Origin IGS: aaaagataccggccacaaagagttcttcggacagcagccggagtgagtgcaaggtgagcgtgtatcggcaccactgatggaagagcgaagaacaatgttaagatcaaagcggttgtctaatat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 atattagacaaccgctttgatcttaacattgttcttcgctcttccatcagtggtgccgatacacgctcaccttgcactcactccggctgctgtccgaagaactctttgtggccggtatctttt Mask Tandem Repeat Region ================================================ aaaagataccggccacaaagagttcttcggacagcagccggagtgagtgcaaggtgagcgtgtatcggcaccactgatggaagagcgaagaacaatgttaagatcaaagcggttgtctaatat Find is-nt database================================================ Query_seq: PG1115:PG1116|PG1115:PG1116:signal recognition particle protein:methylenetetrahydrofolate dehydrogenase/methenyltetrahydrofolate cyclohydrolase:->->:1188948..1189070 123 aaaagataccggccacaaagagttcttcggacagcagccggagtgagtgcaaggtgagcgtgtatcggcaccactgatggaagagcgaagaacaatgttaagatcaaagcggttgtctaatat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1115:PG1116|PG1115:PG1116:signal recognition particle protein:methylenetetrahydrofolate dehydrogenase/methenyltetrahydrofolate cyclohydrolase:->->:1188948..1189070 123 aaaagataccggccacaaagagttcttcggacagcagccggagtgagtgcaaggtgagcgtgtatcggcaccactgatggaagagcgaagaacaatgttaagatcaaagcggttgtctaatat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1115:PG1116|PG1115:PG1116:signal recognition particle protein:methylenetetrahydrofolate dehydrogenase/methenyltetrahydrofolate cyclohydrolase:->->:1188948..1189070 123 aaaagataccggccacaaagagttcttcggacagcagccggagtgagtgcaaggtgagcgtgtatcggcaccactgatggaagagcgaagaacaatgttaagatcaaagcggttgtctaatat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaaagataccggccacaaagagttcttcggacagcagccggagtgagtgcaaggtgagcgtgtatcggcaccactgatggaagagcgaagaacaatgttaagatcaaagcggttgtctaatat Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: - Start: 3 End: 107 .. L Y R G C L T R R V A A P T L A L H A H I P V V S P L A F F L T L I M ................ Protein_Len: 41 Strand: - Start: 1 End: 123 F S V P W L S N K P C C G S H T C P S R T D A G S I S S R L V I N L D F R N D L M aaaagataccggccacaaagagttcttcggacagcagccggagtgagtgcaaggtgagcgtgtatcggcaccactgatggaagagcgaagaacaatgttaagatcaaagcggttgtctaatat 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================================================ aaaagataccggccacaaagagttcttcggacagcagccggagtgagtgcaaggtgagcgtgtatcggcaccactgatggaagagcgaagaacaatgttaagatcaaagcggttgtctaatat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG1115:PG1116|PG1115:PG1116:signal recognition particle protein:methylenetetrahydrofolate dehydrogenase/methenyltetrahydrofolate cyclohydrolase:->->:1188948..1189070 123 aaaagataccggccacaaagagttcttcggacagcagccggagtgagtgcaaggtgagcgtgtatcggcaccactgatggaagagcgaagaacaatgttaagatcaaagcggttgtctaatat Intra-Species Hit: Count: 1 Min: 1 Max: 123 Len: 123 Subject: NC_002950_PG1115_PG1116|signal recognition particle protein:methylenetetrahydrofolate dehydrogenase/methenyltetrahydrofolate cyclohydrolase|POSITIVE:POSITIVE|[1188948,1189070]|123 HSP 1 e-value: 6.0E-64 bit: 244.0 Len: 123 Query Start:1 Query End:123 Subject Strand: POSITIVE Subject Start: 1 Subject End: 123 aaaagataccggccacaaagagttcttcggacagcagccggagtgagtgcaaggtgagcgtgtatcggcaccactgatggaagagcgaagaacaatgttaagatcaaagcggttgtctaatat aaaagataccggccacaaagagttcttcggacagcagccggagtgagtgcaaggtgagcgtgtatcggcaccactgatggaagagcgaagaacaatgttaagatcaaagcggttgtctaatat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAGAUACCGGCCACAAAGAGUUCUUCGGACAGCAGCCGGAGUGAGUGCAAGGUGAGCGUGUAUCGGCACCACUGAUGGAAGAGCGAAGAACAAUGUUAAGAUCAAAGCGGUUGUCUAAUAU ...((((((((..........((((((((.....(..(((.((((.((((..((((......)))).))))))))..)))..)..))))))))..((.......))...))).)))))..... (-32.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUAUUAGACAACCGCUUUGAUCUUAACAUUGUUCUUCGCUCUUCCAUCAGUGGUGCCGAUACACGCUCACCUUGCACUCACUCCGGCUGCUGUCCGAAGAACUCUUUGUGGCCGGUAUCUUUU .....(((..((((((.........(((..((((((((..(..((...((((((((.................)))).))))..)).....)..))))))))....))))).)))).)))... (-24.23) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 456 69 28 201 148 NC_002950:PG1713|5end_lipoprotein,_putative_1801811..1802041_NEGATIVE 451 70 21 90 46 NC_002950:PG1128|5end_exodeoxyribonuclease_VII_large_subunit_1203737..1203967_POSITIVE 416 70 23 51 8 NC_002950:PG0738|5end_cytidine/deoxycytidylate_deaminase_family_protein_786463..786693_POSITIVE 414 89 47 190 146 NC_002950:PG2001|5end_signal_peptidase_I_2090855..2091085_NEGATIVE 411 90 44 83 28 NC_002950:PG2119|5end_oxidoreductase,_Gfo/Idh/MocA_family_2226547..2226777_POSITIVE 407 79 34 189 137 NC_002950:PG1196|5end_hypothetical_protein_1275127..1275357_POSITIVE 393 69 26 194 132 NC_002950:PG2027|5end_hypothetical_protein_2125494..2125724_POSITIVE 376 79 33 88 28 NC_002950:PG0343|5end_methionine_gamma-lyase_378362..378592_NEGATIVE 372 69 24 70 22 NC_002950:PG0146|5end_hypothetical_protein_169115..169345_NEGATIVE 370 50 9 212 168 NC_002950:PG0351|5end_hypothetical_protein_386774..387004_POSITIVE 368 58 12 68 2 NC_002950:PG2135|5end_lipoprotein,_putative_2241321..2241551_POSITIVE 368 50 2 127 75 NC_002950:PG1825|5end_hypothetical_protein_1919671..1919901_NEGATIVE 368 76 33 154 123 NC_002950:PG0043|5end_beta-hexosaminidase_51066..51296_POSITIVE 367 61 21 86 35 NC_002950:PG0884|5end_hypothetical_protein_946479..946709_POSITIVE 364 88 41 64 13 NC_002950:PG0480|5end_precorrin-2_C20-methyltransferase,_putative_521319..521549_NEGATIVE 363 69 27 162 122 NC_002950:PG0671|5end_iron_compound_ABC_transporter,_permease_protein_721888..722118_POSITIVE 362 80 36 63 14 NC_002950:PG0218|5end_hypothetical_protein_253295..253525_POSITIVE 358 90 41 139 78 NC_002950:PG2123|5end_hypothetical_protein_2229891..2230121_POSITIVE 355 70 26 124 83 NC_002950:PG2225|5end_hypothetical_protein_2339440..2339670_POSITIVE 352 79 31 97 25 NC_002950:PG1106|5end_UDP-N-acetylmuramoylalanyl-D-glutamyl-2,_6-diaminopimelate--D-alanyl-D-alanyl_ligase_1178429..1178659_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 443 70 26 43 2 NC_002950:PG1127|3end_transcriptional_regulator,_AsnC_Family_1203770..1203920_POSITIVE 416 70 23 54 11 NC_002950:PG0737|3end_hypothetical_protein_786546..786696_POSITIVE 398 80 32 143 82 NC_002950:PG1391|3end_hypothetical_protein_1472961..1473111_POSITIVE 387 68 23 56 11 NC_002950:PG2070|3end_hypothetical_protein_2166547..2166697_POSITIVE 372 69 24 57 9 NC_002950:PG0147|3end_hypothetical_protein_169128..169278_NEGATIVE 367 61 21 89 38 NC_002950:PG0883|3end_hypothetical_protein_946562..946712_POSITIVE 364 80 37 146 85 NC_002950:PG1411|3end_potassium_uptake_protein_TrkA,_putative_1493481..1493631_NEGATIVE 362 80 36 151 102 NC_002950:PG0217|3end_hypothetical_protein_253463..253613_POSITIVE 361 68 27 85 45 NC_002950:PG0534|3end_hypothetical_protein_585805..585955_POSITIVE 360 59 11 63 6 NC_002950:PG2188|3end_diaminopimelate_decarboxylase_2294633..2294783_NEGATIVE 359 48 10 144 105 NC_002950:PG2117|3end_30S_ribosomal_protein_S16_2225235..2225385_NEGATIVE 358 80 33 137 81 NC_002950:PG1859|3end_glycerate_kinase_family_protein_1957174..1957324_NEGATIVE 357 80 33 146 106 NC_002950:PG0445|3end_peptidase_T_486549..486699_POSITIVE 355 70 26 104 63 NC_002950:PG2224|3end_hypothetical_protein_2339500..2339650_POSITIVE 355 90 53 142 99 NC_002950:PG0646|3end_iron_compound_ABC_transporter,_ATP-binding_protein_698070..698220_NEGATIVE 353 79 33 107 57 NC_002950:PG0672|3end_iron_compound_ABC_transporter,_ATP-binding_protein_723840..723990_POSITIVE 353 70 21 124 52 NC_002950:PG0245|3end_universal_stress_protein_family_279773..279923_NEGATIVE 352 68 21 76 29 NC_002950:PG2124|3end_glyceraldehyde_3-phosphate_dehydrogenase,_type_I_2231264..2231414_POSITIVE 352 69 28 62 17 NC_002950:PG1742|3end_hypothetical_protein_1827506..1827656_POSITIVE 351 80 31 103 34 NC_002950:PG0133|3end_hypothetical_protein_154259..154409_NEGATIVE