Origin IGS: gcttaaaaagtctagttatctaggctttttcttgtgagcaaatcggttgcttgtactcaagattcgagttagaataatttttcaaaatgaaggaccggaatagacaaggagaatcact .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 agtgattctccttgtctattccggtccttcattttgaaaaattattctaactcgaatcttgagtacaagcaaccgatttgctcacaagaaaaagcctagataactagactttttaagc Mask Tandem Repeat Region ================================================ gcttaaaaagtctagttatctaggctttttcttgtgagcaaatcggttgcttgtactcaagattcgagttagaataatttttcaaaatgaaggaccggaatagacaaggagaatcact Find is-nt database================================================ Query_seq: SMT_226:SMT_227|SMT_226:SMT_227:putative L-glutamine-D-fructose-6-phosphate amidotransferase:hypothetical protein:->->:164061..164178 118 gcttaaaaagtctagttatctaggctttttcttgtgagcaaatcggttgcttgtactcaagattcgagttagaataatttttcaaaatgaaggaccggaatagacaaggagaatcact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_226:SMT_227|SMT_226:SMT_227:putative L-glutamine-D-fructose-6-phosphate amidotransferase:hypothetical protein:->->:164061..164178 118 gcttaaaaagtctagttatctaggctttttcttgtgagcaaatcggttgcttgtactcaagattcgagttagaataatttttcaaaatgaaggaccggaatagacaaggagaatcact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_226:SMT_227|SMT_226:SMT_227:putative L-glutamine-D-fructose-6-phosphate amidotransferase:hypothetical protein:->->:164061..164178 118 gcttaaaaagtctagttatctaggctttttcttgtgagcaaatcggttgcttgtactcaagattcgagttagaataatttttcaaaatgaaggaccggaatagacaaggagaatcact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gcttaaaaagtctagttatctaggctttttcttgtgagcaaatcggttgcttgtactcaagattcgagttagaataatttttcaaaatgaaggaccggaatagacaaggagaatcact Predict ORF larger than 30AA ================================================ gcttaaaaagtctagttatctaggctttttcttgtgagcaaatcggttgcttgtactcaagattcgagttagaataatttttcaaaatgaaggaccggaatagacaaggagaatcact 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: 81 Start: 46 End: 75 .............................................GTTGCTTGTACTCAAGATTCGAGTTAGAAT........................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ gcttaaaaagtctagttatctaggctttttcttgtgagcaaatcggttgcttgtactcaagattcgagttagaataatttttcaaaatgaaggaccggaatagacaaggagaatcact Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_226:SMT_227|SMT_226:SMT_227:putative L-glutamine-D-fructose-6-phosphate amidotransferase:hypothetical protein:->->:164061..164178 118 gcttaaaaagtctagttatctaggctttttcttgtgagcaaatcggttgcttgtactcaagattcgagttagaataatttttcaaaatgaaggaccggaatagacaaggagaatcact Intra-Species Hit: Count: 2 Min: 1 Max: 118 Len: 118 Subject: smit_SMT_226_SMT_227|putative L-glutamine-D-fructose-6-phosphate amidotransferase:hypothetical protein|POSITIVE:POSITIVE|[164061,164178]|118 HSP 1 e-value: 5.0E-61 bit: 234.0 Len: 118 Query Start:1 Query End:118 Subject Strand: POSITIVE Subject Start: 1 Subject End: 118 gcttaaaaagtctagttatctaggctttttcttgtgagcaaatcggttgcttgtactcaagattcgagttagaataatttttcaaaatgaaggaccggaatagacaaggagaatcact gcttaaaaagtctagttatctaggctttttcttgtgagcaaatcggttgcttgtactcaagattcgagttagaataatttttcaaaatgaaggaccggaatagacaaggagaatcact Subject: smit_SMT_223_SMT_224|D-fructose-6-phosphate amidotransferase:hypothetical protein|POSITIVE:POSITIVE|[158492,158609]|118 HSP 1 e-value: 5.0E-61 bit: 234.0 Len: 118 Query Start:1 Query End:118 Subject Strand: POSITIVE Subject Start: 1 Subject End: 118 gcttaaaaagtctagttatctaggctttttcttgtgagcaaatcggttgcttgtactcaagattcgagttagaataatttttcaaaatgaaggaccggaatagacaaggagaatcact gcttaaaaagtctagttatctaggctttttcttgtgagcaaatcggttgcttgtactcaagattcgagttagaataatttttcaaaatgaaggaccggaatagacaaggagaatcact Inter-species Hit: Count: 3 Min: 5 Max: 117 Len: 113 Subject: NC_008533_SPD_0248_SPD_0249|glucosamine--fructose-6-phosphate aminotransferase, isomerizing:hypothetical protein|POSITIVE:POSITIVE|[242108,242225]|118 HSP 1 e-value: 6.0E-39 bit: 161.0 Len: 113 Query Start:5 Query End:117 Subject Strand: POSITIVE Subject Start: 5 Subject End: 117 ....aaaaagtctagttatctaggctttttcttgtgagcaaatcggttgcttgtactcaagattcgagttagaataatttttcaaaatgaaggaccggaatagacaaggagaatcac. ....aaaaagtctagttatctaggctttttctaatgagcaaattggttgcttgtactcaagattcgtgttagaataatttttcaaattgaaggacagagatagacaaggagaatcac. Subject: NC_003098_spr0245_spr0246|D-fructose-6-phosphate amidotransferase:hypothetical protein|POSITIVE:POSITIVE|[242107,242224]|118 HSP 1 e-value: 6.0E-39 bit: 161.0 Len: 113 Query Start:5 Query End:117 Subject Strand: POSITIVE Subject Start: 5 Subject End: 117 ....aaaaagtctagttatctaggctttttcttgtgagcaaatcggttgcttgtactcaagattcgagttagaataatttttcaaaatgaaggaccggaatagacaaggagaatcac. ....aaaaagtctagttatctaggctttttctaatgagcaaattggttgcttgtactcaagattcgtgttagaataatttttcaaattgaaggacagagatagacaaggagaatcac. Subject: NC_003028_SP_0266_SP_0267|D-fructose-6-phosphate amidotransferase:oxidoreductase, putative|POSITIVE:POSITIVE|[241579,241696]|118 HSP 1 e-value: 1.0E-36 bit: 153.0 Len: 113 Query Start:5 Query End:117 Subject Strand: POSITIVE Subject Start: 5 Subject End: 117 ....aaaaagtctagttatctaggctttttcttgtgagcaaatcggttgcttgtactcaagattcgagttagaataatttttcaaaatgaaggaccggaatagacaaggagaatcac. ....aaaaagtctagttatctaggctttttctaatgagcaaatcggttgcttgtactcaagattcgtgttagaataatttttcaaattgaagtacagagatagataaggagaatcac. Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAAGUCUAGUUAUCUAGGCUUUUUCUUGUGAGCAAAUCGGUUGCUUGUACUCAAGAUUCGAGUUAGAAUAAUUUUUCAAAAUGAAGGACCGGAAUAGACAAGGAGAAUCAC (((((((((((....)))))))))))..((..(((((.....)))))..)).....(((((............((((((.....))))))((...........)).))))).. (-25.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUGAUUCUCCUUGUCUAUUCCGGUCCUUCAUUUUGAAAAAUUAUUCUAACUCGAAUCUUGAGUACAAGCAACCGAUUUGCUCACAAGAAAAAGCCUAGAUAACUAGACUUUUU .....(((..(((((((....((..(((..(((((.............((((((...))))))...(((((.....)))))..)))))..))))))))))))..)))...... (-17.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 398 57 11 53 5 smit:SMT_868|5end_D-alanyl-D-alanine_carboxypeptidase_817225..817455_NEGATIVE 292 65 21 43 1 smit:SMT_1989|5end_multimodular_transpeptidase-transglycosylase_1917607..1917837_NEGATIVE 291 50 6 128 75 smit:SMT_1397|5end_mutator_MutT_protein_1372727..1372957_POSITIVE 286 68 21 49 1 smit:SMT_1221|5end_choline_binding_protein_A_1185539..1185769_NEGATIVE 258 46 5 88 39 smit:SMT_1466|5end_endopeptidase_O_1446962..1447192_POSITIVE 252 52 11 79 35 smit:SMT_1711|5end_Xaa-Pro_dipeptidase_1697494..1697724_NEGATIVE 250 62 21 156 114 smit:SMT_1267|5end_hypothetical_protein_1231658..1231888_POSITIVE 250 47 1 225 180 smit:SMT_224|5end_hypothetical_protein_158470..158700_POSITIVE 247 67 23 213 178 smit:SMT_1717|5end_DNA-3-methyladenine_glycosylase_I_1704274..1704504_NEGATIVE 245 46 7 156 113 smit:SMT_1543|5end_diphosphomevalonate_decarboxylase_1528024..1528254_NEGATIVE 244 70 26 53 13 smit:SMT_145|5end_hypothetical_protein_95873..96103_POSITIVE 243 49 15 210 181 smit:SMT_1128|5end_surface_antigen_1063140..1063370_NEGATIVE 241 77 41 76 29 smit:SMT_506|5end_K07729_putative_transcriptional_regulator_437635..437865_NEGATIVE 241 77 41 76 29 smit:SMT_503|5end_K07729_putative_transcriptional_regulator_436204..436434_NEGATIVE 239 59 16 192 144 smit:SMT_2150|5end_threonyl-tRNA_synthetase_2024673..2024903_POSITIVE 238 49 26 226 202 smit:SMT_1988|5end_two-component_sensor_kinase_YesM_1916804..1917034_NEGATIVE 237 46 5 203 158 smit:SMT_949|5end_glycosyl_transferase,_family_2_897693..897923_NEGATIVE 237 55 11 212 178 smit:SMT_624|5end_K07584_hypothetical_protein_529870..530100_POSITIVE 234 48 8 199 154 smit:SMT_1833|5end_tagatose_1,6-diphosphate_aldolase_1801369..1801599_POSITIVE 233 50 4 51 16 smit:SMT_1844|5end_hypothetical_protein_1808587..1808817_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 398 57 11 50 2 smit:SMT_869|3end_hypothetical_protein_817228..817378_NEGATIVE 302 42 6 117 75 smit:SMT_304|3end_hypothetical_protein_247583..247733_POSITIVE 291 50 6 118 65 smit:SMT_1396|3end_uracil-DNA_glycosylase_1372797..1372947_POSITIVE 279 73 31 46 2 smit:SMT_1654|3end_K03110_signal_recognition_particle_receptor_1643519..1643669_POSITIVE 267 49 1 110 60 smit:SMT_1186|3end_hypothetical_protein_1144886..1145036_POSITIVE 252 52 11 86 42 smit:SMT_1712|3end_excinuclease_ABC_subunit_A_1697487..1697637_NEGATIVE 250 47 1 106 61 smit:SMT_226|3end_putative_L-glutamine-D-fructose-6-phosphate_amidotransferase_164000..164150_POSITIVE 250 47 1 106 61 smit:SMT_223|3end_D-fructose-6-phosphate_amidotransferase_158431..158581_POSITIVE 245 49 5 150 108 smit:SMT_1581|3end_transcriptional_regulator,_biotin_repressor_family_1573120..1573270_NEGATIVE 243 49 15 47 18 smit:SMT_1129|3end_hypothetical_protein_1063303..1063453_NEGATIVE 241 64 22 144 101 smit:SMT_1172|3end_hypothetical_protein_1119344..1119494_NEGATIVE 241 77 41 73 26 smit:SMT_507|3end_hypothetical_protein_437638..437788_NEGATIVE 241 77 41 73 26 smit:SMT_504|3end_hypothetical_protein_436207..436357_NEGATIVE 237 58 17 118 71 smit:SMT_811|3end_ATP-dependent_RNA_helicase_721653..721803_POSITIVE 237 55 11 74 40 smit:SMT_623|3end_50S_ribosomal_protein_L21_529812..529962_POSITIVE 233 60 15 58 3 smit:SMT_1159|3end_hypothetical_protein_1103972..1104122_NEGATIVE 232 55 15 65 16 smit:SMT_363|3end_K02519_translation_initiation_factor_IF-2_300751..300901_POSITIVE 228 47 1 88 25 smit:SMT_1119|3end_alcohol_dehydrogenase,_zinc-containing_1055294..1055444_NEGATIVE 227 55 14 74 29 smit:SMT_792|3end_hypothetical_protein_predicted_by_Glimmer/Critica_702458..702608_NEGATIVE 225 65 21 100 48 smit:SMT_360|3end_K07742_hypothetical_protein_296001..296151_POSITIVE