Origin IGS: gcttccatccttttcactgatagtactattttatcaaaaaactcaaaaaaagactggtttggaatagcttacagaatagaaaaaaatctgtaagaggcatcctacagatttttatatgattattctatttc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gaaatagaataatcatataaaaatctgtaggatgcctcttacagatttttttctattctgtaagctattccaaaccagtctttttttgagttttttgataaaatagtactatcagtgaaaaggatggaagc Mask Tandem Repeat Region ================================================ gcttccatccttttcactgatagtactattttatcaaaaaactcaaaaaaagactggtttggaatagcttacagaatagaaaaaaatctgtaagaggcatcctacagatttttatatgattattctatttc Find is-nt database================================================ Query_seq: SMT_855:SMT_856|SMT_855:SMT_856:dihydrofolate reductase:peroxide resistance protein,non-heme iron-containing ferritin:<-<-:800089..800219 131 gcttccatccttttcactgatagtactattttatcaaaaaactcaaaaaaagactggtttggaatagcttacagaatagaaaaaaatctgtaagaggcatcctacagatttttatatgattattctatttc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_855:SMT_856|SMT_855:SMT_856:dihydrofolate reductase:peroxide resistance protein,non-heme iron-containing ferritin:<-<-:800089..800219 131 gcttccatccttttcactgatagtactattttatcaaaaaactcaaaaaaagactggtttggaatagcttacagaatagaaaaaaatctgtaagaggcatcctacagatttttatatgattattctatttc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_855:SMT_856|SMT_855:SMT_856:dihydrofolate reductase:peroxide resistance protein,non-heme iron-containing ferritin:<-<-:800089..800219 131 gcttccatccttttcactgatagtactattttatcaaaaaactcaaaaaaagactggtttggaatagcttacagaatagaaaaaaatctgtaagaggcatcctacagatttttatatgattattctatttc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gcttccatccttttcactgatagtactattttatcaaaaaactcaaaaaaagactggtttggaatagcttacagaatagaaaaaaatctgtaagaggcatcctacagatttttatatgattattctatttc Predict ORF larger than 30AA ================================================ gcttccatccttttcactgatagtactattttatcaaaaaactcaaaaaaagactggtttggaatagcttacagaatagaaaaaaatctgtaagaggcatcctacagatttttatatgattattctatttc 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================================================ gcttccatccttttcactgatagtactattttatcaaaaaactcaaaaaaagactggtttggaatagcttacagaatagaaaaaaatctgtaagaggcatcctacagatttttatatgattattctatttc Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 80 HP_score: -5.9 Tail_Score: -5.05079 Start: 87 End: 108 Full_Region: CAGAATAGAAAAAAA TCTGTAAGA GGCA TCCTACAGA TTTTTATATGATTAT ......................................................................................TCTGTAAGAGGCATCCTACAGA....................... Find igs database================================================ Query_seq: SMT_855:SMT_856|SMT_855:SMT_856:dihydrofolate reductase:peroxide resistance protein,non-heme iron-containing ferritin:<-<-:800089..800219 131 gcttccatccttttcactgatagtactattttatcaaaaaactcaaaaaaagactggtttggaatagcttacagaatagaaaaaaatctgtaagaggcatcctacagatttttatatgattattctatttc Intra-Species Hit: Count: 1 Min: 1 Max: 131 Len: 131 Subject: smit_SMT_855_SMT_856|dihydrofolate reductase:peroxide resistance protein,non-heme iron-containing ferritin|NEGATIVE:NEGATIVE|[800089,800219]|131 HSP 1 e-value: 9.0E-26 bit: 117.0 Len: 80 Query Start:52 Query End:131 Subject Strand: POSITIVE Subject Start: 52 Subject End: 131 ...................................................gactggtttggaatagcttacagaatagnnnnnnntctgtaagaggcatcctacagatttttatatgattattctatttc ...................................................gactggtttggaatagcttacagaatagaaaaaaatctgtaagaggcatcctacagatttttatatgattattctatttc HSP 2 e-value: 2.0E-11 bit: 69.9 Len: 35 Query Start:1 Query End:35 Subject Strand: POSITIVE Subject Start: 1 Subject End: 35 gcttccatccttttcactgatagtactattttatc................................................................................................ gcttccatccttttcactgatagtactattttatc................................................................................................ Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCUUCCAUCCUUUUCACUGAUAGUACUAUUUUAUCAAAAAACUCAAAAAAAGACUGGUUUGGAAUAGCUUACAGAAUAGAAAAAAAUCUGUAAGAGGCAUCCUACAGAUUUUUAUAUGAUUAUUCUAUUUC (((((((.((.......((((((.......))))))......((.......))..))..))))..))).....(((((((((((((((((((.((....)).))))))))))).........)))))))). (-25.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAAAUAGAAUAAUCAUAUAAAAAUCUGUAGGAUGCCUCUUACAGAUUUUUUUCUAUUCUGUAAGCUAUUCCAAACCAGUCUUUUUUUGAGUUUUUUGAUAAAAUAGUACUAUCAGUGAAAAGGAUGGAAGC ...((((((((.......((((((((((((((....))))))))))))))...)))))))).............(((.((((((((........((((((.........)))))).))))))))))).... (-29.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 815 100 51 191 142 smit:SMT_855|5end_dihydrofolate_reductase_799998..800228_NEGATIVE 226 94 54 75 28 smit:SMT_1542|5end_phosphomevalonate_kinase_1527084..1527314_NEGATIVE 222 72 37 222 190 smit:SMT_694|5end_putative_ATP-binding_component_of_a_transport_system_604362..604592_POSITIVE 220 89 43 180 129 smit:SMT_1422|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1407467..1407697_NEGATIVE 214 106 72 92 47 smit:SMT_384|5end_hypothetical_protein_319406..319636_POSITIVE 208 130 83 199 146 smit:SMT_2141|5end_hypothetical_protein_2019976..2020206_NEGATIVE 207 130 83 199 146 smit:SMT_870|5end_hypothetical_protein_818737..818967_NEGATIVE 207 98 54 167 127 smit:SMT_625|5end_50S_ribosomal_protein_L27_530027..530257_POSITIVE 207 46 2 143 98 smit:SMT_399|5end_cytochrome_c-type_biogenesis_protein_CcdA_328366..328596_POSITIVE 205 116 78 117 73 smit:SMT_1125|5end_K08987_putative_membrane_protein_1061145..1061375_NEGATIVE 205 44 2 100 48 smit:SMT_520|5end_glutathione_reductase_445285..445515_NEGATIVE 204 45 4 99 51 smit:SMT_1259|5end_hypothetical_protein_1225139..1225369_POSITIVE 203 35 1 211 173 smit:SMT_629|5end_glycogen_synthase_533967..534197_POSITIVE 202 50 1 146 92 smit:SMT_919|5end_hypothetical_protein_872499..872729_NEGATIVE 202 98 51 182 135 smit:SMT_701|5end_hypothetical_protein_611855..612085_NEGATIVE 200 99 51 118 67 smit:SMT_762|5end_cation-transporting_ATPase,_E1-E2_family_protein_667691..667921_NEGATIVE 200 35 1 128 78 smit:SMT_451|5end_thiamine-phosphate_pyrophosphorylase_388935..389165_POSITIVE 197 108 61 227 174 smit:SMT_1605|5end_hypothetical_protein_1595406..1595636_POSITIVE 197 98 52 44 2 smit:SMT_847|5end_thioredoxin_reductase_792800..793030_POSITIVE 196 97 58 190 142 smit:SMT_1031|5end_MSM_(multiple_sugar_metabolism)_operon_regulatory_protein_967887..968117_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 236 121 88 56 19 smit:SMT_1466|3end_endopeptidase_O_1447905..1448055_POSITIVE 230 107 70 83 47 smit:SMT_1656|3end_glutamine_ABC_transporter_ATP-binding_protein_1645172..1645322_NEGATIVE 226 94 54 88 41 smit:SMT_1543|3end_diphosphomevalonate_decarboxylase_1527071..1527221_NEGATIVE 220 109 61 68 10 smit:SMT_1511|3end_hypothetical_protein_1493902..1494052_POSITIVE 209 80 50 60 23 smit:SMT_2008|3end_K07485_transposase_1928165..1928315_NEGATIVE 207 130 83 101 48 smit:SMT_871|3end_K03311_branched-chain_amino_acid:cation_transporter,_LIVCS_family_818835..818985_NEGATIVE 207 98 54 150 110 smit:SMT_624|3end_K07584_hypothetical_protein_530090..530240_POSITIVE 205 116 78 105 61 smit:SMT_1126|3end_K08987_putative_membrane_protein_1061157..1061307_NEGATIVE 205 80 40 137 93 smit:SMT_1049|3end_hypothetical_protein_989213..989363_POSITIVE 202 50 1 57 3 smit:SMT_920|3end_serine/threonine_protein_kinase_872588..872738_NEGATIVE 202 98 51 91 44 smit:SMT_702|3end_hypothetical_protein_611946..612096_NEGATIVE 202 97 54 75 31 smit:SMT_135|3end_hypothetical_protein_86178..86328_NEGATIVE 201 83 41 128 85 smit:SMT_447|3end_ABC-type_cobalt_transport_system,_permease_component_CbiQ_related_transporter_386987..387137_POSITIVE 200 35 1 135 85 smit:SMT_450|3end_hydroxyethylthiazole_kinase_389022..389172_POSITIVE 194 64 26 134 91 smit:SMT_1184|3end_phosphotransferase_system,_mannose/fructose/N-acetylgalactosamine-specific_component_IIB_1141561..1141711_NEGATIVE 193 113 73 82 40 smit:SMT_1654|3end_K03110_signal_recognition_particle_receptor_1643519..1643669_POSITIVE 192 69 22 62 20 smit:SMT_1319|3end_muscus_binding_protein_1289974..1290124_POSITIVE 192 44 2 110 69 smit:SMT_902|3end_hypothetical_protein_851424..851574_NEGATIVE 192 108 61 149 108 smit:SMT_629|3end_glycogen_synthase_535480..535630_POSITIVE 191 32 2 107 71 smit:SMT_1648|3end_hypothetical_protein_1634883..1635033_POSITIVE