Origin IGS: tcgattagtcctcctattttctctatgttaaattatatatcatttgtagcaagaggacaaatagtctgtttgtaaagtcttctctatactacaactttcctgtcgctcataattgttct .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 agaacaattatgagcgacaggaaagttgtagtatagagaagactttacaaacagactatttgtcctcttgctacaaatgatatataatttaacatagagaaaataggaggactaatcga Mask Tandem Repeat Region ================================================ tcgattagtcctcctattttctctatgttaaattatatatcatttgtagcaagaggacaaatagtctgtttgtaaagtcttctctatactacaactttcctgtcgctcataattgttct Find is-nt database================================================ Query_seq: SMT_1433:SMT_1434|SMT_1433:SMT_1434:hypothetical protein:neopullulanase:<-<-:1417874..1417992 119 tcgattagtcctcctattttctctatgttaaattatatatcatttgtagcaagaggacaaatagtctgtttgtaaagtcttctctatactacaactttcctgtcgctcataattgttct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1433:SMT_1434|SMT_1433:SMT_1434:hypothetical protein:neopullulanase:<-<-:1417874..1417992 119 tcgattagtcctcctattttctctatgttaaattatatatcatttgtagcaagaggacaaatagtctgtttgtaaagtcttctctatactacaactttcctgtcgctcataattgttct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1433:SMT_1434|SMT_1433:SMT_1434:hypothetical protein:neopullulanase:<-<-:1417874..1417992 119 tcgattagtcctcctattttctctatgttaaattatatatcatttgtagcaagaggacaaatagtctgtttgtaaagtcttctctatactacaactttcctgtcgctcataattgttct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tcgattagtcctcctattttctctatgttaaattatatatcatttgtagcaagaggacaaatagtctgtttgtaaagtcttctctatactacaactttcctgtcgctcataattgttct Predict ORF larger than 30AA ================================================ tcgattagtcctcctattttctctatgttaaattatatatcatttgtagcaagaggacaaatagtctgtttgtaaagtcttctctatactacaactttcctgtcgctcataattgttct Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: - Score: 84 Start: 32 End: 61 ...............................TTTGTCCTCTTGCTACAAATGATATATAAT.......................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tcgattagtcctcctattttctctatgttaaattatatatcatttgtagcaagaggacaaatagtctgtttgtaaagtcttctctatactacaactttcctgtcgctcataattgttct Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_1433:SMT_1434|SMT_1433:SMT_1434:hypothetical protein:neopullulanase:<-<-:1417874..1417992 119 tcgattagtcctcctattttctctatgttaaattatatatcatttgtagcaagaggacaaatagtctgtttgtaaagtcttctctatactacaactttcctgtcgctcataattgttct Intra-Species Hit: Count: 1 Min: 1 Max: 119 Len: 119 Subject: smit_SMT_1433_SMT_1434|hypothetical protein:neopullulanase|NEGATIVE:NEGATIVE|[1417874, 1417992]|119 HSP 1 e-value: 1.0E-61 bit: 236.0 Len: 119 Query Start:1 Query End:119 Subject Strand: POSITIVE Subject Start: 1 Subject End: 119 tcgattagtcctcctattttctctatgttaaattatatatcatttgtagcaagaggacaaatagtctgtttgtaaagtcttctctatactacaactttcctgtcgctcataattgttct tcgattagtcctcctattttctctatgttaaattatatatcatttgtagcaagaggacaaatagtctgtttgtaaagtcttctctatactacaactttcctgtcgctcataattgttct Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCGAUUAGUCCUCCUAUUUUCUCUAUGUUAAAUUAUAUAUCAUUUGUAGCAAGAGGACAAAUAGUCUGUUUGUAAAGUCUUCUCUAUACUACAACUUUCCUGUCGCUCAUAAUUGUUCU .((((..((((((((((......(((((......)))))......))))...))))))....(((.(((..(((.((......)).))).)))))).....)))).............. (-18.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGAACAAUUAUGAGCGACAGGAAAGUUGUAGUAUAGAGAAGACUUUACAAACAGACUAUUUGUCCUCUUGCUACAAAUGAUAUAUAAUUUAACAUAGAGAAAAUAGGAGGACUAAUCGA ......(((((.(((((.((((.....(((((.(((((....))))).......)))))...)))).)))))....)))))......................(((.....)))..... (-16.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 840 110 61 201 152 smit:SMT_1433|5end_hypothetical_protein_1417783..1418013_NEGATIVE 258 109 76 215 173 smit:SMT_1199|5end_lactococcin_A_ABC_transporter_permease_protein_1161063..1161293_NEGATIVE 254 54 12 152 96 smit:SMT_458|5end_hypothetical_protein_predicted_by_Glimmer/Critica_397073..397303_NEGATIVE 245 75 44 70 40 smit:SMT_918|5end_hypothetical_protein_871739..871969_NEGATIVE 240 86 41 217 179 smit:SMT_663|5end_phosphate_acetyltransferase_574990..575220_NEGATIVE 239 102 61 156 117 smit:SMT_1116|5end_K02244_competence_protein_ComGB_1053841..1054071_NEGATIVE 238 73 38 219 179 smit:SMT_912|5end_fructokinase_863620..863850_NEGATIVE 237 110 64 136 96 smit:SMT_659|5end_hypothetical_protein_570545..570775_NEGATIVE 237 50 1 143 91 smit:SMT_380|5end_hypothetical_protein_316376..316606_POSITIVE 237 50 1 143 91 smit:SMT_371|5end_hypothetical_protein_305248..305478_POSITIVE 227 53 12 142 91 smit:SMT_1697|5end_hypothetical_protein_1678846..1679076_POSITIVE 222 107 66 105 72 smit:SMT_1514|5end_methylenetetrahydrofolate_dehydrogenase_(NADP+)_/_methenyltetrahydrofolate_cyclohydrolase_1496640..1496870_NEGATIVE 222 45 1 133 91 smit:SMT_327|5end_hypothetical_protein_263953..264183_POSITIVE 217 31 1 156 126 smit:SMT_1645|5end_hypothetical_protein_1631738..1631968_POSITIVE 217 109 66 66 20 smit:SMT_850|5end_hypothetical_protein_797014..797244_NEGATIVE 216 105 66 125 78 smit:SMT_1358|5end_dihydroorotate_dehydrogenase_B_1337192..1337422_NEGATIVE 214 110 77 177 145 smit:SMT_189|5end_50S_ribosomal_protein_L15_123832..124062_POSITIVE 212 90 44 94 45 smit:SMT_1462|5end_phosphate_ABC_transporter,_ATP-binding_protein,_putative_1443140..1443370_POSITIVE 212 84 41 228 187 smit:SMT_1159|5end_hypothetical_protein_1104544..1104774_NEGATIVE 212 108 64 117 65 smit:SMT_293|5end_dTDP-4-dehydrorhamnose_reductase_235919..236149_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 280 109 74 41 7 smit:SMT_1319|3end_muscus_binding_protein_1289974..1290124_POSITIVE 275 109 74 72 39 smit:SMT_2064|3end_amino_acid_ABC_transporter,_ATP-binding_protein_1972441..1972591_POSITIVE 245 75 44 68 38 smit:SMT_919|3end_hypothetical_protein_871741..871891_NEGATIVE 237 110 64 143 103 smit:SMT_660|3end_two-component_sensor_histidine_kinase_570538..570688_NEGATIVE 237 50 1 143 91 smit:SMT_379|3end_acetyltransferase,_GNAT_family_316456..316606_POSITIVE 237 50 1 143 91 smit:SMT_370|3end_acetyltransferase,_GNAT_family_305328..305478_POSITIVE 227 53 12 140 89 smit:SMT_1696|3end_hypothetical_protein_1678924..1679074_POSITIVE 218 97 53 124 78 smit:SMT_1195|3end_amidophosphoribosyltransferase_1153376..1153526_NEGATIVE 216 105 66 114 67 smit:SMT_1359|3end_dihydroorotate_dehydrogenase_electron_transfer_subunit_1337203..1337353_NEGATIVE 212 90 44 81 32 smit:SMT_1461|3end_putative_phosphate_ABC_transporter_(ATP-binding_protein)_1443207..1443357_POSITIVE 211 108 65 113 76 smit:SMT_896|3end_hypothetical_protein_843119..843269_NEGATIVE 209 100 51 105 49 smit:SMT_446|3end_ABC-type_cobalt_transport_system,_ATPase_component_386335..386485_POSITIVE 207 79 36 90 42 smit:SMT_163|3end_cardiolipin_synthetase_108936..109086_POSITIVE 206 49 9 78 39 smit:SMT_1426|3end_K03095_SprT-like_protein_1410864..1411014_NEGATIVE 206 108 65 40 9 smit:SMT_1213|3end_fatty_acid/phospholipid_synthesis_protein_PlsX_1171663..1171813_NEGATIVE 203 108 65 51 8 smit:SMT_292|3end_dTDP-glucose_4,6-dehydratase_235933..236083_POSITIVE 201 85 41 101 52 smit:SMT_2029|3end_acetyltransferase,_GNAT_family_1944284..1944434_POSITIVE 201 85 41 101 52 smit:SMT_1755|3end_acetyltransferase,_GNAT_family_1733577..1733727_POSITIVE 199 87 49 49 14 smit:SMT_1206|3end_similar_to_sensor_histidine_kinase_(AgrC_from_Staphylococcus)_1165697..1165847_NEGATIVE 194 108 61 82 37 smit:SMT_1726|3end_tRNA_pseudouridine_synthase_B_1712453..1712603_POSITIVE