Origin IGS: aattttcgagggataagcgtacaaatttaagactttggcctgatgaataccagtaaacgctttatttcctcgctgaaagctcgtagagtataataaaaagagtgtgccgaagtgctcacttcacactccggcacacccccccgtataccctttaggaaagggtgagaaatagc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gctatttctcaccctttcctaaagggtatacgggggggtgtgccggagtgtgaagtgagcacttcggcacactctttttattatactctacgagctttcagcgaggaaataaagcgtttactggtattcatcaggccaaagtcttaaatttgtacgcttatccctcgaaaatt Mask Tandem Repeat Region ================================================ aattttcgagggataagcgtacaaatttaagactttggcctgatgaataccagtaaacgctttatttcctcgctgaaagctcgtagagtataataaaaagagtgtgccgaagtgctcacttcacactccggcacacccccccgtataccctttaggaaagggtgagaaatagc Find is-nt database================================================ Query_seq: PG0768:PG0769|PG0768:PG0769:hypothetical protein:fibronectin type III domain protein:<-<-:822472..822644 173 aattttcgagggataagcgtacaaatttaagactttggcctgatgaataccagtaaacgctttatttcctcgctgaaagctcgtagagtataataaaaagagtgtgccgaagtgctcacttcacactccggcacacccccccgtataccctttaggaaagggtgagaaatagc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0768:PG0769|PG0768:PG0769:hypothetical protein:fibronectin type III domain protein:<-<-:822472..822644 173 aattttcgagggataagcgtacaaatttaagactttggcctgatgaataccagtaaacgctttatttcctcgctgaaagctcgtagagtataataaaaagagtgtgccgaagtgctcacttcacactccggcacacccccccgtataccctttaggaaagggtgagaaatagc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0768:PG0769|PG0768:PG0769:hypothetical protein:fibronectin type III domain protein:<-<-:822472..822644 173 aattttcgagggataagcgtacaaatttaagactttggcctgatgaataccagtaaacgctttatttcctcgctgaaagctcgtagagtataataaaaagagtgtgccgaagtgctcacttcacactccggcacacccccccgtataccctttaggaaagggtgagaaatagc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aattttcgagggataagcgtacaaatttaagactttggcctgatgaataccagtaaacgctttatttcctcgctgaaagctcgtagagtataataaaaagagtgtgccgaagtgctcacttcacactccggcacacccccccgtataccctttaggaaagggtgagaaatagc Predict ORF larger than 30AA ================================================ Protein_Len: 47 Strand: - Start: 30 End: 170 ............................. S K P R I F V L L R K I E E S F A R L T Y Y F S H A S T S V E C E P V G G R I G K L F P H S M ... aattttcgagggataagcgtacaaatttaagactttggcctgatgaataccagtaaacgctttatttcctcgctgaaagctcgtagagtataataaaaagagtgtgccgaagtgctcacttcacactccggcacacccccccgtataccctttaggaaagggtgagaaatagc 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================================================ aattttcgagggataagcgtacaaatttaagactttggcctgatgaataccagtaaacgctttatttcctcgctgaaagctcgtagagtataataaaaagagtgtgccgaagtgctcacttcacactccggcacacccccccgtataccctttaggaaagggtgagaaatagc Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -15.4 Tail_Score: -5.2291 Start: 100 End: 138 Full_Region: aaagggtatacgggg gggtgtgccggagtgt gaagtga gcacttcggcacactc tttttattatactct ...................................................................................................gggtgtgccggagtgtgaagtgagcacttcggcacactc................................... Find igs database================================================ Query_seq: PG0768:PG0769|PG0768:PG0769:hypothetical protein:fibronectin type III domain protein:<-<-:822472..822644 173 aattttcgagggataagcgtacaaatttaagactttggcctgatgaataccagtaaacgctttatttcctcgctgaaagctcgtagagtataataaaaagagtgtgccgaagtgctcacttcacactccggcacacccccccgtataccctttaggaaagggtgagaaatagc Intra-Species Hit: Count: 1 Min: 1 Max: 173 Len: 173 Subject: NC_002950_PG0768_PG0769|hypothetical protein:fibronectin type III domain protein|NEGATIVE:NEGATIVE|[822472,822644]|173 HSP 1 e-value: 4.0E-81 bit: 301.0 Len: 173 Query Start:1 Query End:173 Subject Strand: POSITIVE Subject Start: 1 Subject End: 173 aattttcgagggataagcgtacaaatttaagactttggcctgatgaataccagtaaacgctttatttcctcgctgaaagctcgtagagtataataaaaagagtgtgccgaagtgctcacttcacactccggcacannnnnnngtataccctttaggaaagggtgagaaatagc aattttcgagggataagcgtacaaatttaagactttggcctgatgaataccagtaaacgctttatttcctcgctgaaagctcgtagagtataataaaaagagtgtgccgaagtgctcacttcacactccggcacacccccccgtataccctttaggaaagggtgagaaatagc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUUUCGAGGGAUAAGCGUACAAAUUUAAGACUUUGGCCUGAUGAAUACCAGUAAACGCUUUAUUUCCUCGCUGAAAGCUCGUAGAGUAUAAUAAAAAGAGUGUGCCGAAGUGCUCACUUCACACUCCGGCACACCCCCCCGUAUACCCUUUAGGAAAGGGUGAGAAAUAGC ..((..(((((((.((((((.((((........))))..(((........)))...))))))...)))))))..))..((((...))))............((((((((.((((.........)))).)))))))).........(((((((.....)))))))......... (-47.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCUAUUUCUCACCCUUUCCUAAAGGGUAUACGGGGGGGUGUGCCGGAGUGUGAAGUGAGCACUUCGGCACACUCUUUUUAUUAUACUCUACGAGCUUUCAGCGAGGAAAUAAAGCGUUUACUGGUAUUCAUCAGGCCAAAGUCUUAAAUUUGUACGCUUAUCCCUCGAAAAUU (((.......((((((.....))))))....((((((((((((((((((((.......))))))))))))))))))))..............)))......(((((.....((((((...(((((....)))))..((((........)))).))))))...)))))...... (-58.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1005 140 91 231 182 NC_002950:PG0768|5end_hypothetical_protein_822381..822611_NEGATIVE 400 143 101 187 140 NC_002950:PG1116|5end_methylenetetrahydrofolate_dehydrogenase/methenyltetrahydrofolate_cyclohydrolase_1188931..1189161_POSITIVE 350 150 102 125 82 NC_002950:PG0607|5end_hypothetical_protein_662552..662782_POSITIVE 340 150 107 216 154 NC_002950:PG0987|5end_hypothetical_protein_1048002..1048232_POSITIVE 338 150 101 182 110 NC_002950:PG1659|5end_hypothetical_protein_1743747..1743977_NEGATIVE 333 149 104 122 73 NC_002950:PG0425|5end_esterase,_putative_463989..464219_NEGATIVE 332 168 124 81 29 NC_002950:PG0658|5end_phosphatase,_YrbI_family_708319..708549_NEGATIVE 331 143 103 72 33 NC_002950:PG1651|5end_TPR_domain_protein_1730326..1730556_POSITIVE 329 137 99 183 148 NC_002950:PG1793|5end_1,4-alpha-glucan_branching_enzyme_1883922..1884152_POSITIVE 326 149 101 224 175 NC_002950:PG0226|5end_transglutaminase-related_protein_262531..262761_NEGATIVE 325 168 127 132 83 NC_002950:PG1441|5end_lysozyme-related_protein_1527525..1527755_NEGATIVE 324 149 108 55 1 NC_002950:PG1162|5end_ATP:cob(I)alamin_adenosyltransferase,_putative_1242039..1242269_NEGATIVE 323 133 99 151 119 NC_002950:PG1963|5end_Sua5/YciO/YrdC/YwlC_family_protein_2052338..2052568_POSITIVE 323 149 104 218 165 NC_002950:PG0744|5end_RNA_methyltransferase,_TrmH_family_791897..792127_NEGATIVE 319 50 2 195 154 NC_002950:PG0776|5end_electron_transfer_flavoprotein,_alpha_subunit_830184..830414_NEGATIVE 319 149 102 63 21 NC_002950:PG0123|5end_hypothetical_protein_144987..145217_POSITIVE 314 157 113 202 154 NC_002950:PG1285|5end_glucosamine-6-phosphate_deaminase_1362894..1363124_POSITIVE 314 143 107 220 181 NC_002950:PG0203|5end_hypothetical_protein_240211..240441_NEGATIVE 311 150 107 217 154 NC_002950:PG1163|5end_cobyrinic_acid_a,c-diamide_synthase_1243381..1243611_NEGATIVE 310 140 92 197 158 NC_002950:PG0677|5end_saccharopine_dehydrogenase_727653..727883_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 400 143 101 63 16 NC_002950:PG1115|3end_signal_recognition_particle_protein_1188887..1189037_POSITIVE 384 150 103 114 57 NC_002950:PG0555|3end_DNA-binding_protein,_histone-like_family_611716..611866_NEGATIVE 333 137 95 62 17 NC_002950:PG0138|3end_malonyl_CoA-acyl_carrier_protein_transacylase_161634..161784_POSITIVE 332 168 124 64 12 NC_002950:PG0659|3end_hypothetical_protein_708336..708486_NEGATIVE 325 168 127 55 6 NC_002950:PG1442|3end_hypothetical_protein_1527602..1527752_NEGATIVE 323 149 104 133 80 NC_002950:PG0745|3end_lactoylglutathione_lyase,_putative_791982..792132_NEGATIVE 310 166 130 54 18 NC_002950:PG0412|3end_DNA_mismatch_repair_protein_MutL_449584..449734_NEGATIVE 310 149 103 97 48 NC_002950:PG0400|3end_hypothetical_protein_436245..436395_NEGATIVE 306 150 102 150 101 NC_002950:PG2141|3end_3-oxoacyl-(acyl_carrier_protein)_synthase_2247586..2247736_POSITIVE 305 80 34 138 94 NC_002950:PG1471|3end_hypothetical_protein_1549078..1549228_POSITIVE 300 137 101 112 79 NC_002950:PG2053|3end_dithiobiotin_synthetase_2151267..2151417_POSITIVE 299 137 99 37 6 NC_002950:PG1297|3end_ribosomal_protein_S1_1377710..1377860_POSITIVE 299 143 101 108 58 NC_002950:PG0132|3end_hypothetical_protein_153054..153204_POSITIVE 298 138 97 67 30 NC_002950:PG0506|3end_arginine-specific_cysteine_proteinase_547625..547775_POSITIVE 297 169 121 148 101 NC_002950:PG1613|3end_glyoxalase_family_protein_1693164..1693314_NEGATIVE 297 110 70 72 34 NC_002950:PG0648|3end_iron_compound_ABC_transporter,_periplasmic_iron_compound-binding_protein,_putative_700110..700260_NEGATIVE 295 114 71 73 31 NC_002950:PG1913|3end_30S_ribosomal_protein_S11_2012540..2012690_NEGATIVE 294 146 105 116 64 NC_002950:PG2086|3end_hypothetical_protein_2187070..2187220_POSITIVE 294 156 115 147 98 NC_002950:PG0564|3end_hypothetical_protein_621416..621566_NEGATIVE 292 129 92 59 17 NC_002950:PG0535|3end_hypothetical_protein_585956..586106_NEGATIVE