Origin IGS: ttccttctcctatcttttcaaccccaaaagaaagagcacatgcaagatacatgtactctggaatgcttagataaatgctaaaaagcggtctatcctagctctgtcctt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaggacagagctaggatagaccgctttttagcatttatctaagcattccagagtacatgtatcttgcatgtgctctttcttttggggttgaaaagataggagaaggaa Mask Tandem Repeat Region ================================================ ttccttctcctatcttttcaaccccaaaagaaagagcacatgcaagatacatgtactctggaatgcttagataaatgctaaaaagcggtctatcctagctctgtcctt Find is-nt database================================================ Query_seq: SMT_1528:SMT_1529|SMT_1528:SMT_1529:K03310 alanine or glycine:cation symporter, AGCS family:hypothetical protein predicted by Glimmer/Critica:<-<-:1512758..1512865 108 ttccttctcctatcttttcaaccccaaaagaaagagcacatgcaagatacatgtactctggaatgcttagataaatgctaaaaagcggtctatcctagctctgtcctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1528:SMT_1529|SMT_1528:SMT_1529:K03310 alanine or glycine:cation symporter, AGCS family:hypothetical protein predicted by Glimmer/Critica:<-<-:1512758..1512865 108 ttccttctcctatcttttcaaccccaaaagaaagagcacatgcaagatacatgtactctggaatgcttagataaatgctaaaaagcggtctatcctagctctgtcctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1528:SMT_1529|SMT_1528:SMT_1529:K03310 alanine or glycine:cation symporter, AGCS family:hypothetical protein predicted by Glimmer/Critica:<-<-:1512758..1512865 108 ttccttctcctatcttttcaaccccaaaagaaagagcacatgcaagatacatgtactctggaatgcttagataaatgctaaaaagcggtctatcctagctctgtcctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttccttctcctatcttttcaaccccaaaagaaagagcacatgcaagatacatgtactctggaatgcttagataaatgctaaaaagcggtctatcctagctctgtcctt Predict ORF larger than 30AA ================================================ ttccttctcctatcttttcaaccccaaaagaaagagcacatgcaagatacatgtactctggaatgcttagataaatgctaaaaagcggtctatcctagctctgtcctt 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================================================ ttccttctcctatcttttcaaccccaaaagaaagagcacatgcaagatacatgtactctggaatgcttagataaatgctaaaaagcggtctatcctagctctgtcctt Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 91 HP_score: -10.1 Tail_Score: -4.68655 Start: 34 End: 58 Full_Region: tatctaagcattcca gagtacatgta tct tgcatgtgctc tttcttttggggttg .................................gagtacatgtatcttgcatgtgctc.................................................. Find igs database================================================ Query_seq: SMT_1528:SMT_1529|SMT_1528:SMT_1529:K03310 alanine or glycine:cation symporter, AGCS family:hypothetical protein predicted by Glimmer/Critica:<-<-:1512758..1512865 108 ttccttctcctatcttttcaaccccaaaagaaagagcacatgcaagatacatgtactctggaatgcttagataaatgctaaaaagcggtctatcctagctctgtcctt Intra-Species Hit: Count: 1 Min: 1 Max: 108 Len: 108 Subject: smit_SMT_1528_SMT_1529|K03310 alanine or glycine:cation symporter, AGCS family:hypothetical protein predicted by Glimmer/Critica|NEGATIVE:NEGATIVE|[1512758,1512865]|108 HSP 1 e-value: 4.0E-55 bit: 214.0 Len: 108 Query Start:1 Query End:108 Subject Strand: POSITIVE Subject Start: 1 Subject End: 108 ttccttctcctatcttttcaaccccaaaagaaagagcacatgcaagatacatgtactctggaatgcttagataaatgctaaaaagcggtctatcctagctctgtcctt ttccttctcctatcttttcaaccccaaaagaaagagcacatgcaagatacatgtactctggaatgcttagataaatgctaaaaagcggtctatcctagctctgtcctt Inter-species Hit: Count: 3 Min: 1 Max: 108 Len: 108 Subject: NC_008533_SPD_0371_SPD_0372|MutS2 family protein:sodium:alanine symporter family protein|POSITIVE:POSITIVE|[376277,376617]|341 HSP 1 e-value: 1.0E-52 bit: 206.0 Len: 108 Query Start:1 Query End:108 Subject Strand: NEGATIVE Subject Start: 234 Subject End: 341 ttccttctcctatcttttcaaccccaaaagaaagagcacatgcaagatacatgtactctggaatgcttagataaatgctaaaaagcggtctatcctagctctgtcctt ttccttctcctatcgtttcaaccccaaaagaaagagcacatgcaagatacatgtactctggaatgcttagataaatgctaaaaagcggtctatcctagctctgtcctt Subject: NC_003098_spr0368_spr0369|DNA mismatch repair protein:D-alanine glycine permease|POSITIVE:POSITIVE|[368748,369088]|341 HSP 1 e-value: 1.0E-52 bit: 206.0 Len: 108 Query Start:1 Query End:108 Subject Strand: NEGATIVE Subject Start: 234 Subject End: 341 ttccttctcctatcttttcaaccccaaaagaaagagcacatgcaagatacatgtactctggaatgcttagataaatgctaaaaagcggtctatcctagctctgtcctt ttccttctcctatcgtttcaaccccaaaagaaagagcacatgcaagatacatgtactctggaatgcttagataaatgctaaaaagcggtctatcctagctctgtcctt Subject: NC_003028_SP_0407_SP_0408|hypothetical protein:sodium:alanine symporter family protein|NEGATIVE:POSITIVE|[387553,387672]|120 HSP 1 e-value: 1.0E-52 bit: 206.0 Len: 108 Query Start:1 Query End:108 Subject Strand: NEGATIVE Subject Start: 13 Subject End: 120 ttccttctcctatcttttcaaccccaaaagaaagagcacatgcaagatacatgtactctggaatgcttagataaatgctaaaaagcggtctatcctagctctgtcctt ttccttctcctatcgtttcaaccccaaaagaaagagcacatgcaagatacatgtactctggaatgcttagataaatgctaaaaagcggtctatcctagctctgtcctt Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUCCUUCUCCUAUCUUUUCAACCCCAAAAGAAAGAGCACAUGCAAGAUACAUGUACUCUGGAAUGCUUAGAUAAAUGCUAAAAAGCGGUCUAUCCUAGCUCUGUCCUU ............((((((.......)))))).((((.(((((.......))))).))))(((..(((..((((..((((....))))...))))..)))....))).. (-23.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGGACAGAGCUAGGAUAGACCGCUUUUUAGCAUUUAUCUAAGCAUUCCAGAGUACAUGUAUCUUGCAUGUGCUCUUUCUUUUGGGGUUGAAAAGAUAGGAGAAGGAA .........(((.(((((((..(((....))).))))))).)))..(((.((((((((((.....))))))))))..(((((((...((....)).))))))).))). (-34.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 904 70 21 161 112 smit:SMT_1528|5end_K03310_alanine_or_glycine:cation_symporter,_AGCS_family_1512667..1512897_NEGATIVE 282 100 56 198 159 smit:SMT_1619|5end_K02006_cobalt_transport_system_ATP-binding_protein_1606526..1606756_NEGATIVE 280 100 55 40 3 smit:SMT_275|5end_transcriptional_activator-exopolysaccharide_biosynthesis_217369..217599_POSITIVE 265 38 1 213 177 smit:SMT_1734|5end_serine/threonine_protein_phosphatase_1718558..1718788_POSITIVE 262 43 3 200 150 smit:SMT_102|5end_competence-specific_global_transcription_modulator_34108..34338_POSITIVE 257 68 22 231 177 smit:SMT_1526|5end_K07720_two-component_system,_response_regulator_YesN_1510554..1510784_NEGATIVE 257 90 50 138 89 smit:SMT_215|5end_leucyl-tRNA_synthetase_147045..147275_POSITIVE 254 43 14 85 58 smit:SMT_2019|5end_dTDP-glucose_4,6-dehydratase_1937054..1937284_POSITIVE 252 45 1 48 8 smit:SMT_376|5end_DNA_(cytosine-5-)-methyltransferase_312900..313130_POSITIVE 245 43 1 213 166 smit:SMT_233|5end_hypothetical_protein_172656..172886_POSITIVE 242 100 52 144 79 smit:SMT_1696|5end_hypothetical_protein_1678182..1678412_POSITIVE 235 89 43 231 188 smit:SMT_1199|5end_lactococcin_A_ABC_transporter_permease_protein_1161063..1161293_NEGATIVE 228 65 22 231 188 smit:SMT_745|5end_glycosyl_transferase,_group_1_family_protein_650387..650617_NEGATIVE 227 49 1 59 2 smit:SMT_1113|5end_hypothetical_protein_1052071..1052301_NEGATIVE 226 46 1 156 106 smit:SMT_962|5end_putative_hemin_transport_system_ATP-binding_protein_fecE_908584..908814_NEGATIVE 224 66 32 40 8 smit:SMT_1286|5end_hypothetical_protein_1248388..1248618_POSITIVE 223 90 44 89 46 smit:SMT_729|5end_K07707_two-component_system,_AgrA_family,_response_regulator_AgrA_635068..635298_NEGATIVE 222 57 11 151 100 smit:SMT_807|5end_hypothetical_protein_predicted_by_Glimmer/Critica_716815..717045_NEGATIVE 221 38 17 90 66 smit:SMT_1997|5end_K03294_basic_amino_acid/polyamine_antiporter,_APA_family_1921824..1922054_NEGATIVE 218 48 1 141 94 smit:SMT_770|5end_K02053_spermidine/putrescine_transport_system_permease_protein_681359..681589_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 262 43 3 79 29 smit:SMT_101|3end_cell_division_protein_34067..34217_POSITIVE 257 90 50 79 30 smit:SMT_214|3end_leucyl-tRNA_synthetase_147066..147216_POSITIVE 223 58 13 61 15 smit:SMT_1172|3end_hypothetical_protein_1119344..1119494_NEGATIVE 218 48 1 144 97 smit:SMT_771|3end_spermidine/putrescine_transport_system_permease_protein_PotB_681356..681506_NEGATIVE 215 79 33 70 28 smit:SMT_1588|3end_UDP-N-acetylglucosamine_1-carboxyvinyltransferase_1578425..1578575_POSITIVE 215 54 12 83 34 smit:SMT_746|3end_LPS_biosynthesis_protein_650377..650527_NEGATIVE 214 100 55 51 9 smit:SMT_1243|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1204469..1204619_POSITIVE 214 43 1 150 104 smit:SMT_963|3end_K02015_iron_complex_transport_system_permease_protein_908586..908736_NEGATIVE 204 73 31 78 32 smit:SMT_1226|3end_ribosomal_protein_S9_1189209..1189359_POSITIVE 203 100 67 29 1 smit:SMT_1620|3end_hypothetical_protein_1606695..1606845_NEGATIVE 203 50 4 140 103 smit:SMT_1452|3end_ABC-type_uncharacterized_transport_system,_ATPase_component_1434676..1434826_NEGATIVE 203 88 52 75 35 smit:SMT_710|3end_hypothetical_protein_predicted_by_Glimmer/Critica_619270..619420_NEGATIVE 200 86 41 83 43 smit:SMT_2075|3end_phosphoribosylamine--glycine_ligase_1977769..1977919_NEGATIVE 200 43 2 53 1 smit:SMT_1157|3end_septation_ring_formation_regulator_EzrA_1100202..1100352_NEGATIVE 199 99 64 69 41 smit:SMT_960|3end_putative_esterase_906126..906276_NEGATIVE 198 46 6 132 82 smit:SMT_797|3end_hypothetical_protein_705849..705999_POSITIVE 197 47 5 101 52 smit:SMT_104|3end_DNA_repair_protein_50926..51076_POSITIVE 196 73 33 76 38 smit:SMT_1467|3end_hydroxyacylglutathione_hydrolase_1448004..1448154_NEGATIVE 196 100 77 149 125 smit:SMT_1125|3end_K08987_putative_membrane_protein_1060975..1061125_NEGATIVE 195 47 1 51 1 smit:SMT_2051|3end_enoyl-CoA_hydratase_1960067..1960217_NEGATIVE