Origin IGS: aagagtagtatagcatgtttccctaaggcattcaagacttgataaacaggcatatgtcactacttttctgaaaattatgctaccgttttactaaaacgctaaaaagtgctataatgtgaacggttaaaacaatttacaaaaaggagaatttca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgaaattctcctttttgtaaattgttttaaccgttcacattatagcactttttagcgttttagtaaaacggtagcataattttcagaaaagtagtgacatatgcctgtttatcaagtcttgaatgccttagggaaacatgctatactactctt Mask Tandem Repeat Region ================================================ aagagtagtatagcatgtttccctaaggcattcaagacttgataaacaggcatatgtcactacttttctgaaaattatgctaccgttttactaaaacgctaaaaagtgctataatgtgaacggttaaaacaatttacaaaaaggagaatttca Find is-nt database================================================ Query_seq: SMT_654:SMT_655|SMT_654:SMT_655:K06158 ATP-binding cassette, sub-family F, member 3:phosphoglucomutase:<-->:566149..566301 153 aagagtagtatagcatgtttccctaaggcattcaagacttgataaacaggcatatgtcactacttttctgaaaattatgctaccgttttactaaaacgctaaaaagtgctataatgtgaacggttaaaacaatttacaaaaaggagaatttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_654:SMT_655|SMT_654:SMT_655:K06158 ATP-binding cassette, sub-family F, member 3:phosphoglucomutase:<-->:566149..566301 153 aagagtagtatagcatgtttccctaaggcattcaagacttgataaacaggcatatgtcactacttttctgaaaattatgctaccgttttactaaaacgctaaaaagtgctataatgtgaacggttaaaacaatttacaaaaaggagaatttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_654:SMT_655|SMT_654:SMT_655:K06158 ATP-binding cassette, sub-family F, member 3:phosphoglucomutase:<-->:566149..566301 153 aagagtagtatagcatgtttccctaaggcattcaagacttgataaacaggcatatgtcactacttttctgaaaattatgctaccgttttactaaaacgctaaaaagtgctataatgtgaacggttaaaacaatttacaaaaaggagaatttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aagagtagtatagcatgtttccctaaggcattcaagacttgataaacaggcatatgtcactacttttctgaaaattatgctaccgttttactaaaacgctaaaaagtgctataatgtgaacggttaaaacaatttacaaaaaggagaatttca Predict ORF larger than 30AA ================================================ aagagtagtatagcatgtttccctaaggcattcaagacttgataaacaggcatatgtcactacttttctgaaaattatgctaccgttttactaaaacgctaaaaagtgctataatgtgaacggttaaaacaatttacaaaaaggagaatttca 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: 88 Start: 86 End: 115 .....................................................................................TTTTACTAAAACGCTAAAAAGTGCTATAAT...................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aagagtagtatagcatgtttccctaaggcattcaagacttgataaacaggcatatgtcactacttttctgaaaattatgctaccgttttactaaaacgctaaaaagtgctataatgtgaacggttaaaacaatttacaaaaaggagaatttca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_654:SMT_655|SMT_654:SMT_655:K06158 ATP-binding cassette, sub-family F, member 3:phosphoglucomutase:<-->:566149..566301 153 aagagtagtatagcatgtttccctaaggcattcaagacttgataaacaggcatatgtcactacttttctgaaaattatgctaccgttttactaaaacgctaaaaagtgctataatgtgaacggttaaaacaatttacaaaaaggagaatttca Intra-Species Hit: Count: 1 Min: 1 Max: 153 Len: 153 Subject: smit_SMT_654_SMT_655|K06158 ATP-binding cassette, sub-family F, member 3:phosphoglucomutase|NEGATIVE:POSITIVE|[566149, 566301]|153 HSP 1 e-value: 9.0E-82 bit: 303.0 Len: 153 Query Start:1 Query End:153 Subject Strand: POSITIVE Subject Start: 1 Subject End: 153 aagagtagtatagcatgtttccctaaggcattcaagacttgataaacaggcatatgtcactacttttctgaaaattatgctaccgttttactaaaacgctaaaaagtgctataatgtgaacggttaaaacaatttacaaaaaggagaatttca aagagtagtatagcatgtttccctaaggcattcaagacttgataaacaggcatatgtcactacttttctgaaaattatgctaccgttttactaaaacgctaaaaagtgctataatgtgaacggttaaaacaatttacaaaaaggagaatttca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGAGUAGUAUAGCAUGUUUCCCUAAGGCAUUCAAGACUUGAUAAACAGGCAUAUGUCACUACUUUUCUGAAAAUUAUGCUACCGUUUUACUAAAACGCUAAAAAGUGCUAUAAUGUGAACGGUUAAAACAAUUUACAAAAAGGAGAAUUUCA ...(((..((((((.(((((...((((..........))))..))))).)).))))..))).(((((.((.(((((.....(((((((........((((....)))).........)))))))......))))).)).)))))......... (-25.43) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAAAUUCUCCUUUUUGUAAAUUGUUUUAACCGUUCACAUUAUAGCACUUUUUAGCGUUUUAGUAAAACGGUAGCAUAAUUUUCAGAAAAGUAGUGACAUAUGCCUGUUUAUCAAGUCUUGAAUGCCUUAGGGAAACAUGCUAUACUACUCUU ...........((((((.(((((((.(((.(((((...((((.(((.((....)).))).))))..)))))))).))))))).)))))).((((((......((.(((((..((((.(......).))).)..))))).))..)))))).... (-29.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 880 60 11 151 102 smit:SMT_654|5end_K06158_ATP-binding_cassette,_sub-family_F,_member_3_566058..566288_NEGATIVE 282 50 6 210 151 smit:SMT_358|5end_hypothetical_protein_293947..294177_POSITIVE 274 60 11 227 165 smit:SMT_1684|5end_acetyltransferase,_GNAT_family_1667757..1667987_NEGATIVE 269 69 22 86 31 smit:SMT_273|5end_glucan_1,6-alpha-glucosidase_213418..213648_POSITIVE 246 60 12 224 184 smit:SMT_346|5end_K01992_ABC-2_type_transport_system_permease_protein_284720..284950_POSITIVE 244 53 12 121 87 smit:SMT_1791|5end_hypothetical_protein_1765907..1766137_POSITIVE 240 59 11 211 153 smit:SMT_1636|5end_5-formyltetrahydrofolate_cyclo-ligase_family_protein_1622568..1622798_POSITIVE 240 65 21 206 162 smit:SMT_1331|5end_hypothetical_protein_1306236..1306466_NEGATIVE 239 80 32 57 9 smit:SMT_1425|5end_hypothetical_protein_1410805..1411035_NEGATIVE 238 70 25 71 27 smit:SMT_261|5end_ImpB/MucB/SamB_family_protein_200160..200390_POSITIVE 237 69 26 68 22 smit:SMT_2082|5end_ATP-dependent_nuclease_subunit_B_1982286..1982516_NEGATIVE 236 89 46 173 121 smit:SMT_999|5end_hypothetical_protein_predicted_by_Glimmer/Critica_941642..941872_NEGATIVE 236 68 25 159 120 smit:SMT_183|5end_30S_ribosomal_protein_S14_121014..121244_POSITIVE 234 100 57 213 159 smit:SMT_1098|5end_hypothetical_protein_1041992..1042222_NEGATIVE 233 70 21 57 13 smit:SMT_366|5end_hypothetical_protein_302085..302315_POSITIVE 231 69 21 98 42 smit:SMT_1469|5end_GTP_pyrophosphokinase_1450582..1450812_POSITIVE 229 85 48 217 178 smit:SMT_1957|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1890645..1890875_POSITIVE 221 127 83 219 169 smit:SMT_235|5end_hypothetical_protein_174081..174311_POSITIVE 220 58 22 217 179 smit:SMT_603|5end_hypothetical_protein_517961..518191_POSITIVE 219 38 2 197 160 smit:SMT_1526|5end_K07720_two-component_system,_response_regulator_YesN_1510554..1510784_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 282 50 6 83 24 smit:SMT_357|3end_tRNA_(guanine-N7-)-methyltransferase_293900..294050_POSITIVE 244 53 12 49 15 smit:SMT_1790|3end_hypothetical_protein_1765915..1766065_POSITIVE 240 70 22 141 95 smit:SMT_1604|3end_K05833_putative_ABC_transport_system_ATP-binding_protein_1595163..1595313_POSITIVE 238 70 25 67 23 smit:SMT_260|3end_phage_transcriptional_repressor_200236..200386_POSITIVE 236 68 25 141 102 smit:SMT_182|3end_50S_ribosomal_protein_L5_121076..121226_POSITIVE 220 58 22 140 102 smit:SMT_602|3end_5'-methylthioadenosine_nucleosidase_/_S-adenosylhomocysteine_nucleosidase_517964..518114_POSITIVE 219 102 69 137 103 smit:SMT_2003|3end_serine_protease_1924693..1924843_NEGATIVE 218 47 14 132 92 smit:SMT_567|3end_conserved_hypothetical_protein_485752..485902_POSITIVE 215 38 1 70 24 smit:SMT_1532|3end_hypothetical_protein_1515994..1516144_NEGATIVE 214 57 13 56 19 smit:SMT_1946|3end_sucrose-6-phosphate_hydrolase_1881205..1881355_POSITIVE 212 60 13 105 61 smit:SMT_1321|3end_K02074_zinc/manganese_transport_system_ATP-binding_protein_1291458..1291608_POSITIVE 210 24 1 50 26 smit:SMT_1125|3end_K08987_putative_membrane_protein_1060975..1061125_NEGATIVE 209 52 11 54 21 smit:SMT_900|3end_5-methyltetrahydropteroyltriglutamate--_homocysteine_methyltransferase_848367..848517_NEGATIVE 209 70 27 51 7 smit:SMT_785|3end_hypothetical_protein_696307..696457_NEGATIVE 209 52 12 136 97 smit:SMT_386|3end_branched-chain_amino_acid_transport_system_II_carrier_protein_321002..321152_POSITIVE 207 90 55 93 57 smit:SMT_1251|3end_hypothetical_protein_1211329..1211479_NEGATIVE 206 44 13 60 30 smit:SMT_779|3end_ribonuclease_BN,_putative_687883..688033_NEGATIVE 205 149 107 149 105 smit:SMT_917|3end_hydroxymethylglutaryl-CoA_synthase_870004..870154_NEGATIVE 205 126 96 142 113 smit:SMT_266|3end_S-adenosyl-methyltransferase_205220..205370_POSITIVE 203 58 15 140 94 smit:SMT_1719|3end_DNA_mismatch_repair_protein_1704893..1705043_NEGATIVE