Origin IGS: cgggggacgctgtttcatcagcagcaatagctgaaaaagaaaagaggatatgccggcactcggtgcatggagcatatcctcttttcctatctgcttccattccgaacggaagagatagtggggggtggtggga .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tcccaccaccccccactatctcttccgttcggaatggaagcagataggaaaagaggatatgctccatgcaccgagtgccggcatatcctcttttctttttcagctattgctgctgatgaaacagcgtcccccg Mask Tandem Repeat Region ================================================ cgggggacgctgtttcatcagcagcaatagctgaaaaagaaaagaggatatgccggcactcggtgcatggagcatatcctcttttcctatctgcttccattccgaacggaagagatagtggggggtggtggga Find is-nt database================================================ Query_seq: PG1633:PG1634|PG1633:PG1634:galactokinase:hypothetical protein:-><-:1714680..1714812 133 cgggggacgctgtttcatcagcagcaatagctgaaaaagaaaagaggatatgccggcactcggtgcatggagcatatcctcttttcctatctgcttccattccgaacggaagagatagtggggggtggtggga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1633:PG1634|PG1633:PG1634:galactokinase:hypothetical protein:-><-:1714680..1714812 133 cgggggacgctgtttcatcagcagcaatagctgaaaaagaaaagaggatatgccggcactcggtgcatggagcatatcctcttttcctatctgcttccattccgaacggaagagatagtggggggtggtggga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1633:PG1634|PG1633:PG1634:galactokinase:hypothetical protein:-><-:1714680..1714812 133 cgggggacgctgtttcatcagcagcaatagctgaaaaagaaaagaggatatgccggcactcggtgcatggagcatatcctcttttcctatctgcttccattccgaacggaagagatagtggggggtggtggga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cgggggacgctgtttcatcagcagcaatagctgaaaaagaaaagaggatatgccggcactcggtgcatggagcatatcctcttttcctatctgcttccattccgaacggaagagatagtggggggtggtggga Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 27 End: 131 .......................... M A E K E K R I C R H S V H G A Y P L F L S A S I P N G R D S G G W W .. Protein_Len: 34 Strand: + Start: 31 End: 132 .............................. M K K K R G Y A G T R C M E H I L F S Y L L P F R T E E I V G G G G . Protein_Len: 33 Strand: - Start: 2 End: 100 . P S A T E D A A I A S F S F L I H R C E T C P A Y G R K R D A E M ................................. Protein_Len: 30 Strand: - Start: 1 End: 90 P P R Q K M L L L L Q F L F S S I G A S P A H L M D E K G M ........................................... cgggggacgctgtttcatcagcagcaatagctgaaaaagaaaagaggatatgccggcactcggtgcatggagcatatcctcttttcctatctgcttccattccgaacggaagagatagtggggggtggtggga 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================================================ cgggggacgctgtttcatcagcagcaatagctgaaaaagaaaagaggatatgccggcactcggtgcatggagcatatcctcttttcctatctgcttccattccgaacggaagagatagtggggggtggtggga Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -10.8 Tail_Score: -4.66953 Start: 39 End: 86 Full_Region: aatggaagcagatag gaaaagaggatatgctccatgc acc gagtgccggcatatcctcttttc tttttcagctattgc ......................................gaaaagaggatatgctccatgcaccgagtgccggcatatcctcttttc............................................... TransTerm Strand: - Conf: 84 HP_score: -4.9 Tail_Score: -5.27023 Start: 44 End: 81 Full_Region: aagcagataggaaaa gaggatatgctccatgc acc gagtgccggcatatcctc ttttctttttcagct ...........................................gaggatatgctccatgcaccgagtgccggcatatcctc.................................................... Find igs database================================================ Query_seq: PG1633:PG1634|PG1633:PG1634:galactokinase:hypothetical protein:-><-:1714680..1714812 133 cgggggacgctgtttcatcagcagcaatagctgaaaaagaaaagaggatatgccggcactcggtgcatggagcatatcctcttttcctatctgcttccattccgaacggaagagatagtggggggtggtggga Intra-Species Hit: Count: 1 Min: 1 Max: 133 Len: 133 Subject: NC_002950_PG1633_PG1634|galactokinase:hypothetical protein|POSITIVE:NEGATIVE|[1714680,1714812]|133 HSP 1 e-value: 7.0E-70 bit: 264.0 Len: 133 Query Start:1 Query End:133 Subject Strand: POSITIVE Subject Start: 1 Subject End: 133 cgggggacgctgtttcatcagcagcaatagctgaaaaagaaaagaggatatgccggcactcggtgcatggagcatatcctcttttcctatctgcttccattccgaacggaagagatagtggggggtggtggga cgggggacgctgtttcatcagcagcaatagctgaaaaagaaaagaggatatgccggcactcggtgcatggagcatatcctcttttcctatctgcttccattccgaacggaagagatagtggggggtggtggga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGGGGGACGCUGUUUCAUCAGCAGCAAUAGCUGAAAAAGAAAAGAGGAUAUGCCGGCACUCGGUGCAUGGAGCAUAUCCUCUUUUCCUAUCUGCUUCCAUUCCGAACGGAAGAGAUAGUGGGGGGUGGUGGGA .......(((..(..(.(((((.......)))))....((((((((((((((((.((((...))))...).)))))))))))))))((((((.(((((.........)))))))))))...)..)..)))... (-53.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCCCACCACCCCCCACUAUCUCUUCCGUUCGGAAUGGAAGCAGAUAGGAAAAGAGGAUAUGCUCCAUGCACCGAGUGCCGGCAUAUCCUCUUUUCUUUUUCAGCUAUUGCUGCUGAUGAAACAGCGUCCCCCG ...............(((((((((((((.....))))))).))))))((((((((((((((((....((((...)))).))))))))))))))))......(((....)))((((......))))........ (-48.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 379 125 81 230 175 NC_002950:PG1719|5end_ABC_transporter,_ATP-binding_protein,_MsbA_family_1806749..1806979_POSITIVE 370 100 51 85 36 NC_002950:PG2114|5end_hypothetical_protein_2224158..2224388_NEGATIVE 369 129 81 200 141 NC_002950:PG1093|5end_hypothetical_protein_1158121..1158351_POSITIVE 363 130 91 135 94 NC_002950:PG0199|5end_TatD_family_protein_238137..238367_NEGATIVE 362 87 44 225 163 NC_002950:PG1701|5end_glutamine_amidotransferase,_class_II/dipeptidase_1787953..1788183_NEGATIVE 362 75 37 189 143 NC_002950:PG0671|5end_iron_compound_ABC_transporter,_permease_protein_721888..722118_POSITIVE 358 126 82 187 137 NC_002950:PG0805|5end_prolipoprotein_diacylglyceryl_transferase_862650..862880_NEGATIVE 357 120 78 117 64 NC_002950:PG1619|5end_biotin_synthesis_protein_BioC,_putative_1698568..1698798_POSITIVE 348 99 55 209 150 NC_002950:PG1296|5end_hypothetical_protein_1374794..1375024_POSITIVE 347 100 52 64 4 NC_002950:PG1693|5end_HesA/MoeB/ThiF_family_protein_1777919..1778149_NEGATIVE 341 130 86 122 81 NC_002950:PG0737|5end_hypothetical_protein_786188..786418_POSITIVE 341 99 51 207 151 NC_002950:PG0703|5end_cobalamin_(5'-phosphate)_synthase,_putative_758144..758374_POSITIVE 336 109 61 47 9 NC_002950:PG0790|5end_GTP-binding_protein_Obg_842583..842813_NEGATIVE 336 90 43 95 33 NC_002950:PG0190|5end_undecaprenyl_diphosphate_synthase_226076..226306_POSITIVE 334 99 53 185 132 NC_002950:PG2126|5end_conserved_hypothetical_protein_TIGR00044_2233112..2233342_NEGATIVE 334 127 83 229 175 NC_002950:PG1671|5end_hypothetical_protein_1757658..1757888_NEGATIVE 334 127 83 229 175 NC_002950:PG1266|5end_hypothetical_protein_1346987..1347217_NEGATIVE 334 130 87 70 27 NC_002950:PG0446|5end_thiF_protein_486599..486829_POSITIVE 334 127 83 229 175 NC_002950:PG0101|5end_hypothetical_protein_119198..119428_POSITIVE 333 129 81 157 122 NC_002950:PG0328|5end_imidazolonepropionase_363426..363656_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 491 86 41 52 7 NC_002950:PG1633|3end_galactokinase_1714619..1714769_POSITIVE 369 129 81 91 32 NC_002950:PG1091|3end_DHH_subfamily_1_protein_1158092..1158242_POSITIVE 368 100 52 67 1 NC_002950:PG1694|3end_hypothetical_protein_1777916..1778066_NEGATIVE 364 130 81 148 90 NC_002950:PG1886|3end_GTP-binding_protein_HflX_1983316..1983466_NEGATIVE 363 130 91 151 110 NC_002950:PG0200|3end_hypothetical_protein_238121..238271_NEGATIVE 359 98 51 147 83 NC_002950:PG1174|3end_thioesterase_family_protein_1253210..1253360_NEGATIVE 359 90 43 73 36 NC_002950:PG0308|3end_electron_transport_complex,_RnfABCDGE_type,_A_subunit_343827..343977_POSITIVE 358 126 82 150 100 NC_002950:PG0806|3end_oxidoreductase,_Gfo/Idh/MocA_family_862687..862837_NEGATIVE 357 120 78 138 85 NC_002950:PG1618|3end_hypothetical_protein_1698669..1698819_POSITIVE 341 130 86 147 106 NC_002950:PG0736|3end_ribonuclease_HII_786293..786443_POSITIVE 333 129 81 56 21 NC_002950:PG0329|3end_formiminotransferase-cyclodeaminase-related_protein_363527..363677_NEGATIVE 325 96 51 92 36 NC_002950:PG0357|3end_aspartate_carbamoyltransferase_catalytic_subunit_392434..392584_POSITIVE 324 87 42 68 13 NC_002950:PG1150|3end_hypothetical_protein_1233249..1233399_POSITIVE 322 98 51 111 48 NC_002950:PG0400|3end_hypothetical_protein_436245..436395_NEGATIVE 319 128 91 66 31 NC_002950:PG1608|3end_methylmalonyl-CoA_decarboxylase,_beta_subunit_1688685..1688835_NEGATIVE 318 88 46 112 71 NC_002950:PG0157|3end_regulatory_protein_RecX_180271..180421_POSITIVE 317 79 31 54 14 NC_002950:PG1458|3end_hypothetical_protein_1539682..1539832_POSITIVE 314 130 81 78 36 NC_002950:PG0332|3end_transcription_termination_factor_Rho_367675..367825_POSITIVE 313 130 81 139 83 NC_002950:PG1690|3end_Sua5/YciO/YrdC/YwlC_family_protein_1775171..1775321_NEGATIVE 313 109 61 41 2 NC_002950:PG0076|3end_N-acetylmuramoyl-L-alanine_amidase,_family_4_90392..90542_NEGATIVE