Origin IGS: atcacgttctttatttttgttgaatgatgagagagcgcgatttgaaaagtgtgtggatactcttgggtcatataagttaggaaaccttctgtttcatcacctaaaagagtttttgcttgatgktttcagctctggcagcaagcggttctttcttttttttggttgaaactttttcattacattacgataaaaataggnnnnnttaa .........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 ttaannnnncctatttttatcgtaatgtaatgaaaaagtttcaaccaaaaaaaagaaagaaccgcttgctgccagagctgaaamcatcaagcaaaaactcttttaggtgatgaaacagaaggtttcctaacttatatgacccaagagtatccacacacttttcaaatcgcgctctctcatcattcaacaaaaataaagaacgtgat Mask Tandem Repeat Region ================================================ atcacgttctttatttttgttgaatgatgagagagcgcgatttgaaaagtgtgtggatactcttgggtcatataagttaggaaaccttctgtttcatcacctaaaagagtttttgcttgatgktttcagctctggcagcaagcggttctttcttttttttggttgaaactttttcattacattacgataaaaataggnnnnnttaa Find is-nt database================================================ Query_seq: SMT_2107:SMT_2108|SMT_2107:SMT_2108:tyrosine recombinase:adenylosuccinate lyase:<-<-:1998628..1998833 206 atcacgttctttatttttgttgaatgatgagagagcgcgatttgaaaagtgtgtggatactcttgggtcatataagttaggaaaccttctgtttcatcacctaaaagagtttttgcttgatgktttcagctctggcagcaagcggttctttcttttttttggttgaaactttttcattacattacgataaaaataggnnnnnttaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_2107:SMT_2108|SMT_2107:SMT_2108:tyrosine recombinase:adenylosuccinate lyase:<-<-:1998628..1998833 206 atcacgttctttatttttgttgaatgatgagagagcgcgatttgaaaagtgtgtggatactcttgggtcatataagttaggaaaccttctgtttcatcacctaaaagagtttttgcttgatgktttcagctctggcagcaagcggttctttcttttttttggttgaaactttttcattacattacgataaaaataggnnnnnttaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_2107:SMT_2108|SMT_2107:SMT_2108:tyrosine recombinase:adenylosuccinate lyase:<-<-:1998628..1998833 206 atcacgttctttatttttgttgaatgatgagagagcgcgatttgaaaagtgtgtggatactcttgggtcatataagttaggaaaccttctgtttcatcacctaaaagagtttttgcttgatgktttcagctctggcagcaagcggttctttcttttttttggttgaaactttttcattacattacgataaaaataggnnnnnttaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atcacgttctttatttttgttgaatgatgagagagcgcgatttgaaaagtgtgtggatactcttgggtcatataagttaggaaaccttctgtttcatcacctaaaagagtttttgcttgatgktttcagctctggcagcaagcggttctttcttttttttggttgaaactttttcattacattacgataaaaataggnnnnnttaa Predict ORF larger than 30AA ================================================ Protein_Len: 49 Strand: + Start: 17 End: 163 ................ M L N D E R A R F E K C V D T L G S Y K L G N L L F H H L K E F L L D X F S S G S K R F F L F F G ........................................... Protein_Len: 30 Strand: + Start: 117 End: 203 .................................................................................................................... M M X S A L A A S G S F F F L V E T F S L H Y D K N R X X * ... atcacgttctttatttttgttgaatgatgagagagcgcgatttgaaaagtgtgtggatactcttgggtcatataagttaggaaaccttctgtttcatcacctaaaagagtttttgcttgatgktttcagctctggcagcaagcggttctttcttttttttggttgaaactttttcattacattacgataaaaataggnnnnnttaa 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================================================ atcacgttctttatttttgttgaatgatgagagagcgcgatttgaaaagtgtgtggatactcttgggtcatataagttaggaaaccttctgtttcatcacctaaaagagtttttgcttgatgktttcagctctggcagcaagcggttctttcttttttttggttgaaactttttcattacattacgataaaaataggnnnnnttaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_2107:SMT_2108|SMT_2107:SMT_2108:tyrosine recombinase:adenylosuccinate lyase:<-<-:1998628..1998833 206 atcacgttctttatttttgttgaatgatgagagagcgcgatttgaaaagtgtgtggatactcttgggtcatataagttaggaaaccttctgtttcatcacctaaaagagtttttgcttgatgktttcagctctggcagcaagcggttctttcttttttttggttgaaactttttcattacattacgataaaaataggnnnnnttaa Intra-Species Hit: Count: 1 Min: 1 Max: 195 Len: 195 Subject: smit_SMT_2107_SMT_2108|tyrosine recombinase:adenylosuccinate lyase|NEGATIVE:NEGATIVE|[1998628,1998833]|206 HSP 1 e-value: 2.0E-91 bit: 336.0 Len: 195 Query Start:1 Query End:195 Subject Strand: POSITIVE Subject Start: 1 Subject End: 195 atcacgttctttatttttgttgaatgatgagagagcgcgatttgaaaagtgtgtggatactcttgggtcatataagttaggaaaccttctgtttcatcacctaaaagagtttttgcttgatgktttcagctctggcagcaagcggttctttcnnnnnnnnggttgaaactttttcattacattacgataaaaata........... atcacgttctttatttttgttgaatgatgagagagcgcgatttgaaaagtgtgtggatactcttgggtcatataagttaggaaaccttctgtttcatcacctaaaagagtttttgcttgatgktttcagctctggcagcaagcggttctttcttttttttggttgaaactttttcattacattacgataaaaata........... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCACGUUCUUUAUUUUUGUUGAAUGAUGAGAGAGCGCGAUUUGAAAAGUGUGUGGAUACUCUUGGGUCAUAUAAGUUAGGAAACCUUCUGUUUCAUCACCUAAAAGAGUUUUUGCUUGAUGKUUUCAGCUCUGGCAGCAAGCGGUUCUUUCUUUUUUUUGGUUGAAACUUUUUCAUUACAUUACGAUAAAAAUA ...........((((((((((((((((((((((((...((((..(..(((((....))))).)..))))...........(((((.....))))).(((((.(((((((...(((((((.((.............)).)))))))....)))))))....)).)))..)))))))))..)))).))))))))))) (-44.12) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAUUUUUAUCGUAAUGUAAUGAAAAAGUUUCAACCAAAAAAAAGAAAGAACCGCUUGCUGCCAGAGCUGAAAMCAUCAAGCAAAAACUCUUUUAGGUGAUGAAACAGAAGGUUUCCUAACUUAUAUGACCCAAGAGUAUCCACACACUUUUCAAAUCGCGCUCUCUCAUCAUUCAACAAAAAUAAAGAACGUGAU .((((((.((((......))))))))))...............(((((....(((((.((.((....))....)).)))))....((((((.(((((...(((((.....)))))...)))))........))))))..........)))))..((((((.(((.....................))).)))))) (-27.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 926 70 21 161 112 smit:SMT_2107|5end_tyrosine_recombinase_1998537..1998767_NEGATIVE 291 122 88 231 193 smit:SMT_1497|5end_acetyltransferase,_GNAT_family_1481432..1481662_POSITIVE 291 150 111 147 110 smit:SMT_874|5end_dipeptidase_822765..822995_NEGATIVE 286 164 125 167 124 smit:SMT_814|5end_UDP-N-acetyl_muramate-alanine_ligase_723666..723896_NEGATIVE 275 165 125 155 112 smit:SMT_173|5end_50S_ribosomal_protein_L2_116494..116724_POSITIVE 273 165 125 184 141 smit:SMT_362|5end_K02519_translation_initiation_factor_IF-2_296230..296460_POSITIVE 271 139 100 191 142 smit:SMT_310|5end_3-oxoacyl-_251370..251600_POSITIVE 266 156 111 107 58 smit:SMT_1917|5end_ATP-dependent_nuclease_subunit_B_1861765..1861995_NEGATIVE 262 178 133 86 34 smit:SMT_1610|5end_tyrosine_recombinase_1598565..1598795_POSITIVE 260 58 14 194 149 smit:SMT_1389|5end_dihydroxyacetone_kinase_1366890..1367120_NEGATIVE 257 57 11 201 151 smit:SMT_1084|5end_hypothetical_protein_1021925..1022155_NEGATIVE 253 149 106 138 95 smit:SMT_1694|5end_GTPase_1676674..1676904_POSITIVE 252 154 112 178 135 smit:SMT_1989|5end_multimodular_transpeptidase-transglycosylase_1917607..1917837_NEGATIVE 250 149 108 171 138 smit:SMT_1060|5end_K03977_GTP-binding_protein_998106..998336_POSITIVE 249 148 113 44 10 smit:SMT_1559|5end_6-phosphofructokinase_1545429..1545659_NEGATIVE 248 164 126 112 61 smit:SMT_1795|5end_DNA_polymerase_III,_delta_subunit_1769847..1770077_NEGATIVE 248 110 63 154 116 smit:SMT_1413|5end_putative_carbon-nitrogen_hydrolase_1397351..1397581_NEGATIVE 246 100 51 109 53 smit:SMT_1747|5end_anthranilate_synthase_component_I_1726279..1726509_POSITIVE 245 152 128 169 144 smit:SMT_1816|5end_K02026_multiple_sugar_transport_system_permease_protein_1790813..1791043_POSITIVE 245 148 108 76 17 smit:SMT_1719|5end_DNA_mismatch_repair_protein_1706842..1707072_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 291 150 111 133 96 smit:SMT_875|3end_nitroreductase_family_protein_822779..822929_NEGATIVE 275 165 125 137 94 smit:SMT_172|3end_50S_ribosomal_protein_L23_116556..116706_POSITIVE 271 139 100 147 98 smit:SMT_309|3end_acyl-carrier-protein_S-malonyltransferase_251406..251556_POSITIVE 270 157 111 149 94 smit:SMT_815|3end_hypothetical_protein_723677..723827_NEGATIVE 266 156 111 56 7 smit:SMT_1918|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1861816..1861966_NEGATIVE 265 40 7 122 87 smit:SMT_1814|3end_amino_acid_transporter_1788640..1788790_POSITIVE 263 71 34 37 1 smit:SMT_674|3end_K07010_putative_glutamine_amidotransferase_582330..582480_POSITIVE 262 178 133 95 43 smit:SMT_1609|3end_hypothetical_protein_1598654..1598804_POSITIVE 260 70 23 141 103 smit:SMT_145|3end_hypothetical_protein_96636..96786_POSITIVE 255 187 141 112 62 smit:SMT_444|3end_thiamine-phosphate_pyrophosphorylase_384048..384198_POSITIVE 253 149 106 136 93 smit:SMT_1693|3end_dimethyladenosine_transferase_1676752..1676902_POSITIVE 250 180 133 105 40 smit:SMT_1625|3end_DNA_polymerase_IV_1615066..1615216_POSITIVE 248 164 126 78 27 smit:SMT_1796|3end_dihydroorotate_dehydrogenase_A_1769881..1770031_NEGATIVE 248 110 63 144 106 smit:SMT_1414|3end_hypothetical_protein_1397361..1397511_NEGATIVE 245 130 84 135 86 smit:SMT_592|3end_amino_acid_ABC_transporter,_ATP-binding_protein_509468..509618_POSITIVE 242 140 91 101 60 smit:SMT_1799|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1773612..1773762_POSITIVE 242 96 51 83 38 smit:SMT_1356|3end_fibronectin-binding_protein-like_protein_A_1334269..1334419_POSITIVE 239 140 91 101 62 smit:SMT_2018|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1936956..1937106_POSITIVE 239 150 101 80 14 smit:SMT_1787|3end_phosphoribosylformylglycinamidine_synthase_1763668..1763818_NEGATIVE 239 68 26 55 2 smit:SMT_838|3end_cation_efflux_family_protein_784203..784353_POSITIVE