Origin IGS: gtaattctattatcaaattttttatctaaacattcttggagtgaaacttaaaaagatcggagcaattcgatcttttttgtatttatgcgactttcagtccgtctcgctccgttaggtgcgagacaaaaaaccacccgttttcacgggtggttatgatttctacac .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gtgtagaaatcataaccacccgtgaaaacgggtggttttttgtctcgcacctaacggagcgagacggactgaaagtcgcataaatacaaaaaagatcgaattgctccgatctttttaagtttcactccaagaatgtttagataaaaaatttgataatagaattac Mask Tandem Repeat Region ================================================ gtaattctattatcaaattttttatctaaacattcttggagtgaaacttaaaaagatcggagcaattcgatcttttttgtatttatgcgactttcagtccgtctcgctccgttaggtgcgagacaaaaaaccacccgttttcacgggtggttatgatttctacac Find is-nt database================================================ Query_seq: SMT_457:SMT_458|SMT_457:SMT_458:hypothetical protein:hypothetical protein predicted by Glimmer/Critica:-><-:396654..396818 165 gtaattctattatcaaattttttatctaaacattcttggagtgaaacttaaaaagatcggagcaattcgatcttttttgtatttatgcgactttcagtccgtctcgctccgttaggtgcgagacaaaaaaccacccgttttcacgggtggttatgatttctacac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_457:SMT_458|SMT_457:SMT_458:hypothetical protein:hypothetical protein predicted by Glimmer/Critica:-><-:396654..396818 165 gtaattctattatcaaattttttatctaaacattcttggagtgaaacttaaaaagatcggagcaattcgatcttttttgtatttatgcgactttcagtccgtctcgctccgttaggtgcgagacaaaaaaccacccgttttcacgggtggttatgatttctacac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_457:SMT_458|SMT_457:SMT_458:hypothetical protein:hypothetical protein predicted by Glimmer/Critica:-><-:396654..396818 165 gtaattctattatcaaattttttatctaaacattcttggagtgaaacttaaaaagatcggagcaattcgatcttttttgtatttatgcgactttcagtccgtctcgctccgttaggtgcgagacaaaaaaccacccgttttcacgggtggttatgatttctacac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gtaattctattatcaaattttttatctaaacattcttggagtgaaacttaaaaagatcggagcaattcgatcttttttgtatttatgcgactttcagtccgtctcgctccgttaggtgcgagacaaaaaaccacccgttttcacgggtggttatgatttctacac Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 17 End: 112 ................ M F Y L N I L G V K L K K I G A I R S F L Y L C D F Q S V S L R ..................................................... gtaattctattatcaaattttttatctaaacattcttggagtgaaacttaaaaagatcggagcaattcgatcttttttgtatttatgcgactttcagtccgtctcgctccgttaggtgcgagacaaaaaaccacccgttttcacgggtggttatgatttctacac 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================================================ gtaattctattatcaaattttttatctaaacattcttggagtgaaacttaaaaagatcggagcaattcgatcttttttgtatttatgcgactttcagtccgtctcgctccgttaggtgcgagacaaaaaaccacccgttttcacgggtggttatgatttctacac Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 91 HP_score: -6.3 Tail_Score: -5.59879 Start: 55 End: 72 Full_Region: AGTGAAACTTAAAAA GATCGGA GCAA TTCGATC TTTTTTGTATTTATG ......................................................GATCGGAGCAATTCGATC............................................................................................. TransTerm Strand: + Conf: 79 HP_score: -11.3 Tail_Score: -2.78467 Start: 132 End: 149 Full_Region: TGCGAGACAAAAAAC CACCCGT TTTC ACGGGTG GTTATGATTTCTACA ...................................................................................................................................CACCCGTTTTCACGGGTG................ Find igs database================================================ Query_seq: SMT_457:SMT_458|SMT_457:SMT_458:hypothetical protein:hypothetical protein predicted by Glimmer/Critica:-><-:396654..396818 165 gtaattctattatcaaattttttatctaaacattcttggagtgaaacttaaaaagatcggagcaattcgatcttttttgtatttatgcgactttcagtccgtctcgctccgttaggtgcgagacaaaaaaccacccgttttcacgggtggttatgatttctacac Intra-Species Hit: Count: 1 Min: 1 Max: 165 Len: 165 Subject: smit_SMT_457_SMT_458|hypothetical protein:hypothetical protein predicted by Glimmer/Critica|POSITIVE:NEGATIVE|[396654,396818]|165 HSP 1 e-value: 7.0E-89 bit: 327.0 Len: 165 Query Start:1 Query End:165 Subject Strand: POSITIVE Subject Start: 1 Subject End: 165 gtaattctattatcaaattttttatctaaacattcttggagtgaaacttaaaaagatcggagcaattcgatcttttttgtatttatgcgactttcagtccgtctcgctccgttaggtgcgagacaaaaaaccacccgttttcacgggtggttatgatttctacac gtaattctattatcaaattttttatctaaacattcttggagtgaaacttaaaaagatcggagcaattcgatcttttttgtatttatgcgactttcagtccgtctcgctccgttaggtgcgagacaaaaaaccacccgttttcacgggtggttatgatttctacac Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUAAUUCUAUUAUCAAAUUUUUUAUCUAAACAUUCUUGGAGUGAAACUUAAAAAGAUCGGAGCAAUUCGAUCUUUUUUGUAUUUAUGCGACUUUCAGUCCGUCUCGCUCCGUUAGGUGCGAGACAAAAAACCACCCGUUUUCACGGGUGGUUAUGAUUUCUACAC ...........((((......................(((.(((((....(((((((((((....)))))))))))(((((....))))).))))).)))(((((((.((....)).)))))))....((((((((((....)))))))))).))))........ (-55.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUGUAGAAAUCAUAACCACCCGUGAAAACGGGUGGUUUUUUGUCUCGCACCUAACGGAGCGAGACGGACUGAAAGUCGCAUAAAUACAAAAAAGAUCGAAUUGCUCCGAUCUUUUUAAGUUUCACUCCAAGAAUGUUUAGAUAAAAAAUUUGAUAAUAGAAUUAC (((.(((......((((((((((....)))))))))).....))))))..(((..((((.(((((.(((.....)))...........((((((((((........))))))))))..))))).))))........((((((.....))))))...)))...... (-53.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 338 124 81 221 166 smit:SMT_1734|5end_serine/threonine_protein_phosphatase_1718558..1718788_POSITIVE 332 149 106 42 1 smit:SMT_1115|5end_K02245_competence_protein_ComGC_1052796..1053026_NEGATIVE 313 148 103 157 109 smit:SMT_235|5end_hypothetical_protein_174081..174311_POSITIVE 309 119 71 164 111 smit:SMT_1753|5end_tryptophan_synthase_beta_chain_1730349..1730579_POSITIVE 304 137 95 44 1 smit:SMT_1607|5end_K03341_putative_deoxyribonucleotide_triphosphate_pyrophosphatase_1596648..1596878_POSITIVE 300 148 101 149 92 smit:SMT_1685|5end_phenylalanyl-tRNA_synthetase_alpha_chain_1668845..1669075_NEGATIVE 295 150 110 67 13 smit:SMT_992|5end_hypothetical_protein_934882..935112_NEGATIVE 292 109 61 121 65 smit:SMT_1077|5end_GTP_cyclohydrolase_I_1015410..1015640_NEGATIVE 286 145 106 82 45 smit:SMT_1994|5end_phosphoglycerate_mutase_1920501..1920731_NEGATIVE 281 140 96 220 179 smit:SMT_755|5end_shikimate_5-dehydrogenase_659917..660147_NEGATIVE 279 122 94 125 88 smit:SMT_894|5end_hypothetical_protein_841701..841931_NEGATIVE 277 113 79 175 132 smit:SMT_1989|5end_multimodular_transpeptidase-transglycosylase_1917607..1917837_NEGATIVE 277 77 49 133 105 smit:SMT_457|5end_hypothetical_protein_396166..396396_POSITIVE 275 127 85 170 122 smit:SMT_1573|5end_MutT/NUDIX_family_protein_1566413..1566643_POSITIVE 273 150 104 113 58 smit:SMT_1818|5end_tryptophan_synthase,_alpha_subunit_1792190..1792420_POSITIVE 269 148 103 54 12 smit:SMT_1585|5end_phosphopantetheine_adenylyltransferase_1575242..1575472_POSITIVE 269 140 91 230 173 smit:SMT_1543|5end_diphosphomevalonate_decarboxylase_1528024..1528254_NEGATIVE 265 121 83 214 170 smit:SMT_1475|5end_K02004_1455873..1456103_POSITIVE 265 70 40 40 8 smit:SMT_1168|5end_potassium_uptake_protein_KtrB_1116552..1116782_NEGATIVE 264 150 103 178 128 smit:SMT_2052|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1961591..1961821_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 327 149 105 40 2 smit:SMT_1116|3end_K02244_competence_protein_ComGB_1052798..1052948_NEGATIVE 320 137 94 47 3 smit:SMT_1606|3end_glutamate_racemase_1596731..1596881_POSITIVE 313 148 103 147 99 smit:SMT_234|3end_aminopeptidase_PepS_174151..174301_POSITIVE 310 139 91 148 101 smit:SMT_808|3end_hypothetical_protein_predicted_by_Glimmer/Critica_717897..718047_NEGATIVE 295 150 110 66 12 smit:SMT_993|3end_hypothetical_protein_934883..935033_NEGATIVE 294 158 114 92 40 smit:SMT_999|3end_hypothetical_protein_predicted_by_Glimmer/Critica_941496..941646_NEGATIVE 292 109 61 140 84 smit:SMT_1078|3end_folylpolyglutamate_synthase_1015391..1015541_NEGATIVE 286 145 106 48 11 smit:SMT_1995|3end_phosphoglycerate_mutase_1920535..1920685_NEGATIVE 285 119 86 69 41 smit:SMT_2015|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1932839..1932989_POSITIVE 279 122 94 132 95 smit:SMT_895|3end_cysteinyl-tRNA_synthetase_841694..841844_NEGATIVE 275 127 85 147 99 smit:SMT_1572|3end_excinuclease_ABC_subunit_B_1566470..1566620_POSITIVE 269 148 103 64 22 smit:SMT_1584|3end_methyltransferase,_putative_1575332..1575482_POSITIVE 260 123 87 44 7 smit:SMT_1611|3end_K05896_segregation_and_condensation_protein_A_1600113..1600263_POSITIVE 259 119 72 130 86 smit:SMT_1348|3end_exoribonuclease_II_1325148..1325298_NEGATIVE 257 147 102 69 29 smit:SMT_1946|3end_sucrose-6-phosphate_hydrolase_1881205..1881355_POSITIVE 254 152 116 143 110 smit:SMT_1359|3end_dihydroorotate_dehydrogenase_electron_transfer_subunit_1337203..1337353_NEGATIVE 251 148 106 98 54 smit:SMT_2081|3end_glycosyltransferase_1981336..1981486_POSITIVE 251 146 104 78 31 smit:SMT_141|3end_K03495_glucose_inhibited_division_protein_A_93401..93551_POSITIVE 250 119 71 145 96 smit:SMT_719|3end_K06147_ATP-binding_cassette,_subfamily_B,_bacterial_625006..625156_NEGATIVE 248 135 96 150 93 smit:SMT_346|3end_K01992_ABC-2_type_transport_system_permease_protein_285849..285999_POSITIVE