Origin IGS: tgtgtctccttttagtcagtctgtgaaataacatttctctagaataacggcaaaaagccaaattatcctttacagtctttctatctagtgtaacaaaaaagcagtaatttt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaaattactgcttttttgttacactagatagaaagactgtaaaggataatttggctttttgccgttattctagagaaatgttatttcacagactgactaaaaggagacaca Mask Tandem Repeat Region ================================================ tgtgtctccttttagtcagtctgtgaaataacatttctctagaataacggcaaaaagccaaattatcctttacagtctttctatctagtgtaacaaaaaagcagtaatttt Find is-nt database================================================ Query_seq: SMT_926:SMT_927|SMT_926:SMT_927:guanylate kinase:KH domain protein:<-<-:881025..881135 111 tgtgtctccttttagtcagtctgtgaaataacatttctctagaataacggcaaaaagccaaattatcctttacagtctttctatctagtgtaacaaaaaagcagtaatttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_926:SMT_927|SMT_926:SMT_927:guanylate kinase:KH domain protein:<-<-:881025..881135 111 tgtgtctccttttagtcagtctgtgaaataacatttctctagaataacggcaaaaagccaaattatcctttacagtctttctatctagtgtaacaaaaaagcagtaatttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_926:SMT_927|SMT_926:SMT_927:guanylate kinase:KH domain protein:<-<-:881025..881135 111 tgtgtctccttttagtcagtctgtgaaataacatttctctagaataacggcaaaaagccaaattatcctttacagtctttctatctagtgtaacaaaaaagcagtaatttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgtgtctccttttagtcagtctgtgaaataacatttctctagaataacggcaaaaagccaaattatcctttacagtctttctatctagtgtaacaaaaaagcagtaatttt Predict ORF larger than 30AA ================================================ tgtgtctccttttagtcagtctgtgaaataacatttctctagaataacggcaaaaagccaaattatcctttacagtctttctatctagtgtaacaaaaaagcagtaatttt 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================================================ tgtgtctccttttagtcagtctgtgaaataacatttctctagaataacggcaaaaagccaaattatcctttacagtctttctatctagtgtaacaaaaaagcagtaatttt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_926:SMT_927|SMT_926:SMT_927:guanylate kinase:KH domain protein:<-<-:881025..881135 111 tgtgtctccttttagtcagtctgtgaaataacatttctctagaataacggcaaaaagccaaattatcctttacagtctttctatctagtgtaacaaaaaagcagtaatttt Intra-Species Hit: Count: 1 Min: 1 Max: 111 Len: 111 Subject: smit_SMT_926_SMT_927|guanylate kinase:KH domain protein|NEGATIVE:NEGATIVE|[881025,881135]|111 HSP 1 e-value: 7.0E-57 bit: 220.0 Len: 111 Query Start:1 Query End:111 Subject Strand: POSITIVE Subject Start: 1 Subject End: 111 tgtgtctccttttagtcagtctgtgaaataacatttctctagaataacggcaaaaagccaaattatcctttacagtctttctatctagtgtaacaaaaaagcagtaatttt tgtgtctccttttagtcagtctgtgaaataacatttctctagaataacggcaaaaagccaaattatcctttacagtctttctatctagtgtaacaaaaaagcagtaatttt Inter-species Hit: Count: 3 Min: 1 Max: 111 Len: 111 Subject: NC_008533_SPD_1548_SPD_1549|guanylate kinase:KH domain protein|NEGATIVE:NEGATIVE|[1572048,1572176]|129 HSP 1 e-value: 1.0E-49 bit: 196.0 Len: 111 Query Start:1 Query End:111 Subject Strand: POSITIVE Subject Start: 1 Subject End: 111 tgtgtctccttttagtcagtctgtgaaataacatttctctagaataacggcaaaaagccaaattatcctttacagtctttctatctagtgtaacaaaaaagcagtaatttt tgtgtctccttttagtcaatctgtgaaataacatttctctagaataatggcaaaaagccagattatcctttacagtctttctatctagtgtaacaaaaaagcagtaatttt Subject: NC_003098_spr1583_spr1584|guanylate kinase:hypothetical protein|NEGATIVE:NEGATIVE|[1564517,1564645]|129 HSP 1 e-value: 1.0E-49 bit: 196.0 Len: 111 Query Start:1 Query End:111 Subject Strand: POSITIVE Subject Start: 1 Subject End: 111 tgtgtctccttttagtcagtctgtgaaataacatttctctagaataacggcaaaaagccaaattatcctttacagtctttctatctagtgtaacaaaaaagcagtaatttt tgtgtctccttttagtcaatctgtgaaataacatttctctagaataatggcaaaaagccagattatcctttacagtctttctatctagtgtaacaaaaaagcagtaatttt Subject: NC_003028_SP_1738_SP_1739|guanylate kinase:hypothetical protein|NEGATIVE:NEGATIVE|[1643112,1643240]|129 HSP 1 e-value: 1.0E-49 bit: 196.0 Len: 111 Query Start:1 Query End:111 Subject Strand: POSITIVE Subject Start: 1 Subject End: 111 tgtgtctccttttagtcagtctgtgaaataacatttctctagaataacggcaaaaagccaaattatcctttacagtctttctatctagtgtaacaaaaaagcagtaatttt tgtgtctccttttagtcaatctgtgaaataacatttctctagaataatggcaaaaagccagattatcctttacagtctttctatctagtgtaacaaaaaagcagtaatttt Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUGUCUCCUUUUAGUCAGUCUGUGAAAUAACAUUUCUCUAGAAUAACGGCAAAAAGCCAAAUUAUCCUUUACAGUCUUUCUAUCUAGUGUAACAAAAAAGCAGUAAUUUU ..(((..(((..(((..((.(((((((.......(((....)))....(((.....))).........))))))).))..)))...)).)..)))................ (-18.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAUUACUGCUUUUUUGUUACACUAGAUAGAAAGACUGUAAAGGAUAAUUUGGCUUUUUGCCGUUAUUCUAGAGAAAUGUUAUUUCACAGACUGACUAAAAGGAGACACA .......((.(((((..((((..((....)).....((((..((((((((..(((.....)))))))))))...(((((...)))))))))..)))).))))).))..... (-18.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 825 50 1 141 92 smit:SMT_926|5end_guanylate_kinase_880934..881164_NEGATIVE 285 70 21 95 32 smit:SMT_140|5end_NUDIX_family_hydrolase_90990..91220_POSITIVE 253 46 5 47 9 smit:SMT_1022|5end_glycine_betaine_transport_ATP-binding_protein_958720..958950_NEGATIVE 253 50 9 115 67 smit:SMT_554|5end_K09013_Fe-S_cluster_assembly_ATP-binding_protein_471425..471655_POSITIVE 238 89 51 108 65 smit:SMT_1606|5end_glutamate_racemase_1595857..1596087_POSITIVE 229 59 11 139 83 smit:SMT_1912|5end_D-alanyl-D-alanine_carboxypeptidase_1857920..1858150_NEGATIVE 226 40 4 39 3 smit:SMT_1514|5end_methylenetetrahydrofolate_dehydrogenase_(NADP+)_/_methenyltetrahydrofolate_cyclohydrolase_1496640..1496870_NEGATIVE 225 40 1 130 91 smit:SMT_837|5end_cation_transport_ATPase_782667..782897_NEGATIVE 224 43 1 72 29 smit:SMT_1584|5end_methyltransferase,_putative_1574713..1574943_POSITIVE 223 49 3 76 29 smit:SMT_1106|5end_ribonuclease_P_protein_component_1047972..1048202_NEGATIVE 223 47 5 81 28 smit:SMT_348|5end_K07707_two-component_system,_AgrA_family,_response_regulator_AgrA_286456..286686_POSITIVE 222 82 46 86 48 smit:SMT_1350|5end_multidrug_resistance_efflux_pump_1329225..1329455_NEGATIVE 221 59 18 118 75 smit:SMT_2096|5end_ATP-dependent_exonuclease_RexB_1990380..1990610_NEGATIVE 219 95 56 53 14 smit:SMT_2122|5end_cell_surface_protein_precursor_2008116..2008346_NEGATIVE 218 59 18 213 163 smit:SMT_1727|5end_uridine_kinase_1712483..1712713_POSITIVE 214 45 5 112 67 smit:SMT_1319|5end_muscus_binding_protein_1284864..1285094_POSITIVE 214 60 11 192 142 smit:SMT_1234|5end_cadmium_efflux_system_accessory_protein_1194932..1195162_POSITIVE 212 60 14 217 176 smit:SMT_454|5end_hypothetical_protein_391289..391519_POSITIVE 211 59 14 56 22 smit:SMT_2020|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1937595..1937825_POSITIVE 211 59 14 56 22 smit:SMT_1317|5end_glycosyltransferase_1281921..1282151_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 285 70 21 83 20 smit:SMT_139|3end_hypothetical_protein_91058..91208_POSITIVE 223 49 3 59 12 smit:SMT_1107|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1047989..1048139_NEGATIVE 222 82 46 99 61 smit:SMT_1351|3end_dephospho-CoA_kinase_1329212..1329362_NEGATIVE 218 59 18 103 53 smit:SMT_1726|3end_tRNA_pseudouridine_synthase_B_1712453..1712603_POSITIVE 209 46 3 81 49 smit:SMT_1230|3end_hypothetical_protein_1192342..1192492_POSITIVE 208 99 58 119 76 smit:SMT_2076|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1978482..1978632_NEGATIVE 207 59 19 63 13 smit:SMT_1048|3end_K06518_holin-like_protein_988521..988671_POSITIVE 205 46 18 32 5 smit:SMT_1023|3end_hypothetical_protein_958735..958885_NEGATIVE 205 41 4 127 78 smit:SMT_162|3end_hypothetical_protein_107134..107284_POSITIVE 201 68 34 60 32 smit:SMT_836|3end_cell_surface_protein_precursor_777664..777814_NEGATIVE 199 91 52 91 49 smit:SMT_335|3end_glutamine_synthetase_275179..275329_POSITIVE 198 81 51 110 79 smit:SMT_1388|3end_hypothetical_protein_1365833..1365983_POSITIVE 195 38 3 117 77 smit:SMT_2102|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1993982..1994132_NEGATIVE 195 59 35 120 94 smit:SMT_603|3end_hypothetical_protein_518532..518682_POSITIVE 195 45 5 82 41 smit:SMT_84|3end_predicted_signal_transduction_protein_with_a_C-terminal_ATPase_domain_15292..15442_NEGATIVE 191 74 37 79 40 smit:SMT_1494|3end_nucleoside_diphosphate_kinase_1480221..1480371_POSITIVE 190 58 12 104 46 smit:SMT_2112|3end_transcription-repair_coupling_factor_2000373..2000523_NEGATIVE 190 45 7 129 86 smit:SMT_1596|3end_oligopeptide_transport_ATP-binding_protein_OppD_1587050..1587200_POSITIVE 189 50 5 130 83 smit:SMT_413|3end_tRNA_delta(2)-isopentenylpyrophosphate_transferase_357641..357791_POSITIVE 188 42 10 73 45 smit:SMT_1531|3end_hypothetical_protein_1515449..1515599_NEGATIVE