Origin IGS: gagagacagcaggacaacccgacggtctgctccttcgtctctcttgccgttaaagggtatcgatgtactttttttcagttctttgccggatcagcctgccagtacggagaggctctcatccgacagagagacgtccggtcatagctgccc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gggcagctatgaccggacgtctctctgtcggatgagagcctctccgtactggcaggctgatccggcaaagaactgaaaaaaagtacatcgataccctttaacggcaagagagacgaaggagcagaccgtcgggttgtcctgctgtctctc Mask Tandem Repeat Region ================================================ gagagacagcaggacaacccgacggtctgctccttcgtctctcttgccgttaaagggtatcgatgtactttttttcagttctttgccggatcagcctgccagtacggagaggctctcatccgacagagagacgtccggtcatagctgccc Find is-nt database================================================ Query_seq: PG2101:PG2102|PG2101:PG2102:hypothetical protein:immunoreactive 61 kDa antigen PG91:<-<-:2211364..2211513 150 gagagacagcaggacaacccgacggtctgctccttcgtctctcttgccgttaaagggtatcgatgtactttttttcagttctttgccggatcagcctgccagtacggagaggctctcatccgacagagagacgtccggtcatagctgccc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG2101:PG2102|PG2101:PG2102:hypothetical protein:immunoreactive 61 kDa antigen PG91:<-<-:2211364..2211513 150 gagagacagcaggacaacccgacggtctgctccttcgtctctcttgccgttaaagggtatcgatgtactttttttcagttctttgccggatcagcctgccagtacggagaggctctcatccgacagagagacgtccggtcatagctgccc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG2101:PG2102|PG2101:PG2102:hypothetical protein:immunoreactive 61 kDa antigen PG91:<-<-:2211364..2211513 150 gagagacagcaggacaacccgacggtctgctccttcgtctctcttgccgttaaagggtatcgatgtactttttttcagttctttgccggatcagcctgccagtacggagaggctctcatccgacagagagacgtccggtcatagctgccc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gagagacagcaggacaacccgacggtctgctccttcgtctctcttgccgttaaagggtatcgatgtactttttttcagttctttgccggatcagcctgccagtacggagaggctctcatccgacagagagacgtccggtcatagctgccc Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 44 End: 148 ........................................... M P L K G I D V L F F S S L P D Q P A S T E R L S S D R E T S G H S C .. gagagacagcaggacaacccgacggtctgctccttcgtctctcttgccgttaaagggtatcgatgtactttttttcagttctttgccggatcagcctgccagtacggagaggctctcatccgacagagagacgtccggtcatagctgccc 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================================================ gagagacagcaggacaacccgacggtctgctccttcgtctctcttgccgttaaagggtatcgatgtactttttttcagttctttgccggatcagcctgccagtacggagaggctctcatccgacagagagacgtccggtcatagctgccc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG2101:PG2102|PG2101:PG2102:hypothetical protein:immunoreactive 61 kDa antigen PG91:<-<-:2211364..2211513 150 gagagacagcaggacaacccgacggtctgctccttcgtctctcttgccgttaaagggtatcgatgtactttttttcagttctttgccggatcagcctgccagtacggagaggctctcatccgacagagagacgtccggtcatagctgccc Intra-Species Hit: Count: 1 Min: 1 Max: 150 Len: 150 Subject: NC_002950_PG2101_PG2102|hypothetical protein:immunoreactive 61 kDa antigen PG91|NEGATIVE:NEGATIVE|[2211364,2211513]|150 HSP 1 e-value: 2.0E-67 bit: 256.0 Len: 150 Query Start:1 Query End:150 Subject Strand: POSITIVE Subject Start: 1 Subject End: 150 gagagacagcaggacaacccgacggtctgctccttcgtctctcttgccgttaaagggtatcgatgtacnnnnnnncagttctttgccggatcagcctgccagtacggagaggctctcatccgacagagagacgtccggtcatagctgccc gagagacagcaggacaacccgacggtctgctccttcgtctctcttgccgttaaagggtatcgatgtactttttttcagttctttgccggatcagcctgccagtacggagaggctctcatccgacagagagacgtccggtcatagctgccc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAGAGACAGCAGGACAACCCGACGGUCUGCUCCUUCGUCUCUCUUGCCGUUAAAGGGUAUCGAUGUACUUUUUUUCAGUUCUUUGCCGGAUCAGCCUGCCAGUACGGAGAGGCUCUCAUCCGACAGAGAGACGUCCGGUCAUAGCUGCCC (((((((.(.(((((((((....))).)).)))).))))))))...........(((((.(.(((.(((.........(((((((.(((((.(((((.((.....))..)))))...))))).)))))))......)))))).).))))) (-50.26) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGGCAGCUAUGACCGGACGUCUCUCUGUCGGAUGAGAGCCUCUCCGUACUGGCAGGCUGAUCCGGCAAAGAACUGAAAAAAAGUACAUCGAUACCCUUUAACGGCAAGAGAGACGAAGGAGCAGACCGUCGGGUUGUCCUGCUGUCUCUC (((((((.(..(((.((((((((((((((((((.((.(((..........)))...)).)))))))...(.(((.......))).)....................)))))))))..((......)).)).)))..)...)))))))... (-51.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1134 140 91 231 182 NC_002950:PG2101|5end_hypothetical_protein_2211273..2211503_NEGATIVE 441 59 12 230 187 NC_002950:PG0877|5end_hypothetical_protein_941545..941775_NEGATIVE 438 126 83 192 145 NC_002950:PG0211|5end_cobalamin_biosynthesis_protein_CbiG/precorrin-4_C11-methyltransferase_247810..248040_NEGATIVE 428 138 91 173 115 NC_002950:PG0809|5end_hypothetical_protein_872014..872244_NEGATIVE 420 123 83 171 130 NC_002950:PG0559|5end_chlorohydrolase_family_protein_617496..617726_NEGATIVE 411 126 82 230 190 NC_002950:PG1496|5end_hypothetical_protein_1573342..1573572_POSITIVE 407 130 85 103 46 NC_002950:PG1849|5end_DNA_repair_protein_RecN_1949034..1949264_NEGATIVE 401 138 91 60 10 NC_002950:PG1594|5end_ComEC/Rec2-related_protein_1673587..1673817_NEGATIVE 401 149 101 178 138 NC_002950:PG0978|5end_shikimate_5-dehydrogenase_1040033..1040263_POSITIVE 400 50 3 217 146 NC_002950:PG2014|5end_CRISPR-associated_protein_Cas1_2105505..2105735_NEGATIVE 399 140 91 225 161 NC_002950:PG2110|5end_thiamine_biosynthesis_protein_ThiC_2221212..2221442_NEGATIVE 395 139 93 230 183 NC_002950:PG2155|5end_lipoprotein,_putative_2261862..2262092_NEGATIVE 394 148 111 185 142 NC_002950:PG1784|5end_hypothetical_protein_1872566..1872796_POSITIVE 379 63 27 42 1 NC_002950:PG2106|5end_hypothetical_protein_2214694..2214924_POSITIVE 376 58 17 52 14 NC_002950:PG2060|5end_thymidylate_synthase_2157573..2157803_POSITIVE 376 149 101 162 116 NC_002950:PG1967|5end_TPR_domain_protein_2057168..2057398_POSITIVE 376 139 91 73 21 NC_002950:PG1561|5end_dTDP-4-dehydrorhamnose_reductase_1640995..1641225_NEGATIVE 375 149 105 177 136 NC_002950:PG0307|5end_NADH-ubiquinone_oxidoreductase_342560..342790_POSITIVE 372 50 1 57 2 NC_002950:PG0084|5end_L-serine_dehydratase,_iron-sulfur-dependent,_single_chain_form_97832..98062_POSITIVE 372 140 92 48 10 NC_002950:PG0030|5end_cytidine_deaminase_35846..36076_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 407 130 85 88 31 NC_002950:PG1850|3end_hypothetical_protein_1949049..1949199_NEGATIVE 402 140 99 137 96 NC_002950:PG1544|3end_hypothetical_protein_1623442..1623592_POSITIVE 401 138 91 53 3 NC_002950:PG1595|3end_ribulose-phosphate_3-epimerase_1673594..1673744_NEGATIVE 382 138 96 62 3 NC_002950:PG1352|3end_hypothetical_protein_1432737..1432887_NEGATIVE 380 150 101 62 13 NC_002950:PG0495|3end_hypothetical_protein_536936..537086_POSITIVE 376 139 91 76 24 NC_002950:PG1562|3end_dTDP-4-dehydrorhamnose_3,5-epimerase_1640992..1641142_NEGATIVE 371 58 12 133 83 NC_002950:PG0330|3end_DNA-binding_protein,_histone-like_family_364478..364628_NEGATIVE 369 50 2 66 9 NC_002950:PG1195|3end_8-amino-7-oxononanoate_synthase_1275207..1275357_POSITIVE 367 130 81 77 16 NC_002950:PG0605|3end_hypothetical_protein_661165..661315_NEGATIVE 364 118 73 143 89 NC_002950:PG2209|3end_hypothetical_protein_2320674..2320824_NEGATIVE 364 122 81 56 20 NC_002950:PG0731|3end_hypothetical_protein_782020..782170_NEGATIVE 364 58 11 91 33 NC_002950:PG0328|3end_imidazolonepropionase_362155..362305_NEGATIVE 359 126 85 131 69 NC_002950:PG0723|3end_hypothetical_protein_775355..775505_POSITIVE 359 116 71 149 107 NC_002950:PG0395|3end_DNA-directed_RNA_polymerase_beta'_subunit_433305..433455_POSITIVE 358 148 111 140 80 NC_002950:PG1169|3end_hypothetical_protein_1249083..1249233_NEGATIVE 357 138 93 59 6 NC_002950:PG0703|3end_cobalamin_(5'-phosphate)_synthase,_putative_759006..759156_POSITIVE 357 140 93 101 49 NC_002950:PG0148|3end_sigma-54-dependent_transcriptional_regulator_169654..169804_NEGATIVE 356 139 92 82 38 NC_002950:PG1411|3end_potassium_uptake_protein_TrkA,_putative_1493481..1493631_NEGATIVE 352 47 3 66 11 NC_002950:PG2205|3end_2-dehydropantoate_2-reductase_2317145..2317295_POSITIVE 350 150 106 99 48 NC_002950:PG2046|3end_hypothetical_protein_2145793..2145943_POSITIVE