Origin IGS: ttcagttgggaaaggamcgtctcctactcgactcgtataggctttacataaaccctacaccttkgtcatcttactttggaccaacacagaaccaaatcgtacacaccaggcacaggggttgatgacgtaacaatggatacgtaccnnnnnttaattaattaannnnnagttgcagtctgatactgtgacgtcttggagtaatgtgatactttgagcaagatataagtggtaaaatgacaataaaatca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgattttattgtcattttaccacttatatcttgctcaaagtatcacattactccaagacgtcacagtatcagactgcaactnnnnnttaattaattaannnnnggtacgtatccattgttacgtcatcaacccctgtgcctggtgtgtacgatttggttctgtgttggtccaaagtaagatgacmaaggtgtagggtttatgtaaagcctatacgagtcgagtaggagacgktcctttcccaactgaa Mask Tandem Repeat Region ================================================ ttcagttgggaaaggamcgtctcctactcgactcgtataggctttacataaaccctacaccttkgtcatcttactttggaccaacacagaaccaaatcgtacacaccaggcacaggggttgatgacgtaacaatggatacgtaccnnnnnttaattaattaannnnnagttgcagtctgatactgtgacgtcttggagtaatgtgatactttgagcaagatataagtggtaaaatgacaataaaatca Find is-nt database================================================ Query_seq: SMT_1675:SMT_1676|SMT_1675:SMT_1676:adenylosuccinate synthetase:S4 domain protein:<-<-:1661238..1661485 248 ttcagttgggaaaggamcgtctcctactcgactcgtataggctttacataaaccctacaccttkgtcatcttactttggaccaacacagaaccaaatcgtacacaccaggcacaggggttgatgacgtaacaatggatacgtaccnnnnnttaattaattaannnnnagttgcagtctgatactgtgacgtcttggagtaatgtgatactttgagcaagatataagtggtaaaatgacaataaaatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1675:SMT_1676|SMT_1675:SMT_1676:adenylosuccinate synthetase:S4 domain protein:<-<-:1661238..1661485 248 ttcagttgggaaaggamcgtctcctactcgactcgtataggctttacataaaccctacaccttkgtcatcttactttggaccaacacagaaccaaatcgtacacaccaggcacaggggttgatgacgtaacaatggatacgtaccnnnnnttaattaattaannnnnagttgcagtctgatactgtgacgtcttggagtaatgtgatactttgagcaagatataagtggtaaaatgacaataaaatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1675:SMT_1676|SMT_1675:SMT_1676:adenylosuccinate synthetase:S4 domain protein:<-<-:1661238..1661485 248 ttcagttgggaaaggamcgtctcctactcgactcgtataggctttacataaaccctacaccttkgtcatcttactttggaccaacacagaaccaaatcgtacacaccaggcacaggggttgatgacgtaacaatggatacgtaccnnnnnttaattaattaannnnnagttgcagtctgatactgtgacgtcttggagtaatgtgatactttgagcaagatataagtggtaaaatgacaataaaatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 4 Min: 1 Max: 120 Len: 120 Subject: UniRef90_Q5LXQ5 Cluster: Adenylosuccinate synthetase; n=4; Streptococcus|Rep: Adenylosuccinate synthetase - Streptococcus thermophilus (strain CNRZ 1066) HSP 1 e-value: 4.0E-6 bit: 52.8 Len: 120 Query Start:1 Query End:120 Subject Strand: null Subject Start: 241 Subject End: 280 N P C A W C V R F G S V L V Q S K M T K V * G L C K A Y T S R V G D X P F P T E ................................................................................................................................ N P V A G G V T I G S G I G P S K I N K V V G V C K A Y T S R V G D G P F P T E ................................................................................................................................ Subject: UniRef90_Q9CE93 Cluster: Adenylosuccinate synthetase; n=3; Lactococcus lactis|Rep: Adenylosuccinate synthetase - Lactococcus lactis subsp. lactis (Streptococcus lactis) HSP 1 e-value: 4.0E-6 bit: 52.8 Len: 120 Query Start:1 Query End:120 Subject Strand: null Subject Start: 241 Subject End: 280 N P C A W C V R F G S V L V Q S K M T K V * G L C K A Y T S R V G D X P F P T E ................................................................................................................................ N P V A G G V T I G S G V G P S K I S K V V G V C K A Y T S R V G D G P F P T E ................................................................................................................................ Subject: UniRef90_Q839Y4 Cluster: Adenylosuccinate synthetase; n=2; Enterococcus|Rep: Adenylosuccinate synthetase - Enterococcus faecalis (Streptococcus faecalis) HSP 1 e-value: 5.0E-6 bit: 52.4 Len: 120 Query Start:1 Query End:120 Subject Strand: null Subject Start: 241 Subject End: 280 N P C A W C V R F G S V L V Q S K M T K V * G L C K A Y T S R V G D X P F P T E ................................................................................................................................ N P V A G G V T I G S G V G P S K I N K V V G V C K A Y T S R V G D G P F P T E ................................................................................................................................ Subject: UniRef90_P65887 Cluster: Adenylosuccinate synthetase; n=22; Streptococcus|Rep: Adenylosuccinate synthetase - Streptococcus pneumoniae HSP 1 e-value: 6.0E-6 bit: 52.0 Len: 120 Query Start:1 Query End:120 Subject Strand: null Subject Start: 241 Subject End: 280 N P C A W C V R F G S V L V Q S K M T K V * G L C K A Y T S R V G D X P F P T E ................................................................................................................................ N P V A G G V T I G S G V G P S K I D K V V G V C K A Y T S R V G D G P F P T E ................................................................................................................................ nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngatgacgtaacaatggatacgtaccnnnnnttaattaattaannnnnagttgcagtctgatactgtgacgtcttggagtaatgtgatactttgagcaagatataagtggtaaaatgacaataaaatca Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 6 End: 119 ..... M G K X R L L L D S Y R L Y I N P T P X S S Y F G P T Q N Q I V H T R H R G ................................................................................................................................. Protein_Len: 31 Strand: - Start: 154 End: 246 ......................................................................................................................................................... N I L X X N C D S V T V D Q L L T I S Q A L Y L H Y F S L L M .. nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngatgacgtaacaatggatacgtaccnnnnnttaattaattaannnnnagttgcagtctgatactgtgacgtcttggagtaatgtgatactttgagcaagatataagtggtaaaatgacaataaaatca 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================================================ nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngatgacgtaacaatggatacgtaccnnnnnttaattaattaannnnnagttgcagtctgatactgtgacgtcttggagtaatgtgatactttgagcaagatataagtggtaaaatgacaataaaatca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_1675:SMT_1676|SMT_1675:SMT_1676:adenylosuccinate synthetase:S4 domain protein:<-<-:1661238..1661485 248 nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngatgacgtaacaatggatacgtaccnnnnnttaattaattaannnnnagttgcagtctgatactgtgacgtcttggagtaatgtgatactttgagcaagatataagtggtaaaatgacaataaaatca Intra-Species Hit: Count: 1 Min: 122 Max: 248 Len: 127 Subject: smit_SMT_1675_SMT_1676|adenylosuccinate synthetase:S4 domain protein|NEGATIVE:NEGATIVE|[1661238,1661485]|248 HSP 1 e-value: 4.0E-48 bit: 192.0 Len: 127 Query Start:122 Query End:248 Subject Strand: POSITIVE Subject Start: 122 Subject End: 248 .........................................................................................................................atgacgtaacaatggatacgtaccnnnnnttaattaattaannnnnagttgcagtctgatactgtgacgtcttggagtaatgtgatactttgagcaagatataagtggtaaaatgacaataaaatca .........................................................................................................................atgacgtaacaatggatacgtaccnnnnnttaattaattaannnnnagttgcagtctgatactgtgacgtcttggagtaatgtgatactttgagcaagatataagtggtaaaatgacaataaaatca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUGACGUAACAAUGGAUACGUACCNNNNNUUAAUUAAUUAANNNNNAGUUGCAGUCUGAUACUGUGACGUCUUGGAGUAAUGUGAUACUUUGAGCAAGAUAUAAGUGGUAAAAUGACAAUAAAAUCA ...(((((........)))))..........................((..((((.....))))..))..((..(((((......)))))..))...(((.....((.........)).....))). (-20.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUUUUAUUGUCAUUUUACCACUUAUAUCUUGCUCAAAGUAUCACAUUACUCCAAGACGUCACAGUAUCAGACUGCAACUNNNNNUUAAUUAAUUAANNNNNGGUACGUAUCCAUUGUUACGUCAU ((((......))))...((((.......(((((.....((((......)))).))))).((..((((.....))))..)).......................))))((((........)))).... (-14.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 269 98 54 130 77 smit:SMT_2073|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1976917..1977147_POSITIVE 264 96 60 136 104 smit:SMT_1526|5end_K07720_two-component_system,_response_regulator_YesN_1510554..1510784_NEGATIVE 259 97 56 108 66 smit:SMT_1020|5end_transcriptional_regulator,_TetR_family_955755..955985_POSITIVE 258 96 52 213 177 smit:SMT_604|5end_DNA_polymerase_III,_epsilon_chain_518693..518923_POSITIVE 251 19 1 231 213 smit:SMT_1675|5end_adenylosuccinate_synthetase_1661147..1661377_NEGATIVE 232 93 51 74 27 smit:SMT_1999|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1922792..1923022_NEGATIVE 232 97 52 49 11 smit:SMT_1936|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1873837..1874067_POSITIVE 232 93 51 74 27 smit:SMT_1665|5end_cell_wall_surface_anchor_family_protein_1656335..1656565_NEGATIVE 232 97 52 49 11 smit:SMT_1315|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1280099..1280329_POSITIVE 227 84 48 52 6 smit:SMT_195|5end_30S_ribosomal_protein_S13_126877..127107_POSITIVE 226 86 47 87 40 smit:SMT_1815|5end_K02035_peptide/nickel_transport_system_substrate-binding_protein_1790728..1790958_NEGATIVE 226 100 51 205 153 smit:SMT_800|5end_glycyl-tRNA_synthetase_beta_chain_709632..709862_NEGATIVE 225 97 52 53 16 smit:SMT_2086|5end_hypothetical_protein_1983696..1983926_NEGATIVE 225 87 54 223 181 smit:SMT_2074|5end_dTDP-glucose_4,6-dehydratase_1977021..1977251_POSITIVE 225 97 52 53 16 smit:SMT_1494|5end_nucleoside_diphosphate_kinase_1479500..1479730_POSITIVE 217 97 52 224 187 smit:SMT_1026|5end_sucrose_phosphorylase_962324..962554_NEGATIVE 216 92 54 64 23 smit:SMT_1425|5end_hypothetical_protein_1410805..1411035_NEGATIVE 216 98 54 151 112 smit:SMT_1158|5end_DNA_gyrase_subunit_B_1103957..1104187_NEGATIVE 214 110 65 63 7 smit:SMT_1446|5end_pneumococcal_vaccine_antigen_A_1429610..1429840_NEGATIVE 213 75 47 96 67 smit:SMT_304|5end_hypothetical_protein_246580..246810_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 286 75 48 148 113 smit:SMT_947|3end_ferredoxin_896682..896832_POSITIVE 264 96 60 124 92 smit:SMT_1527|3end_two-component_sensor_kinase_1510566..1510716_NEGATIVE 262 97 51 43 6 smit:SMT_929|3end_hypothetical_protein_883202..883352_NEGATIVE 232 97 52 62 24 smit:SMT_1935|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1873930..1874080_POSITIVE 232 97 52 62 24 smit:SMT_1314|3end_dTDP-4-dehydrorhamnose_3,5-epimerase_related_enzyme_1280192..1280342_POSITIVE 226 95 51 70 21 smit:SMT_2111|3end_hypothetical_protein_predicted_by_Glimmer/Critica_2000036..2000186_POSITIVE 217 97 52 42 5 smit:SMT_451|3end_thiamine-phosphate_pyrophosphorylase_389647..389797_POSITIVE 216 84 49 80 42 smit:SMT_1946|3end_sucrose-6-phosphate_hydrolase_1881205..1881355_POSITIVE 216 98 54 136 97 smit:SMT_1159|3end_hypothetical_protein_1103972..1104122_NEGATIVE 214 110 65 63 7 smit:SMT_1447|3end_hypothetical_protein_1429610..1429760_NEGATIVE 214 109 65 139 92 smit:SMT_1226|3end_ribosomal_protein_S9_1189209..1189359_POSITIVE 214 73 47 151 117 smit:SMT_134|3end_LysM_domain_protein_86157..86307_POSITIVE 211 84 47 57 21 smit:SMT_1954|3end_6-phospho-beta-glucosidase_1888831..1888981_POSITIVE 211 96 61 75 39 smit:SMT_1385|3end_phosphocarrier_protein_HPr_1362871..1363021_POSITIVE 209 110 61 134 97 smit:SMT_196|3end_30S_ribosomal_protein_S11_127723..127873_POSITIVE 207 87 47 142 99 smit:SMT_865|3end_50S_ribosomal_protein_L1_815022..815172_NEGATIVE 207 92 54 135 89 smit:SMT_334|3end_K03713_MerR_family_transcriptional_regulator,_glutamine_synthetase_repressor_273796..273946_POSITIVE 203 96 53 127 84 smit:SMT_1448|3end_serine_hydroxymethyltransferase_1430703..1430853_NEGATIVE 200 84 47 63 21 smit:SMT_799|3end_hypothetical_protein_707296..707446_NEGATIVE 198 98 54 55 13 smit:SMT_1484|3end_exonuclease_RexA_1464256..1464406_NEGATIVE