 62 77 44 smit:SMT_2125|3end_3-phosphoshikimate_1-carboxyvinyltransferase_2009098..2009248_POSITIVE 213 105 62 49 1 smit:SMT_1079|3end_dihydropteroate_synthase_1016715..1016865_NEGATIVE 213 97 57 53 17 smit:SMT_998|3end_peptide_chain_release_factor_3_939699..939849_NEGATIVE 213 99 62 54 14 smit:SMT_617|3end_hypothetical_protein_526761..526911_POSITIVE 210 105 62 90 32 smit:SMT_1806|3end_aminoacylase/N-acyl-L-amino_acid_amidohydrolase/hippurate_hydrolase_1781644..1781794_POSITIVE 210 97 59 109 71 smit:SMT_1754|3end_leader_peptidase_(prepilin_peptidase)_/_N-methyltransferase_1732363..1732513_NEGATIVE