Origin IGS: aatagagaaggagtggggagaaaacaatttcccctcttttttctatttacgcaagaaaaatccgaacattatattttaatttataaaattatttgacaaaatctgtactttgatttataattaattaaggaaacgtcggaaaaggcgtagagatgcgcaagcataggtaggtcattacaaaagaaacgagacatcgat .........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 atcgatgtctcgtttcttttgtaatgacctacctatgcttgcgcatctctacgccttttccgacgtttccttaattaattataaatcaaagtacagattttgtcaaataattttataaattaaaatataatgttcggatttttcttgcgtaaatagaaaaaagaggggaaattgttttctccccactccttctctatt Mask Tandem Repeat Region ================================================ aatagagaaggagtggggagaaaacaatttcccctcttttttctatttacgcaagaaaaatccgaacattatattttaatttataaaattatttgacaaaatctgtactttgatttataattaattaaggaaacgtcggaaaaggcgtagagatgcgcaagcataggtaggtcattacaaaagaaacgagacatcgat Find is-nt database================================================ Query_seq: SMT_1648:SMT_1649|SMT_1648:SMT_1649:hypothetical protein:GMP reductase:->->:1634944..1635141 198 aatagagaaggagtggggagaaaacaatttcccctcttttttctatttacgcaagaaaaatccgaacattatattttaatttataaaattatttgacaaaatctgtactttgatttataattaattaaggaaacgtcggaaaaggcgtagagatgcgcaagcataggtaggtcattacaaaagaaacgagacatcgat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1648:SMT_1649|SMT_1648:SMT_1649:hypothetical protein:GMP reductase:->->:1634944..1635141 198 aatagagaaggagtggggagaaaacaatttcccctcttttttctatttacgcaagaaaaatccgaacattatattttaatttataaaattatttgacaaaatctgtactttgatttataattaattaaggaaacgtcggaaaaggcgtagagatgcgcaagcataggtaggtcattacaaaagaaacgagacatcgat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1648:SMT_1649|SMT_1648:SMT_1649:hypothetical protein:GMP reductase:->->:1634944..1635141 198 aatagagaaggagtggggagaaaacaatttcccctcttttttctatttacgcaagaaaaatccgaacattatattttaatttataaaattatttgacaaaatctgtactttgatttataattaattaaggaaacgtcggaaaaggcgtagagatgcgcaagcataggtaggtcattacaaaagaaacgagacatcgat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aatagagaaggagtggggagaaaacaatttcccctcttttttctatttacgcaagaaaaatccgaacattatattttaatttataaaattatttgacaaaatctgtactttgatttataattaattaaggaaacgtcggaaaaggcgtagagatgcgcaagcataggtaggtcattacaaaagaaacgagacatcgat Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: - Start: 84 End: 194 ................................................................................... L I I Q C F R Y K S K Y N I L S V D S F A Y L H A L M P L D N C F F R S M .... aatagagaaggagtggggagaaaacaatttcccctcttttttctatttacgcaagaaaaatccgaacattatattttaatttataaaattatttgacaaaatctgtactttgatttataattaattaaggaaacgtcggaaaaggcgtagagatgcgcaagcataggtaggtcattacaaaagaaacgagacatcgat 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: 95 Start: 92 End: 121 ...........................................................................................TTTGACAAAATCTGTACTTTGATTTATAAT............................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aatagagaaggagtggggagaaaacaatttcccctcttttttctatttacgcaagaaaaatccgaacattatattttaatttataaaattatttgacaaaatctgtactttgatttataattaattaaggaaacgtcggaaaaggcgtagagatgcgcaagcataggtaggtcattacaaaagaaacgagacatcgat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_1648:SMT_1649|SMT_1648:SMT_1649:hypothetical protein:GMP reductase:->->:1634944..1635141 198 aatagagaaggagtggggagaaaacaatttcccctcttttttctatttacgcaagaaaaatccgaacattatattttaatttataaaattatttgacaaaatctgtactttgatttataattaattaaggaaacgtcggaaaaggcgtagagatgcgcaagcataggtaggtcattacaaaagaaacgagacatcgat Intra-Species Hit: Count: 1 Min: 1 Max: 198 Len: 198 Subject: smit_SMT_1648_SMT_1649|hypothetical protein:GMP reductase|POSITIVE:POSITIVE|[1634944,1635141]|198 HSP 1 e-value: 1.0E-108 bit: 392.0 Len: 198 Query Start:1 Query End:198 Subject Strand: POSITIVE Subject Start: 1 Subject End: 198 aatagagaaggagtggggagaaaacaatttcccctcttttttctatttacgcaagaaaaatccgaacattatattttaatttataaaattatttgacaaaatctgtactttgatttataattaattaaggaaacgtcggaaaaggcgtagagatgcgcaagcataggtaggtcattacaaaagaaacgagacatcgat aatagagaaggagtggggagaaaacaatttcccctcttttttctatttacgcaagaaaaatccgaacattatattttaatttataaaattatttgacaaaatctgtactttgatttataattaattaaggaaacgtcggaaaaggcgtagagatgcgcaagcataggtaggtcattacaaaagaaacgagacatcgat Inter-species Hit: Count: 3 Min: 28 Max: 198 Len: 171 Subject: NC_008533_SPD_1107_SPD_1108|guanosine monophosphate reductase:hypothetical protein|NEGATIVE:NEGATIVE|[1140199,1140372]|174 HSP 1 e-value: 8.0E-55 bit: 214.0 Len: 171 Query Start:28 Query End:198 Subject Strand: NEGATIVE Subject Start: 1 Subject End: 174 ...........................tttcccctcttttttctattt---acgcaagaaaaatccgaacattatattttaatttataaaattatttgacaaaatctgtactttgatttataattaattaaggaaacgtcggaaaaggcgtagagatgcgcaagcataggtaggtcattacaaaagaaacgagacatcgat ...........................tttcccctctttcttttatttttaacacaagcaaaatccgaacaatatattttaattcataaaataatttgacaaaaactgtactttggtttataataaattaaggaaacgtcggaaaaggcgtagtgatgcgagagcataggtaggtcattacaaaagaaacgagacatcgat Subject: NC_003098_spr1128_spr1129|guanosine 5'-monophosphate oxidoreductase:hypothetical protein|NEGATIVE:NEGATIVE|[1132668,1132841]|174 HSP 1 e-value: 8.0E-55 bit: 214.0 Len: 171 Query Start:28 Query End:198 Subject Strand: NEGATIVE Subject Start: 1 Subject End: 174 ...........................tttcccctcttttttctattt---acgcaagaaaaatccgaacattatattttaatttataaaattatttgacaaaatctgtactttgatttataattaattaaggaaacgtcggaaaaggcgtagagatgcgcaagcataggtaggtcattacaaaagaaacgagacatcgat ...........................tttcccctctttcttttatttttaacacaagcaaaatccgaacaatatattttaattcataaaataatttgacaaaaactgtactttggtttataataaattaaggaaacgtcggaaaaggcgtagtgatgcgagagcataggtaggtcattacaaaagaaacgagacatcgat Subject: NC_003028_SP_1249_SP_1250|guanosine 5'-monophosphate oxidoreductase:hypothetical protein|NEGATIVE:NEGATIVE|[1184523,1184696]|174 HSP 1 e-value: 5.0E-50 bit: 198.0 Len: 171 Query Start:28 Query End:198 Subject Strand: NEGATIVE Subject Start: 1 Subject End: 174 ...........................tttcccctcttttttctattt---acgcaagaaaaatccgaacattatattttaatttataaaattatttgacaaaatctgtactttgatttataattaattaaggaaacgtcggaaaaggcgtagagatgcgcaagcataggtaggtcattacaaaagaaacgagacatcgat ...........................tttcccctctttcttttatttttaacacaagtaaaacccgaacgatatattttaattcataaaataatttgacaaaaactgtactttgatttataataaattaaggaaacgtcggaaaaggcgtagtgatgcaagagcataggtaggtcattacaaaagaaacgagacatcgat Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUCCCCUCUUUUUUCUAUUUACGCAAGAAAAAUCCGAACAUUAUAUUUUAAUUUAUAAAAUUAUUUGACAAAAUCUGUACUUUGAUUUAUAAUUAAUUAAGGAAACGUCGGAAAAGGCGUAGAGAUGCGCAAGCAUAGGUAGGUCAUUACAAAAGAAACGAGACAUCGAU .......((((.(((((.(((((((........(((((..........((((((....((((((....(((.....)))....))))))..))))))....(....).)))))....))))))).((((....))))..((((....))))...))))).))))....... (-32.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCGAUGUCUCGUUUCUUUUGUAAUGACCUACCUAUGCUUGCGCAUCUCUACGCCUUUUCCGACGUUUCCUUAAUUAAUUAUAAAUCAAAGUACAGAUUUUGUCAAAUAAUUUUAUAAAUUAAAAUAUAAUGUUCGGAUUUUUCUUGCGUAAAUAGAAAAAAGAGGGGAAA .......((((.(((.((((.((...........((((....))))...(((((....(((((((((...((((((((((((....((((((....))))))....)))))).....)))))).....)))).)))))........)))))..)).)))).))).)))).. (-27.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 297 147 108 156 108 smit:SMT_116|5end_beta-N-acetylhexosaminidase_66396..66626_POSITIVE 280 141 114 58 26 smit:SMT_146|5end_sugar_transport_system_permease_protein_96664..96894_POSITIVE 279 147 101 158 103 smit:SMT_1630|5end_hypothetical_protein_1617291..1617521_POSITIVE 279 147 101 158 103 smit:SMT_1241|5end_hypothetical_protein_1201040..1201270_POSITIVE 268 156 111 207 161 smit:SMT_446|5end_ABC-type_cobalt_transport_system,_ATPase_component_384870..385100_POSITIVE 266 146 107 49 7 smit:SMT_1606|5end_glutamate_racemase_1595857..1596087_POSITIVE 260 149 101 82 39 smit:SMT_564|5end_23S_rRNA_Gm2251_methyltransferase_482717..482947_NEGATIVE 259 140 96 183 142 smit:SMT_1602|5end_hypothetical_protein_1592385..1592615_POSITIVE 259 140 96 195 154 smit:SMT_1488|5end_K06147_ATP-binding_cassette,_subfamily_B,_bacterial_1467157..1467387_POSITIVE 259 140 96 231 190 smit:SMT_1138|5end_hypothetical_protein_1079547..1079777_NEGATIVE 259 150 102 59 13 smit:SMT_847|5end_thioredoxin_reductase_792800..793030_POSITIVE 259 140 96 208 167 smit:SMT_833|5end_hypothetical_protein_predicted_by_Glimmer/Critica_775362..775592_NEGATIVE 259 140 96 192 151 smit:SMT_130|5end_capsular_polysaccharide_biosynthesis_protein_80995..81225_POSITIVE 254 135 91 159 115 smit:SMT_1986|5end_mercuric_reductase_1914843..1915073_POSITIVE 254 144 101 185 143 smit:SMT_1782|5end_hypothetical_protein_1759520..1759750_POSITIVE 253 150 107 142 93 smit:SMT_448|5end_K03707_transcriptional_activator_TenA_386789..387019_POSITIVE 253 148 101 76 11 smit:SMT_155|5end_hypothetical_protein_102704..102934_NEGATIVE 252 150 102 50 5 smit:SMT_1470|5end_K06188_aquaporin_Z_1452560..1452790_POSITIVE 241 168 125 58 21 smit:SMT_587|5end_ATP_synthase_epsilon_chain_503950..504180_POSITIVE 241 145 101 211 167 smit:SMT_457|5end_hypothetical_protein_396166..396396_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 309 146 117 35 3 smit:SMT_1038|3end_MSM_(multiple_sugar_metabolism)_operon_regulatory_protein_980339..980489_POSITIVE 285 150 109 77 31 smit:SMT_1484|3end_exonuclease_RexA_1464256..1464406_NEGATIVE 259 139 91 144 92 smit:SMT_2096|3end_ATP-dependent_exonuclease_RexB_1990153..1990303_NEGATIVE 259 140 96 53 12 smit:SMT_834|3end_hypothetical_protein_775517..775667_NEGATIVE 259 140 96 52 11 smit:SMT_698|3end_uracil_permease_609769..609919_POSITIVE 256 144 116 82 52 smit:SMT_1186|3end_hypothetical_protein_1144886..1145036_POSITIVE 252 130 81 136 73 smit:SMT_1743|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1725058..1725208_NEGATIVE 245 43 1 138 96 smit:SMT_781|3end_hypothetical_protein_689509..689659_NEGATIVE 241 168 125 47 10 smit:SMT_586|3end_ATP_synthase_F1,_beta_subunit_504019..504169_POSITIVE 241 145 101 56 12 smit:SMT_456|3end_pyruvate_oxidase_396091..396241_POSITIVE 240 150 104 42 1 smit:SMT_1469|3end_GTP_pyrophosphokinase_1452632..1452782_POSITIVE 239 147 107 146 106 smit:SMT_1681|3end_D-alanine-activating_enzyme_1665052..1665202_POSITIVE 237 150 119 61 28 smit:SMT_2093|3end_hypothetical_protein_LOC618557_1989186..1989336_POSITIVE 236 149 109 37 3 smit:SMT_565|3end_polypeptide_deformylase_482762..482912_NEGATIVE 232 130 100 150 125 smit:SMT_1006|3end_6-pyruvoyl_tetrahydrobiopterin_synthase,_putative_947122..947272_POSITIVE 229 145 108 111 75 smit:SMT_2005|3end_pullulanase,_type_I_1925615..1925765_NEGATIVE 228 142 101 54 15 smit:SMT_1140|3end_glycogen_phosphorylase_1081316..1081466_NEGATIVE 226 150 101 61 7 smit:SMT_1488|3end_K06147_ATP-binding_cassette,_subfamily_B,_bacterial_1468982..1469132_POSITIVE 225 146 101 90 40 smit:SMT_1115|3end_K02245_competence_protein_ComGC_1052473..1052623_NEGATIVE 225 144 101 55 13 smit:SMT_799|3end_hypothetical_protein_707296..707446_NEGATIVE