Origin IGS: attctcgtcctcctgaaaatgattaagatatattttaccaaattttcagaaaattacaaccctttttgcaatttttttgagattattttcacaagcttggtttttcaaactatttgaaacttgattctaatcttcattgaaaacttataaatgataaaaaggattagacaatctaaccctttttagtttatgcat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 atgcataaactaaaaagggttagattgtctaatcctttttatcatttataagttttcaatgaagattagaatcaagtttcaaatagtttgaaaaaccaagcttgtgaaaataatctcaaaaaaattgcaaaaagggttgtaattttctgaaaatttggtaaaatatatcttaatcattttcaggaggacgagaat Mask Tandem Repeat Region ================================================ attctcgtcctcctgaaaatgattaagatatattttaccaaattttcagaaaattacaaccctttttgcaatttttttgagattattttcacaagcttggtttttcaaactatttgaaacttgattctaatcttcattgaaaacttataaatgataaaaaggattagacaatctaaccctttttagtttatgcat Find is-nt database================================================ Query_seq: SMT_649:SMT_650|SMT_649:SMT_650:NADP-dependent glyceraldehyde-3-phosphate dehydrogenase:pullulanase:<-<-:557442..557636 195 attctcgtcctcctgaaaatgattaagatatattttaccaaattttcagaaaattacaaccctttttgcaatttttttgagattattttcacaagcttggtttttcaaactatttgaaacttgattctaatcttcattgaaaacttataaatgataaaaaggattagacaatctaaccctttttagtttatgcat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_649:SMT_650|SMT_649:SMT_650:NADP-dependent glyceraldehyde-3-phosphate dehydrogenase:pullulanase:<-<-:557442..557636 195 attctcgtcctcctgaaaatgattaagatatattttaccaaattttcagaaaattacaaccctttttgcaatttttttgagattattttcacaagcttggtttttcaaactatttgaaacttgattctaatcttcattgaaaacttataaatgataaaaaggattagacaatctaaccctttttagtttatgcat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_649:SMT_650|SMT_649:SMT_650:NADP-dependent glyceraldehyde-3-phosphate dehydrogenase:pullulanase:<-<-:557442..557636 195 attctcgtcctcctgaaaatgattaagatatattttaccaaattttcagaaaattacaaccctttttgcaatttttttgagattattttcacaagcttggtttttcaaactatttgaaacttgattctaatcttcattgaaaacttataaatgataaaaaggattagacaatctaaccctttttagtttatgcat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 attctcgtcctcctgaaaatgattaagatatattttaccaaattttcagaaaattacaaccctttttgcaatttttttgagattattttcacaagcttggtttttcaaactatttgaaacttgattctaatcttcattgaaaacttataaatgataaaaaggattagacaatctaaccctttttagtttatgcat Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 1 End: 114 M L V L L K M I K I Y F T K F S E N Y N P F C N F F E I I F T S L V F Q T I ................................................................................. Protein_Len: 30 Strand: + Start: 32 End: 121 ............................... M L P N F Q K I T T L F A I F L R L F S Q A W F F K L F E T .......................................................................... attctcgtcctcctgaaaatgattaagatatattttaccaaattttcagaaaattacaaccctttttgcaatttttttgagattattttcacaagcttggtttttcaaactatttgaaacttgattctaatcttcattgaaaacttataaatgataaaaaggattagacaatctaaccctttttagtttatgcat 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================================================ attctcgtcctcctgaaaatgattaagatatattttaccaaattttcagaaaattacaaccctttttgcaatttttttgagattattttcacaagcttggtttttcaaactatttgaaacttgattctaatcttcattgaaaacttataaatgataaaaaggattagacaatctaaccctttttagtttatgcat Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 79 HP_score: -6.0 Tail_Score: -5.04601 Start: 161 End: 179 Full_Region: TATAAATGATAAAAA GGATTAGA CAA TCTAACCC TTTTTAGTTTATGCA ................................................................................................................................................................GGATTAGACAATCTAACCC................ Find igs database================================================ Query_seq: SMT_649:SMT_650|SMT_649:SMT_650:NADP-dependent glyceraldehyde-3-phosphate dehydrogenase:pullulanase:<-<-:557442..557636 195 attctcgtcctcctgaaaatgattaagatatattttaccaaattttcagaaaattacaaccctttttgcaatttttttgagattattttcacaagcttggtttttcaaactatttgaaacttgattctaatcttcattgaaaacttataaatgataaaaaggattagacaatctaaccctttttagtttatgcat Intra-Species Hit: Count: 1 Min: 1 Max: 195 Len: 195 Subject: smit_SMT_649_SMT_650|NADP-dependent glyceraldehyde-3-phosphate dehydrogenase:pullulanase|NEGATIVE:NEGATIVE|[557442, 557636]|195 HSP 1 e-value: 3.0E-94 bit: 345.0 Len: 195 Query Start:1 Query End:195 Subject Strand: POSITIVE Subject Start: 1 Subject End: 195 attctcgtcctcctgaaaatgattaagatatattttaccaaattttcagaaaattacaaccctttttgcaannnnnnngagattattttcacaagcttggtttttcaaactatttgaaacttgattctaatcttcattgaaaacttataaatgataaaaaggattagacaatctaaccctttttagtttatgcat attctcgtcctcctgaaaatgattaagatatattttaccaaattttcagaaaattacaaccctttttgcaatttttttgagattattttcacaagcttggtttttcaaactatttgaaacttgattctaatcttcattgaaaacttataaatgataaaaaggattagacaatctaaccctttttagtttatgcat Inter-species Hit: Count: 1 Min: 7 Max: 109 Len: 103 Subject: NC_003028_SP_1118_SP_1119|pullulanase, putative:glyceraldehyde-3-phosphate dehydrogenase, NADP-dependent|POSITIVE:POSITIVE|[1051268,1051811]|544 HSP 1 e-value: 4.0E-32 bit: 139.0 Len: 103 Query Start:7 Query End:109 Subject Strand: NEGATIVE Subject Start: 436 Subject End: 538 ......gtcctcctgaaaatgattaagatatattttaccaaattttcagaaaattacaaccctttttgcaannnnnnngagattattttcacaagcttggtttttcaaa...................................................................................... ......gtcctcctgaaaatgattaagatatattttaccaaattttcagaaaatcacaaccctttttgcaaaatttttgagattattttcacaaacttgatttttcaaa...................................................................................... Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUCCUCCUGAAAAUGAUUAAGAUAUAUUUUACCAAAUUUUCAGAAAAUUACAACCCUUUUUGCAAUUUUUUUGAGAUUAUUUUCACAAGCUUGGUUUUUCAAA .......(((((..(((((((.............((((((.((((((((.(((......))).)))))))).))))))...........)))))))))))).. (-12.85) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUGAAAAACCAAGCUUGUGAAAAUAAUCUCAAAAAAAUUGCAAAAAGGGUUGUAAUUUUCUGAAAAUUUGGUAAAAUAUAUCUUAAUCAUUUUCAGGAGGAC ..............(((.(((((((....(((..((((((((((......)))))))))).)))......((((.....))))......))))))).)))... (-16.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 730 100 51 197 148 smit:SMT_649|5end_NADP-dependent_glyceraldehyde-3-phosphate_dehydrogenase_557351..557581_NEGATIVE 253 99 53 138 97 smit:SMT_901|5end_hypothetical_protein_851434..851664_NEGATIVE 248 96 55 158 122 smit:SMT_1134|5end_glutamyl-tRNA_synthetase_1076464..1076694_NEGATIVE 236 96 56 151 101 smit:SMT_1060|5end_K03977_GTP-binding_protein_998106..998336_POSITIVE 228 100 54 154 104 smit:SMT_1933|5end_K02006_cobalt_transport_system_ATP-binding_protein_1872222..1872452_NEGATIVE 222 95 56 67 28 smit:SMT_1993|5end_hypothetical_protein_1919800..1920030_NEGATIVE 219 96 54 149 110 smit:SMT_1732|5end_transcriptional_repressor_protein,_putative_1716451..1716681_POSITIVE 219 94 52 144 100 smit:SMT_332|5end_phosphoglycerate_kinase_271425..271655_POSITIVE 217 92 57 133 99 smit:SMT_851|5end_conserved_hypothetical_protein,_translation_initiation_inhibitor_protein_797446..797676_NEGATIVE 209 100 51 176 119 smit:SMT_1597|5end_K02032_peptide/nickel_transport_system_ATP-binding_protein_1586981..1587211_POSITIVE 209 95 52 187 144 smit:SMT_1396|5end_uracil-DNA_glycosylase_1372064..1372294_POSITIVE 208 100 52 145 95 smit:SMT_652|5end_transporter,_putative_563215..563445_NEGATIVE 203 97 55 88 48 smit:SMT_720|5end_transcriptional_regulator_625950..626180_POSITIVE 200 100 60 141 91 smit:SMT_1410|5end_exonuclease_RexA_1392182..1392412_NEGATIVE 198 98 55 137 98 smit:SMT_1689|5end_PTS_enzyme,_maltose-and_glucose-specific,_factor_II_homologue_1671542..1671772_POSITIVE 198 96 53 156 103 smit:SMT_401|5end_peptide_methionine_sulfoxide_reductase_329663..329893_POSITIVE 194 42 4 144 103 smit:SMT_1140|5end_glycogen_phosphorylase_1083574..1083804_NEGATIVE 192 100 52 88 40 smit:SMT_1788|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1765029..1765259_NEGATIVE 192 100 52 202 154 smit:SMT_1787|5end_phosphoribosylformylglycinamidine_synthase_1764915..1765145_NEGATIVE 192 100 52 88 40 smit:SMT_1197|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1158751..1158981_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 253 99 53 148 107 smit:SMT_902|3end_hypothetical_protein_851424..851574_NEGATIVE 236 96 56 137 87 smit:SMT_1059|3end_NAD(P)H-flavin_oxidoreductase_998172..998322_POSITIVE 219 94 52 54 10 smit:SMT_331|3end_endo-beta-N-acetylglucosaminidase_271415..271565_POSITIVE 217 92 57 122 88 smit:SMT_852|3end_K03978_GTP-binding_protein_797457..797607_NEGATIVE 209 95 52 125 82 smit:SMT_1395|3end_K07025_putative_hydrolase_of_the_HAD_superfamily_1372082..1372232_POSITIVE 208 100 52 68 18 smit:SMT_653|3end_positive_transcriptional_regulator_MutR_family_563292..563442_NEGATIVE 201 100 53 117 62 smit:SMT_106|3end_hypothetical_protein_52336..52486_POSITIVE 200 100 60 144 94 smit:SMT_1411|3end_ATP-dependent_nuclease_subunit_B_1392179..1392329_NEGATIVE 198 98 55 118 79 smit:SMT_1688|3end_putative_N-acylglucosamine-6-phosphate_2-epimerase_1671603..1671753_POSITIVE 198 96 53 146 93 smit:SMT_400|3end_hypothetical_protein_329733..329883_POSITIVE 194 42 4 118 77 smit:SMT_1141|3end_4-alpha-glucanotransferase_1083600..1083750_NEGATIVE 192 100 52 147 99 smit:SMT_1788|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1764970..1765120_NEGATIVE 192 100 52 147 99 smit:SMT_1197|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1158692..1158842_NEGATIVE 192 96 64 138 107 smit:SMT_513|3end_16S_rRNA_processing_protein_RimM_441467..441617_POSITIVE 191 77 31 60 12 smit:SMT_1167|3end_aminopeptidase_N_1112593..1112743_NEGATIVE 190 94 55 69 30 smit:SMT_921|3end_putative_PP2C_protein_phosphatase_874498..874648_NEGATIVE 187 88 43 134 86 smit:SMT_1708|3end_magnesium-translocating_P-type_ATPase_1691893..1692043_NEGATIVE 186 90 55 121 86 smit:SMT_938|3end_hypothetical_protein_890813..890963_NEGATIVE 186 100 71 118 86 smit:SMT_779|3end_ribonuclease_BN,_putative_687883..688033_NEGATIVE 181 95 54 70 36 smit:SMT_2006|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1926803..1926953_POSITIVE