Origin IGS: atttaatccaaataaaacaactcatgctgagactgaattttaagcctaaaatgctaatcattcgctaaaaagcagaactcacttcgttcaaacaactgctttttttgatgctcattagcatagcatttaacggcaaaattcgtcaattcgcagttcgtttgttttatttggtatttaataaggagaaaa .........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 ttttctccttattaaataccaaataaaacaaacgaactgcgaattgacgaattttgccgttaaatgctatgctaatgagcatcaaaaaaagcagttgtttgaacgaagtgagttctgctttttagcgaatgattagcattttaggcttaaaattcagtctcagcatgagttgttttatttggattaaat Mask Tandem Repeat Region ================================================ atttaatccaaataaaacaactcatgctgagactgaattttaagcctaaaatgctaatcattcgctaaaaagcagaactcacttcgttcaaacaactgctttttttgatgctcattagcatagcatttaacggcaaaattcgtcaattcgcagttcgtttgttttatttggtatttaataaggagaaaa Find is-nt database================================================ Query_seq: FN0071:FN0072|FN0071:FN0072:GTP cyclohydrolase I:2-amino-4-hydroxy-6- hydroxymethyldihydropteridine pyrophosphokinase:->->:711666..711854 189 atttaatccaaataaaacaactcatgctgagactgaattttaagcctaaaatgctaatcattcgctaaaaagcagaactcacttcgttcaaacaactgctttttttgatgctcattagcatagcatttaacggcaaaattcgtcaattcgcagttcgtttgttttatttggtatttaataaggagaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0071:FN0072|FN0071:FN0072:GTP cyclohydrolase I:2-amino-4-hydroxy-6- hydroxymethyldihydropteridine pyrophosphokinase:->->:711666..711854 189 atttaatccaaataaaacaactcatgctgagactgaattttaagcctaaaatgctaatcattcgctaaaaagcagaactcacttcgttcaaacaactgctttttttgatgctcattagcatagcatttaacggcaaaattcgtcaattcgcagttcgtttgttttatttggtatttaataaggagaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0071:FN0072|FN0071:FN0072:GTP cyclohydrolase I:2-amino-4-hydroxy-6- hydroxymethyldihydropteridine pyrophosphokinase:->->:711666..711854 189 atttaatccaaataaaacaactcatgctgagactgaattttaagcctaaaatgctaatcattcgctaaaaagcagaactcacttcgttcaaacaactgctttttttgatgctcattagcatagcatttaacggcaaaattcgtcaattcgcagttcgtttgttttatttggtatttaataaggagaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atttaatccaaataaaacaactcatgctgagactgaattttaagcctaaaatgctaatcattcgctaaaaagcagaactcacttcgttcaaacaactgctttttttgatgctcattagcatagcatttaacggcaaaattcgtcaattcgcagttcgtttgttttatttggtatttaataaggagaaaa Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 96 End: 188 ............................................................................................... M L F L M L I S I A F N G K I R Q F A V R L F Y L V F N K E K . Protein_Len: 41 Strand: - Start: 57 End: 179 ........................................................ D N A L F C F E S R E F L Q K K Q H E N A Y C K V A F N T L E C N T Q K I Q Y K M .......... atttaatccaaataaaacaactcatgctgagactgaattttaagcctaaaatgctaatcattcgctaaaaagcagaactcacttcgttcaaacaactgctttttttgatgctcattagcatagcatttaacggcaaaattcgtcaattcgcagttcgtttgttttatttggtatttaataaggagaaaa 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================================================ atttaatccaaataaaacaactcatgctgagactgaattttaagcctaaaatgctaatcattcgctaaaaagcagaactcacttcgttcaaacaactgctttttttgatgctcattagcatagcatttaacggcaaaattcgtcaattcgcagttcgtttgttttatttggtatttaataaggagaaaa Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 71 HP_score: -5.4 Tail_Score: -4.5493 Start: 21 End: 31 Full_Region: ggcttaaaattcagt ctca gca tgag ttgttttatttggat ....................ctcagcatgag.............................................................................................................................................................. Find igs database================================================ Query_seq: FN0071:FN0072|FN0071:FN0072:GTP cyclohydrolase I:2-amino-4-hydroxy-6- hydroxymethyldihydropteridine pyrophosphokinase:->->:711666..711854 189 atttaatccaaataaaacaactcatgctgagactgaattttaagcctaaaatgctaatcattcgctaaaaagcagaactcacttcgttcaaacaactgctttttttgatgctcattagcatagcatttaacggcaaaattcgtcaattcgcagttcgtttgttttatttggtatttaataaggagaaaa Intra-Species Hit: Count: 2 Min: 1 Max: 189 Len: 189 Subject: NC_003454_FN0071_FN0072|GTP cyclohydrolase I:2-amino-4-hydroxy-6- hydroxymethyldihydropteridine pyrophosphokinase|POSITIVE:POSITIVE|[711666,711854]|189 HSP 1 e-value: 1.0E-90 bit: 333.0 Len: 189 Query Start:1 Query End:189 Subject Strand: POSITIVE Subject Start: 1 Subject End: 189 atttaatccaaataaaacaactcatgctgagactgaattttaagcctaaaatgctaatcattcgctaaaaagcagaactcacttcgttcaaacaactgcnnnnnnngatgctcattagcatagcatttaacggcaaaattcgtcaattcgcagttcgtttgttttatttggtatttaataaggagaaaa atttaatccaaataaaacaactcatgctgagactgaattttaagcctaaaatgctaatcattcgctaaaaagcagaactcacttcgttcaaacaactgctttttttgatgctcattagcatagcatttaacggcaaaattcgtcaattcgcagttcgtttgttttatttggtatttaataaggagaaaa Subject: NC_003454_FN0579_FN0580|Hypothetical cytosolic protein:Penicillin-binding protein|POSITIVE:POSITIVE|[1234779,1235069]|291 HSP 1 e-value: 8.0E-15 bit: 81.8 Len: 57 Query Start:110 Query End:166 Subject Strand: NEGATIVE Subject Start: 29 Subject End: 85 .............................................................................................................gctcattagcatagcatttaacggcaaaattcgtcaattcgcagttcgtttgtttta....................... .............................................................................................................gctcactagcatagcatttaacgacaaaattcgtcaattcacagttcgtttatttta....................... HSP 2 e-value: 3.0E-14 bit: 79.8 Len: 56 Query Start:25 Query End:80 Subject Strand: NEGATIVE Subject Start: 122 Subject End: 177 ........................tgctgagactgaattttaagcctaaaatgctaatcattcgctaaaaagcagaactc............................................................................................................. ........................tgctgagactgaattttaagtctaaaatgctaatcgttctctaaaaagcaaaactc............................................................................................................. Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUUAAUCCAAAUAAAACAACUCAUGCUGAGACUGAAUUUUAAGCCUAAAAUGCUAAUCAUUCGCUAAAAAGCAGAACUCACUUCGUUCAAACAACUGCUUUUUUUGAUGCUCAUUAGCAUAGCAUUUAACGGCAAAAUUCGUCAAUUCGCAGUUCGUUUGUUUUAUUUGGUAUUUAAUAAGGAGAAAA ..((((.(((((((((((((..(..((((.(((.(((((((..(((..((((((((.....(((..(((((((((....................))))))))).))).(((....))).))))))))...)))))))))))))......))))..).)))))))))))))...))))........... (-46.65) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUCUCCUUAUUAAAUACCAAAUAAAACAAACGAACUGCGAAUUGACGAAUUUUGCCGUUAAAUGCUAUGCUAAUGAGCAUCAAAAAAAGCAGUUGUUUGAACGAAGUGAGUUCUGCUUUUUAGCGAAUGAUUAGCAUUUUAGGCUUAAAAUUCAGUCUCAGCAUGAGUUGUUUUAUUUGGAUUAAAU ..................(((((((((((((......(((.....(((((((((((((...((((((((((((((.((((........((((....))))((((.......)))).)))).))))))......))))))))..)))..))))))).)))...)))....)))))))))))))....... (-52.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 492 80 31 211 162 NC_003454:FN2093|5end_General_secretion_pathway_protein_G_603551..603781_NEGATIVE 379 98 56 109 58 NC_003454:FN1507|5end_riboflavin_synthase_subunit_alpha_12073..12303_POSITIVE 350 50 13 231 193 NC_003454:FN0580|5end_Penicillin-binding_protein_1234930..1235160_POSITIVE 273 116 73 228 182 NC_003454:FN0714|5end_NADH_oxidase_1372062..1372292_POSITIVE 265 122 95 92 60 NC_003454:FN1675|5end_Transposase_172478..172708_NEGATIVE 250 170 122 229 175 NC_003454:FN2122|5end_Phenylalanyl-tRNA_synthetase_beta_chain_632194..632424_NEGATIVE 241 120 71 219 156 NC_003454:FN0504|5end_Arginine_permease_1155009..1155239_NEGATIVE 238 59 17 54 8 NC_003454:FN0127|5end_Fe-S_oxidoreductase_756312..756542_NEGATIVE 232 120 77 68 29 NC_003454:FN1377|5end_CITG_protein_2025212..2025442_POSITIVE 232 159 111 92 56 NC_003454:FN1591|5end_RNFB-related_protein_103135..103365_NEGATIVE 231 68 23 82 42 NC_003454:FN0252|5end_hypothetical_protein_874193..874423_POSITIVE 231 68 23 82 42 NC_003454:FN2060|5end_hypothetical_protein_573649..573879_NEGATIVE 231 68 23 82 42 NC_003454:FN2049|5end_hypothetical_protein_559573..559803_NEGATIVE 226 119 71 124 74 NC_003454:FN0076|5end_Ethanolamine_two-component_response_regulator_714126..714356_POSITIVE 226 170 121 78 26 NC_003454:FN1937|5end_hypothetical_protein_437932..438162_NEGATIVE 217 155 112 74 24 NC_003454:FN1931|5end_Protease_432421..432651_NEGATIVE 211 60 16 71 17 NC_003454:FN1291|5end_hypothetical_protein_1949207..1949437_NEGATIVE 208 160 117 107 68 NC_003454:FN1815|5end_Transposase_295961..296191_NEGATIVE 205 134 93 43 7 NC_003454:FN1825|5end_hypothetical_protein_313994..314224_POSITIVE 202 159 118 179 120 NC_003454:FN1749|5end_Pyruvate-flavodoxin_oxidoreductase_247461..247691_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 790 160 111 56 7 NC_003454:FN0579|3end_Hypothetical_cytosolic_protein_1234718..1234868_POSITIVE 576 160 111 49 1 NC_003454:FN2094|3end_General_secretion_pathway_protein_F_603799..603949_NEGATIVE 257 170 121 82 35 NC_003454:FN0071|3end_GTP_cyclohydrolase_I_711605..711755_POSITIVE 244 112 72 83 39 NC_003454:FN0014|3end_Transporter_652839..652989_POSITIVE 232 120 77 81 42 NC_003454:FN1376|3end_oxaloacetate_decarboxylase_2025305..2025455_POSITIVE 232 159 111 65 29 NC_003454:FN1592|3end_Na(+)-translocating_NADH-quinone_reductase_subunit_D_103162..103312_NEGATIVE 231 68 23 65 25 NC_003454:FN0251|3end_Hypothetical_membrane-spanning_Protein_874256..874406_POSITIVE 231 68 23 65 25 NC_003454:FN2061|3end_Hypothetical_membrane-spanning_protein_573666..573816_NEGATIVE 231 68 23 65 25 NC_003454:FN2050|3end_Hypothetical_membrane-spanning_protein_559590..559740_NEGATIVE 226 119 71 134 84 NC_003454:FN0075|3end_Ethanolamine_utilization_protein_eutP_714216..714366_POSITIVE 226 170 121 61 9 NC_003454:FN1938|3end_hypothetical_protein_437949..438099_NEGATIVE 217 155 112 77 27 NC_003454:FN1932|3end_Dephospho-CoA_kinase_432418..432568_NEGATIVE 216 160 111 57 1 NC_003454:FN1260|3end_Sensory_Transduction_Protein_Kinase_1915863..1916013_NEGATIVE 208 125 97 148 118 NC_003454:FN2067|3end_Thiol:disulfide_interchange_protein_tlpA_576884..577034_NEGATIVE 198 130 85 53 1 NC_003454:FN1506|3end_5-amino-6-(5-phosphoribosylamino)uracil_reductase_12060..12210_POSITIVE 186 88 41 126 77 NC_003454:FN0121|3end_hypothetical_protein_752908..753058_NEGATIVE 185 166 139 127 103 NC_003454:FN0547|3end_recombinase_A_1200868..1201018_POSITIVE 184 48 19 135 107 NC_003454:FN1426|3end_Serine_protease_2092577..2092727_NEGATIVE 184 48 19 135 107 NC_003454:FN1950|3end_Serine_protease_455063..455213_NEGATIVE 183 120 73 65 11 NC_003454:FN0987|3end_Amidophosphoribosyltransferase_1638864..1639014_NEGATIVE