Origin IGS: cagtaaggttcccgaaccagctgacgggtcatannnnnttaattaattaannnnncaagttttgagaaatcatgaagccatgatgytatcgtccgctactccagaggatatcgtgttacccacgattctgttcgtccatttattacacttcgc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gcgaagtgtaataaatggacgaacagaatcgtgggtaacacgatatcctctggagtagcggacgatarcatcatggcttcatgatttctcaaaacttgnnnnnttaattaattaannnnntatgacccgtcagctggttcgggaaccttactg Mask Tandem Repeat Region ================================================ cagtaaggttcccgaaccagctgacgggtcatannnnnttaattaattaannnnncaagttttgagaaatcatgaagccatgatgytatcgtccgctactccagaggatatcgtgttacccacgattctgttcgtccatttattacacttcgc Find is-nt database================================================ Query_seq: SMT_2097:SMT_2098|SMT_2097:SMT_2098:type I restriction enzyme M protein:similar to CDP-ribitol pyrophosphorylase:<-->:1991363..1991515 153 cagtaaggttcccgaaccagctgacgggtcatannnnnttaattaattaannnnncaagttttgagaaatcatgaagccatgatgytatcgtccgctactccagaggatatcgtgttacccacgattctgttcgtccatttattacacttcgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_2097:SMT_2098|SMT_2097:SMT_2098:type I restriction enzyme M protein:similar to CDP-ribitol pyrophosphorylase:<-->:1991363..1991515 153 cagtaaggttcccgaaccagctgacgggtcatannnnnttaattaattaannnnncaagttttgagaaatcatgaagccatgatgytatcgtccgctactccagaggatatcgtgttacccacgattctgttcgtccatttattacacttcgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_2097:SMT_2098|SMT_2097:SMT_2098:type I restriction enzyme M protein:similar to CDP-ribitol pyrophosphorylase:<-->:1991363..1991515 153 cagtaaggttcccgaaccagctgacgggtcatannnnnttaattaattaannnnncaagttttgagaaatcatgaagccatgatgytatcgtccgctactccagaggatatcgtgttacccacgattctgttcgtccatttattacacttcgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cagtaaggttcccgaaccagctgacgggtcatannnnnttaattaattaannnnncaagttttgagaaatcatgaagccatgatgytatcgtccgctactccagaggatatcgtgttacccacgattctgttcgtccatttattacacttcgc Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 62 End: 151 ............................................................. M R N H E A M M X S S A T P E D I V L P T I L F V H L L H F .. cagtaaggttcccgaaccagctgacgggtcatannnnnttaattaattaannnnncaagttttgagaaatcatgaagccatgatgytatcgtccgctactccagaggatatcgtgttacccacgattctgttcgtccatttattacacttcgc 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================================================ cagtaaggttcccgaaccagctgacgggtcatannnnnttaattaattaannnnncaagttttgagaaatcatgaagccatgatgytatcgtccgctactccagaggatatcgtgttacccacgattctgttcgtccatttattacacttcgc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_2097:SMT_2098|SMT_2097:SMT_2098:type I restriction enzyme M protein:similar to CDP-ribitol pyrophosphorylase:<-->:1991363..1991515 153 cagtaaggttcccgaaccagctgacgggtcatannnnnttaattaattaannnnncaagttttgagaaatcatgaagccatgatgytatcgtccgctactccagaggatatcgtgttacccacgattctgttcgtccatttattacacttcgc Intra-Species Hit: Count: 1 Min: 1 Max: 153 Len: 153 Subject: smit_SMT_2097_SMT_2098|type I restriction enzyme M protein:similar to CDP-ribitol pyrophosphorylase|NEGATIVE:POSITIVE|[1991363, 1991515]|153 HSP 1 e-value: 5.0E-63 bit: 241.0 Len: 153 Query Start:1 Query End:153 Subject Strand: POSITIVE Subject Start: 1 Subject End: 153 cagtaaggttcccgaaccagctgacgggtcatannnnnttaattaattaannnnncaagttttgagaaatcatgaagccatgatgytatcgtccgctactccagaggatatcgtgttacccacgattctgttcgtccatttattacacttcgc cagtaaggttcccgaaccagctgacgggtcatannnnnttaattaattaannnnncaagttttgagaaatcatgaagccatgatgytatcgtccgctactccagaggatatcgtgttacccacgattctgttcgtccatttattacacttcgc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAGUAAGGUUCCCGAACCAGCUGACGGGUCAUANNNNNUUAAUUAAUUAANNNNNCAAGUUUUGAGAAAUCAUGAAGCCAUGAUGYUAUCGUCCGCUACUCCAGAGGAUAUCGUGUUACCCACGAUUCUGUUCGUCCAUUUAUUACACUUCGC ..((((((((....))))....(((((..............................(((..(((...((((((....))))))....)))...)))....((((....((((((.....)))))))))).)))))......))))....... (-27.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCGAAGUGUAAUAAAUGGACGAACAGAAUCGUGGGUAACACGAUAUCCUCUGGAGUAGCGGACGAUARCAUCAUGGCUUCAUGAUUUCUCAAAACUUGNNNNNUUAAUUAAUUAANNNNNUAUGACCCGUCAGCUGGUUCGGGAACCUUACUG .....((.((.....)).))...(((.((((((.....))))))....((((((.((((.((((.....((((((....))))))...................(((....))).............)))).)))).)))))).......))) (-29.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 989 140 91 231 182 smit:SMT_2097|5end_type_I_restriction_enzyme_M_protein_1991272..1991502_NEGATIVE 318 30 1 223 192 smit:SMT_1888|5end_K02026_multiple_sugar_transport_system_permease_protein_1842088..1842318_POSITIVE 310 107 72 226 197 smit:SMT_1342|5end_protease_maturation_protein,_putative_1320214..1320444_NEGATIVE 297 137 91 65 12 smit:SMT_1607|5end_K03341_putative_deoxyribonucleotide_triphosphate_pyrophosphatase_1596648..1596878_POSITIVE 296 128 89 145 96 smit:SMT_1617|5end_K02015_iron_complex_transport_system_permease_protein_1604500..1604730_NEGATIVE 291 26 5 120 96 smit:SMT_1484|5end_exonuclease_RexA_1464936..1465166_NEGATIVE 287 109 64 111 58 smit:SMT_1855|5end_K03650_tRNA_modification_GTPase_1819711..1819941_POSITIVE 280 138 93 199 152 smit:SMT_665|5end_NAD+_kinase_576745..576975_NEGATIVE 279 50 7 166 119 smit:SMT_1673|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1659831..1660061_POSITIVE 265 138 91 221 169 smit:SMT_1471|5end_hypothetical_protein_1453933..1454163_NEGATIVE 262 128 88 180 130 smit:SMT_488|5end_dCMP_deaminase_422956..423186_POSITIVE 260 137 91 174 120 smit:SMT_941|5end_hypothetical_protein_893558..893788_NEGATIVE 260 140 91 146 87 smit:SMT_567|5end_conserved_hypothetical_protein_484845..485075_POSITIVE 260 124 90 55 7 smit:SMT_468|5end_ABC-type_oligopeptide_transport_system,_periplasmic_component_404710..404940_POSITIVE 259 133 92 61 15 smit:SMT_2126|5end_indole-3-glycerol_phosphate_synthase_2009107..2009337_POSITIVE 259 133 92 61 15 smit:SMT_1751|5end_indole-3-glycerol_phosphate_synthase_1729012..1729242_POSITIVE 256 122 90 181 144 smit:SMT_788|5end_hypothetical_protein_700319..700549_NEGATIVE 255 130 89 219 180 smit:SMT_1840|5end_6-phosphogluconate_dehydrogenase,_decarboxylating_1806285..1806515_NEGATIVE 255 137 91 189 142 smit:SMT_1752|5end_N-(5'-phosphoribosyl)-anthranilate_isomerase_1729772..1730002_POSITIVE 252 97 61 212 174 smit:SMT_1111|5end_hypothetical_protein_1051409..1051639_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 308 137 95 53 9 smit:SMT_2053|3end_hypothetical_membrane_associated_protein_1963754..1963904_NEGATIVE 297 137 91 68 15 smit:SMT_1606|3end_glutamate_racemase_1596731..1596881_POSITIVE 284 32 13 131 111 smit:SMT_1181|3end_phosphotransferase_system,_mannose/fructose-specific_component_IIA_1139413..1139563_NEGATIVE 273 113 76 57 15 smit:SMT_213|3end_leucyl-tRNA_synthetase_146167..146317_POSITIVE 260 140 91 124 65 smit:SMT_566|3end_K07282_poly-gamma-glutamate_synthesis_protein_(capsule_biosynthesis_protein)_484903..485053_POSITIVE 259 133 92 64 18 smit:SMT_1750|3end_anthranilate_phosphoribosyltransferase_1729095..1729245_POSITIVE 255 130 89 143 104 smit:SMT_1841|3end_hypothetical_protein_1806361..1806511_NEGATIVE 255 120 89 147 106 smit:SMT_1618|3end_K02015_iron_complex_transport_system_permease_protein_1604490..1604640_NEGATIVE 255 130 89 143 104 smit:SMT_303|3end_hypothetical_protein_245758..245908_POSITIVE 253 138 93 76 30 smit:SMT_777|3end_hypothetical_protein_686618..686768_NEGATIVE 252 137 95 62 25 smit:SMT_1941|3end_hypothetical_protein_1877663..1877813_POSITIVE 247 129 89 44 5 smit:SMT_383|3end_cysteinyl-tRNA_synthetase_319407..319557_POSITIVE 246 127 88 59 12 smit:SMT_1587|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1577118..1577268_POSITIVE 244 135 92 138 98 smit:SMT_671|3end_hypothetical_protein_580676..580826_POSITIVE 244 127 81 82 36 smit:SMT_175|3end_50S_ribosomal_protein_L22_118148..118298_POSITIVE 242 115 78 83 46 smit:SMT_2018|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1936956..1937106_POSITIVE 241 140 93 103 39 smit:SMT_464|3end_ribonuclease_Z_403303..403453_POSITIVE 241 140 93 103 39 smit:SMT_416|3end_ribonuclease_Z_360432..360582_POSITIVE 238 114 76 40 1 smit:SMT_1738|3end_peptidyl-prolyl_cis-trans_isomerase_1721341..1721491_POSITIVE 238 140 92 146 97 smit:SMT_395|3end_hypothetical_protein_325027..325177_POSITIVE