Origin IGS: ttcacttgcttcacggtcttgtccagcaactgtaggcgcaggatttgtcgcaggtttaaccgcatcttctgtttgtttcttagattctggttttgcttgtacttcttcttttggtgcaactacttggtct .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 agaccaagtagttgcaccaaaagaagaagtacaagcaaaaccagaatctaagaaacaaacagaagatgcggttaaacctgcgacaaatcctgcgcctacagttgctggacaagaccgtgaagcaagtgaa Mask Tandem Repeat Region ================================================ ttcacttgcttcacggtcttgtccagcaactgtaggcgcaggatttgtcgcaggtttaaccgcatcttctgtttgtttcttagattctggttttgcttgtacttcttcttttggtgcaactacttggtct Find is-nt database================================================ Query_seq: SMT_1664:SMT_1665|SMT_1664:SMT_1665:hypothetical protein:cell wall surface anchor family protein:<-<-:1655981..1656110 130 ttcacttgcttcacggtcttgtccagcaactgtaggcgcaggatttgtcgcaggtttaaccgcatcttctgtttgtttcttagattctggttttgcttgtacttcttcttttggtgcaactacttggtct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1664:SMT_1665|SMT_1664:SMT_1665:hypothetical protein:cell wall surface anchor family protein:<-<-:1655981..1656110 130 ttcacttgcttcacggtcttgtccagcaactgtaggcgcaggatttgtcgcaggtttaaccgcatcttctgtttgtttcttagattctggttttgcttgtacttcttcttttggtgcaactacttggtct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1664:SMT_1665|SMT_1664:SMT_1665:hypothetical protein:cell wall surface anchor family protein:<-<-:1655981..1656110 130 ttcacttgcttcacggtcttgtccagcaactgtaggcgcaggatttgtcgcaggtttaaccgcatcttctgtttgtttcttagattctggttttgcttgtacttcttcttttggtgcaactacttggtct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttcacttgcttcacggtcttgtccagcaactgtaggcgcaggatttgtcgcaggtttaaccgcatcttctgtttgtttcttagattctggttttgcttgtacttcttcttttggtgcaactacttggtct Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: + Start: 19 End: 129 .................. M S S N C R R R I C R R F N R I F C L F L R F W F C L Y F F F W C N Y L V . Protein_Len: 39 Strand: - Start: 3 End: 119 .. V Q K V T K D L L Q L R L I Q R L N L R M K Q K N R L N Q N Q K Y K K K Q H M ........... ttcacttgcttcacggtcttgtccagcaactgtaggcgcaggatttgtcgcaggtttaaccgcatcttctgtttgtttcttagattctggttttgcttgtacttcttcttttggtgcaactacttggtct 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================================================ ttcacttgcttcacggtcttgtccagcaactgtaggcgcaggatttgtcgcaggtttaaccgcatcttctgtttgtttcttagattctggttttgcttgtacttcttcttttggtgcaactacttggtct Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_1664:SMT_1665|SMT_1664:SMT_1665:hypothetical protein:cell wall surface anchor family protein:<-<-:1655981..1656110 130 ttcacttgcttcacggtcttgtccagcaactgtaggcgcaggatttgtcgcaggtttaaccgcatcttctgtttgtttcttagattctggttttgcttgtacttcttcttttggtgcaactacttggtct Intra-Species Hit: Count: 1 Min: 1 Max: 130 Len: 130 Subject: smit_SMT_1664_SMT_1665|hypothetical protein:cell wall surface anchor family protein|NEGATIVE:NEGATIVE|[1655981,1656110]|130 HSP 1 e-value: 4.0E-68 bit: 258.0 Len: 130 Query Start:1 Query End:130 Subject Strand: POSITIVE Subject Start: 1 Subject End: 130 ttcacttgcttcacggtcttgtccagcaactgtaggcgcaggatttgtcgcaggtttaaccgcatcttctgtttgtttcttagattctggttttgcttgtacttcttcttttggtgcaactacttggtct ttcacttgcttcacggtcttgtccagcaactgtaggcgcaggatttgtcgcaggtttaaccgcatcttctgtttgtttcttagattctggttttgcttgtacttcttcttttggtgcaactacttggtct Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUCACUUGCUUCACGGUCUUGUCCAGCAACUGUAGGCGCAGGAUUUGUCGCAGGUUUAACCGCAUCUUCUGUUUGUUUCUUAGAUUCUGGUUUUGCUUGUACUUCUUCUUUUGGUGCAACUACUUGGUCU ...((((((..((.((((((((((.((....)).)).))))))))))..))))))...((((((.((...(((((.....)))))...))...))).((((((.........)))))).......))).. (-29.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGACCAAGUAGUUGCACCAAAAGAAGAAGUACAAGCAAAACCAGAAUCUAAGAAACAAACAGAAGAUGCGGUUAAACCUGCGACAAAUCCUGCGCCUACAGUUGCUGGACAAGACCGUGAAGCAAGUGAA ..........((((((............((....))..((((...((((..............))))..)))).....))))))..............((.(((((..((......))..))))).)).. (-21.14) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1014 70 21 161 112 smit:SMT_1664|5end_hypothetical_protein_1655890..1656120_NEGATIVE 397 70 21 213 159 smit:SMT_949|5end_glycosyl_transferase,_family_2_897693..897923_NEGATIVE 360 97 53 74 30 smit:SMT_1939|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1876278..1876508_POSITIVE 358 55 14 42 1 smit:SMT_1822|5end_hypothetical_protein_1794452..1794682_POSITIVE 351 75 31 101 59 smit:SMT_438|5end_hypothetical_protein_predicted_by_Glimmer/Critica_379136..379366_POSITIVE 347 99 52 157 110 smit:SMT_1940|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1876589..1876819_POSITIVE 324 61 23 154 121 smit:SMT_489|5end_K01999_branched-chain_amino_acid_transport_system_substrate-binding_protein_423669..423899_POSITIVE 322 66 24 70 31 smit:SMT_563|5end_thioredoxin_reductase_480988..481218_POSITIVE 313 69 21 223 160 smit:SMT_1534|5end_signal_peptidase_I_1517218..1517448_POSITIVE 310 50 1 189 120 smit:SMT_653|5end_positive_transcriptional_regulator_MutR_family_564155..564385_NEGATIVE 305 80 35 65 8 smit:SMT_1726|5end_tRNA_pseudouridine_synthase_B_1711495..1711725_POSITIVE 303 97 61 77 41 smit:SMT_2059|5end_hypothetical_protein_1967881..1968111_POSITIVE 303 97 61 77 41 smit:SMT_2056|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1966323..1966553_POSITIVE 303 97 61 77 41 smit:SMT_1892|5end_hypothetical_protein_1845595..1845825_POSITIVE 302 58 14 160 116 smit:SMT_1966|5end_DNA_polymerase_III_alpha_subunit_1897934..1898164_POSITIVE 300 49 3 186 143 smit:SMT_755|5end_shikimate_5-dehydrogenase_659917..660147_NEGATIVE 295 67 22 142 97 smit:SMT_1914|5end_K03696_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpC_1859486..1859716_POSITIVE 295 58 15 213 167 smit:SMT_824|5end_asparaginyl-tRNA_synthetase_748393..748623_NEGATIVE 294 126 83 209 154 smit:SMT_2153|5end_putative_cell_division_protein_2026905..2027135_POSITIVE 294 126 83 209 154 smit:SMT_2139|5end_cell_division_protein_FtsZ_2017083..2017313_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 360 67 23 151 102 smit:SMT_1909|3end_zinc_metalloprotease_ZmpB,_truncated_1855295..1855445_NEGATIVE 294 42 1 74 26 smit:SMT_986|3end_threonyl-tRNA_synthetase_931684..931834_POSITIVE 291 50 1 105 38 smit:SMT_1786|3end_phenylalanyl-tRNA_synthetase_beta_chain_1763235..1763385_NEGATIVE 288 68 22 143 98 smit:SMT_1474|3end_K02003_1455951..1456101_POSITIVE 287 118 71 142 84 smit:SMT_660|3end_two-component_sensor_histidine_kinase_570538..570688_NEGATIVE 286 42 5 150 117 smit:SMT_889|3end_K02029_polar_amino_acid_transport_system_permease_protein_837023..837173_POSITIVE 283 130 99 34 6 smit:SMT_1480|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1462266..1462416_POSITIVE 281 67 22 50 4 smit:SMT_1630|3end_hypothetical_protein_1618141..1618291_POSITIVE 281 57 17 133 89 smit:SMT_1503|3end_SSU_ribosomal_protein_S20P_1487231..1487381_POSITIVE 281 67 22 81 35 smit:SMT_955|3end_acyltransferase_family_protein_904703..904853_POSITIVE 281 42 1 134 97 smit:SMT_810|3end_oxidoreductase_721108..721258_POSITIVE 280 49 1 73 17 smit:SMT_492|3end_branched-chain_amino_acid_ABC_transporter,_ATP-binding_protein_427217..427367_POSITIVE 277 57 13 145 108 smit:SMT_1558|3end_hypothetical_protein_1543855..1544005_NEGATIVE 273 70 21 78 33 smit:SMT_413|3end_tRNA_delta(2)-isopentenylpyrophosphate_transferase_357641..357791_POSITIVE 271 130 93 145 111 smit:SMT_1529|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1512776..1512926_NEGATIVE 270 60 12 111 68 smit:SMT_942|3end_hypothetical_protein_893528..893678_NEGATIVE 270 57 15 148 98 smit:SMT_315|3end_acetyl-coenzyme_A_carboxylase_carboxyl_transferase_subunit_beta_256627..256777_POSITIVE 270 58 12 74 20 smit:SMT_197|3end_DNA-directed_RNA_polymerase,_alpha_subunit_128467..128617_POSITIVE 268 82 41 52 15 smit:SMT_1947|3end_lysine_decarboxylase_1882313..1882463_NEGATIVE 268 53 13 68 31 smit:SMT_1902|3end_proton-translocating_NADH-quinone_oxidoreductase,_chain_L_1852028..1852178_NEGATIVE