Origin IGS: ccataaattacaataggggcaaaaatattcatcataatcgtccaaataacattgattagcaccacatgtcttacatatagaatcttcatcaataaaaccctcaagtttaacaccattaacatacagagcgtaatcatcctctggttcataaacagttgtctcaacggaatgtgg .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ccacattccgttgagacaactgtttatgaaccagaggatgattacgctctgtatgttaatggtgttaaacttgagggttttattgatgaagattctatatgtaagacatgtggtgctaatcaatgttatttggacgattatgatgaatatttttgcccctattgtaatttatgg Mask Tandem Repeat Region ================================================ ccataaattacaataggggcaaaaatattcatcataatcgtccaaataacattgattagcaccacatgtcttacatatagaatcttcatcaataaaaccctcaagtttaacaccattaacatacagagcgtaatcatcctctggttcataaacagttgtctcaacggaatgtgg Find is-nt database================================================ Query_seq: SMT_1440:SMT_1441|SMT_1440:SMT_1441:hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica:<-<-:1424803..1424976 174 ccataaattacaataggggcaaaaatattcatcataatcgtccaaataacattgattagcaccacatgtcttacatatagaatcttcatcaataaaaccctcaagtttaacaccattaacatacagagcgtaatcatcctctggttcataaacagttgtctcaacggaatgtgg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1440:SMT_1441|SMT_1440:SMT_1441:hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica:<-<-:1424803..1424976 174 ccataaattacaataggggcaaaaatattcatcataatcgtccaaataacattgattagcaccacatgtcttacatatagaatcttcatcaataaaaccctcaagtttaacaccattaacatacagagcgtaatcatcctctggttcataaacagttgtctcaacggaatgtgg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1440:SMT_1441|SMT_1440:SMT_1441:hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica:<-<-:1424803..1424976 174 ccataaattacaataggggcaaaaatattcatcataatcgtccaaataacattgattagcaccacatgtcttacatatagaatcttcatcaataaaaccctcaagtttaacaccattaacatacagagcgtaatcatcctctggttcataaacagttgtctcaacggaatgtgg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ccataaattacaataggggcaaaaatattcatcataatcgtccaaataacattgattagcaccacatgtcttacatatagaatcttcatcaataaaaccctcaagtttaacaccattaacatacagagcgtaatcatcctctggttcataaacagttgtctcaacggaatgtgg Predict ORF larger than 30AA ================================================ Protein_Len: 56 Strand: + Start: 7 End: 174 ...... M T I G A K I F I I I V Q I T L I S T T C L T Y R I F I N K T L K F N T I N I Q S V I I L W F I N S C L N G M W Protein_Len: 56 Strand: - Start: 3 End: 170 .. Y I V I P A F I N M M I T W I V N I L V V H R V Y L I K M L L V R L N L V M L M C L T I M R Q N M F L Q R L P M .... Protein_Len: 42 Strand: - Start: 1 End: 126 W L N C Y P C F Y E D Y D D L Y C Q N A G C T K C I S D E D I F G E L K V G N V Y M ................................................ ccataaattacaataggggcaaaaatattcatcataatcgtccaaataacattgattagcaccacatgtcttacatatagaatcttcatcaataaaaccctcaagtttaacaccattaacatacagagcgtaatcatcctctggttcataaacagttgtctcaacggaatgtgg 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================================================ ccataaattacaataggggcaaaaatattcatcataatcgtccaaataacattgattagcaccacatgtcttacatatagaatcttcatcaataaaaccctcaagtttaacaccattaacatacagagcgtaatcatcctctggttcataaacagttgtctcaacggaatgtgg Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_1440:SMT_1441|SMT_1440:SMT_1441:hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica:<-<-:1424803..1424976 174 ccataaattacaataggggcaaaaatattcatcataatcgtccaaataacattgattagcaccacatgtcttacatatagaatcttcatcaataaaaccctcaagtttaacaccattaacatacagagcgtaatcatcctctggttcataaacagttgtctcaacggaatgtgg Intra-Species Hit: Count: 1 Min: 1 Max: 174 Len: 174 Subject: smit_SMT_1440_SMT_1441|hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica|NEGATIVE:NEGATIVE|[1424803,1424976]|174 HSP 1 e-value: 3.0E-94 bit: 345.0 Len: 174 Query Start:1 Query End:174 Subject Strand: POSITIVE Subject Start: 1 Subject End: 174 ccataaattacaataggggcaaaaatattcatcataatcgtccaaataacattgattagcaccacatgtcttacatatagaatcttcatcaataaaaccctcaagtttaacaccattaacatacagagcgtaatcatcctctggttcataaacagttgtctcaacggaatgtgg ccataaattacaataggggcaaaaatattcatcataatcgtccaaataacattgattagcaccacatgtcttacatatagaatcttcatcaataaaaccctcaagtttaacaccattaacatacagagcgtaatcatcctctggttcataaacagttgtctcaacggaatgtgg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CCAUAAAUUACAAUAGGGGCAAAAAUAUUCAUCAUAAUCGUCCAAAUAACAUUGAUUAGCACCACAUGUCUUACAUAUAGAAUCUUCAUCAAUAAAACCCUCAAGUUUAACACCAUUAACAUACAGAGCGUAAUCAUCCUCUGGUUCAUAAACAGUUGUCUCAACGGAAUGUGG (((((.........((((................((((((............)))))).......(((.....))).....................))))...........((.........(((((.(.......))))))...........((((...))))))..))))) (-18.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CCACAUUCCGUUGAGACAACUGUUUAUGAACCAGAGGAUGAUUACGCUCUGUAUGUUAAUGGUGUUAAACUUGAGGGUUUUAUUGAUGAAGAUUCUAUAUGUAAGACAUGUGGUGCUAAUCAAUGUUAUUUGGACGAUUAUGAUGAAUAUUUUUGCCCCUAUUGUAAUUUAUGG (((....((.(..((...((((((.......(((((..........)))))......))))))......))..).))...(((((((..((...(((((((.....)))))))..)).))))))).....)))..(((((..(((..............)))..)))))..... (-30.96) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 810 140 91 231 182 smit:SMT_1440|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1424712..1424942_NEGATIVE 277 168 122 154 104 smit:SMT_1125|5end_K08987_putative_membrane_protein_1061145..1061375_NEGATIVE 235 170 123 166 131 smit:SMT_233|5end_hypothetical_protein_172656..172886_POSITIVE 233 167 121 66 15 smit:SMT_1796|5end_dihydroorotate_dehydrogenase_A_1770816..1771046_NEGATIVE 231 147 113 213 182 smit:SMT_1162|5end_ATP-dependent_DNA_helicase_1108895..1109125_NEGATIVE 229 147 103 206 155 smit:SMT_1609|5end_hypothetical_protein_1598113..1598343_POSITIVE 228 160 113 218 172 smit:SMT_1719|5end_DNA_mismatch_repair_protein_1706842..1707072_NEGATIVE 227 103 61 194 150 smit:SMT_1735|5end_K03596_GTP-binding_protein_LepA_1719365..1719595_POSITIVE 227 144 101 205 165 smit:SMT_857|5end_endo-beta-N-acetylglucosaminidase_802491..802721_NEGATIVE 222 87 49 67 21 smit:SMT_402|5end_two-component_response_regulator_YesN_330846..331076_POSITIVE 221 160 112 89 31 smit:SMT_2029|5end_acetyltransferase,_GNAT_family_1943749..1943979_POSITIVE 221 160 112 89 31 smit:SMT_1755|5end_acetyltransferase,_GNAT_family_1733042..1733272_POSITIVE 221 167 126 219 160 smit:SMT_1013|5end_galactose-1-phosphate_uridylyltransferase_950626..950856_NEGATIVE 220 95 58 72 26 smit:SMT_824|5end_asparaginyl-tRNA_synthetase_748393..748623_NEGATIVE 219 166 125 47 6 smit:SMT_748|5end_prephenate_dehydratase_653498..653728_NEGATIVE 219 130 86 226 169 smit:SMT_420|5end_hypothetical_protein_predicted_by_Glimmer/Critica_362795..363025_POSITIVE 218 155 113 56 21 smit:SMT_595|5end_phosphoglycerate_mutase_512593..512823_NEGATIVE 217 167 129 163 120 smit:SMT_1739|5end_hypothetical_protein_1721263..1721493_POSITIVE 217 75 32 144 88 smit:SMT_152|5end_sensor_histidine_kinase,_putative_100759..100989_POSITIVE 216 167 125 62 28 smit:SMT_652|5end_transporter,_putative_563215..563445_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 277 168 122 142 92 smit:SMT_1126|3end_K08987_putative_membrane_protein_1061157..1061307_NEGATIVE 235 170 123 147 112 smit:SMT_232|3end_DNA_polymerase_III,_alpha_subunit,_Gram-positive_type_172717..172867_POSITIVE 229 147 111 66 30 smit:SMT_2089|3end_dTDP-4-dehydrorhamnose_3,5-epimerase_related_enzyme_1985270..1985420_POSITIVE 227 103 61 115 71 smit:SMT_1734|3end_serine/threonine_protein_phosphatase_1719366..1719516_POSITIVE 224 85 50 121 92 smit:SMT_1394|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1371157..1371307_POSITIVE 222 167 121 149 105 smit:SMT_1307|3end_glycerol_uptake_facilitator_protein_1272448..1272598_POSITIVE 220 95 58 49 3 smit:SMT_825|3end_aspartate_aminotransferase_748416..748566_NEGATIVE 219 166 125 50 9 smit:SMT_749|3end_shikimate_kinase_653495..653645_NEGATIVE 218 155 113 59 24 smit:SMT_596|3end_K03976_putative_transcription_regulator_512590..512740_NEGATIVE 215 160 116 113 66 smit:SMT_1398|3end_dihydroorotase_1374552..1374702_POSITIVE 215 170 125 77 40 smit:SMT_198|3end_50S_ribosomal_protein_L17_129281..129431_POSITIVE 205 156 115 45 7 smit:SMT_862|3end_hypothetical_protein_predicted_by_Glimmer/Critica_809191..809341_POSITIVE 204 167 123 68 14 smit:SMT_2094|3end_serine_protease_1989243..1989393_NEGATIVE 203 168 137 38 1 smit:SMT_1475|3end_K02004_1458661..1458811_POSITIVE 202 166 125 61 17 smit:SMT_993|3end_hypothetical_protein_934883..935033_NEGATIVE 201 66 28 146 116 smit:SMT_775|3end_alpha-acetolactate_decarboxylase_685241..685391_NEGATIVE 201 161 125 59 25 smit:SMT_209|3end_acetyltransferase,_GNAT_family_143448..143598_POSITIVE 200 150 102 95 51 smit:SMT_2081|3end_glycosyltransferase_1981336..1981486_POSITIVE 200 165 137 136 102 smit:SMT_1583|3end_polysaccharide_transporter,_PST_family_1574609..1574759_POSITIVE 200 115 78 113 82 smit:SMT_1538|3end_two-component_response_regulator_YvqC_1522669..1522819_NEGATIVE