Origin IGS: cgaaaaaattctcgcgccgcttttcgggaaaacacgcgccgcaatcggagcgtttccggcctgagaatttcattttgccgcttttcgataattatccttttcctccattcgagagacggcagggctaaaaggtggaaaatgagaagccatcagcgagaacgatagagagcaacgaagttcactatctttgccggcgt .........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 acgccggcaaagatagtgaacttcgttgctctctatcgttctcgctgatggcttctcattttccaccttttagccctgccgtctctcgaatggaggaaaaggataattatcgaaaagcggcaaaatgaaattctcaggccggaaacgctccgattgcggcgcgtgttttcccgaaaagcggcgcgagaattttttcg Mask Tandem Repeat Region ================================================ cgaaaaaattctcgcgccgcttttcgggaaaacacgcgccgcaatcggagcgtttccggcctgagaatttcattttgccgcttttcgataattatccttttcctccattcgagagacggcagggctaaaaggtggaaaatgagaagccatcagcgagaacgatagagagcaacgaagttcactatctttgccggcgt Find is-nt database================================================ Query_seq: PG1617:PG1618|PG1617:PG1618:hypothetical protein:hypothetical protein:<-->:1697846..1698042 197 cgaaaaaattctcgcgccgcttttcgggaaaacacgcgccgcaatcggagcgtttccggcctgagaatttcattttgccgcttttcgataattatccttttcctccattcgagagacggcagggctaaaaggtggaaaatgagaagccatcagcgagaacgatagagagcaacgaagttcactatctttgccggcgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1617:PG1618|PG1617:PG1618:hypothetical protein:hypothetical protein:<-->:1697846..1698042 197 cgaaaaaattctcgcgccgcttttcgggaaaacacgcgccgcaatcggagcgtttccggcctgagaatttcattttgccgcttttcgataattatccttttcctccattcgagagacggcagggctaaaaggtggaaaatgagaagccatcagcgagaacgatagagagcaacgaagttcactatctttgccggcgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1617:PG1618|PG1617:PG1618:hypothetical protein:hypothetical protein:<-->:1697846..1698042 197 cgaaaaaattctcgcgccgcttttcgggaaaacacgcgccgcaatcggagcgtttccggcctgagaatttcattttgccgcttttcgataattatccttttcctccattcgagagacggcagggctaaaaggtggaaaatgagaagccatcagcgagaacgatagagagcaacgaagttcactatctttgccggcgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cgaaaaaattctcgcgccgcttttcgggaaaacacgcgccgcaatcggagcgtttccggcctgagaatttcattttgccgcttttcgataattatccttttcctccattcgagagacggcagggctaaaaggtggaaaatgagaagccatcagcgagaacgatagagagcaacgaagttcactatctttgccggcgt Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 61 End: 162 ............................................................ M R I S F C R F S I I I L F L H S R D G R A K R W K M R S H Q R E R ................................... Protein_Len: 46 Strand: - Start: 3 End: 140 .. F F E R A A K R S F V R R L R L T E P R L I E N Q R K E I I I R K R W E L S P L A L L H F M ......................................................... cgaaaaaattctcgcgccgcttttcgggaaaacacgcgccgcaatcggagcgtttccggcctgagaatttcattttgccgcttttcgataattatccttttcctccattcgagagacggcagggctaaaaggtggaaaatgagaagccatcagcgagaacgatagagagcaacgaagttcactatctttgccggcgt 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================================================ cgaaaaaattctcgcgccgcttttcgggaaaacacgcgccgcaatcggagcgtttccggcctgagaatttcattttgccgcttttcgataattatccttttcctccattcgagagacggcagggctaaaaggtggaaaatgagaagccatcagcgagaacgatagagagcaacgaagttcactatctttgccggcgt Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 71 HP_score: -8.3 Tail_Score: -3.63744 Start: 35 End: 52 Full_Region: ttctcaggccggaaa cgctccg attg cggcgcg tgttttcccgaaaag ..................................cgctccgattgcggcgcg................................................................................................................................................. Find igs database================================================ Query_seq: PG1617:PG1618|PG1617:PG1618:hypothetical protein:hypothetical protein:<-->:1697846..1698042 197 cgaaaaaattctcgcgccgcttttcgggaaaacacgcgccgcaatcggagcgtttccggcctgagaatttcattttgccgcttttcgataattatccttttcctccattcgagagacggcagggctaaaaggtggaaaatgagaagccatcagcgagaacgatagagagcaacgaagttcactatctttgccggcgt Intra-Species Hit: Count: 1 Min: 1 Max: 197 Len: 197 Subject: NC_002950_PG1617_PG1618|hypothetical protein:hypothetical protein|NEGATIVE:POSITIVE|[1697846,1698042]|197 HSP 1 e-value: 1.0E-108 bit: 391.0 Len: 197 Query Start:1 Query End:197 Subject Strand: POSITIVE Subject Start: 1 Subject End: 197 cgaaaaaattctcgcgccgcttttcgggaaaacacgcgccgcaatcggagcgtttccggcctgagaatttcattttgccgcttttcgataattatccttttcctccattcgagagacggcagggctaaaaggtggaaaatgagaagccatcagcgagaacgatagagagcaacgaagttcactatctttgccggcgt cgaaaaaattctcgcgccgcttttcgggaaaacacgcgccgcaatcggagcgtttccggcctgagaatttcattttgccgcttttcgataattatccttttcctccattcgagagacggcagggctaaaaggtggaaaatgagaagccatcagcgagaacgatagagagcaacgaagttcactatctttgccggcgt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGAAAAAAUUCUCGCGCCGCUUUUCGGGAAAACACGCGCCGCAAUCGGAGCGUUUCCGGCCUGAGAAUUUCAUUUUGCCGCUUUUCGAUAAUUAUCCUUUUCCUCCAUUCGAGAGACGGCAGGGCUAAAAGGUGGAAAAUGAGAAGCCAUCAGCGAGAACGAUAGAGAGCAACGAAGUUCACUAUCUUUGCCGGCGU ((......((((((((((..((((((((.....((((.(((....))).))))......))))))))........(((((..((((((....................))))))..))))).))).....(((((...........))))).))))))).(((((.((((......)))).))))).....)).... (-61.45) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACGCCGGCAAAGAUAGUGAACUUCGUUGCUCUCUAUCGUUCUCGCUGAUGGCUUCUCAUUUUCCACCUUUUAGCCCUGCCGUCUCUCGAAUGGAGGAAAAGGAUAAUUAUCGAAAAGCGGCAAAAUGAAAUUCUCAGGCCGGAAACGCUCCGAUUGCGGCGCGUGUUUUCCCGAAAAGCGGCGCGAGAAUUUUUUCG ..((((.....((((((.....((.((..(((((((.....(((..((((((.........................))))))...))))))))))..)).))..))))))......)))).....(((((((((..((((...((((.(((....))).)))).((((....)))).))))..))))))))).... (-54.81) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1160 60 11 151 102 NC_002950:PG1617|5end_hypothetical_protein_1697755..1697985_NEGATIVE 663 50 10 41 1 NC_002950:PG1655|5end_hypothetical_protein_1737095..1737325_POSITIVE 520 48 1 213 165 NC_002950:PG2063|5end_hypothetical_protein_2160596..2160826_NEGATIVE 487 59 14 99 52 NC_002950:PG2028|5end_ebsC_protein_2126027..2126257_POSITIVE 410 59 13 76 24 NC_002950:PG0465|5end_ferric_uptake_transcriptional_regulator_509403..509633_NEGATIVE 403 60 11 73 25 NC_002950:PG0738|5end_cytidine/deoxycytidylate_deaminase_family_protein_786463..786693_POSITIVE 397 79 32 191 143 NC_002950:PG1633|5end_galactokinase_1713385..1713615_POSITIVE 392 58 11 204 147 NC_002950:PG2202|5end_Holliday_junction_resolvase-like_protein_2309933..2310163_NEGATIVE 387 60 12 218 174 NC_002950:PG0216|5end_hypothetical_protein_251956..252186_POSITIVE 386 60 11 201 150 NC_002950:PG1352|5end_hypothetical_protein_1433150..1433380_NEGATIVE 385 59 14 61 9 NC_002950:PG0309|5end_thiamine_biosynthesis_lipoprotein_ApbE_345023..345253_NEGATIVE 385 48 1 200 152 NC_002950:PG0132|5end_hypothetical_protein_152879..153109_POSITIVE 384 58 14 99 54 NC_002950:PG0031|5end_hypothetical_protein_37579..37809_NEGATIVE 381 29 1 87 58 NC_002950:PG2064|5end_hypothetical_protein_2160550..2160780_POSITIVE 379 50 9 183 125 NC_002950:PG1979|5end_hypothetical_protein_2067272..2067502_POSITIVE 378 59 11 161 104 NC_002950:PG0174|5end_pyridine_nucleotide-disulphide_oxidoreductase_family_protein_197628..197858_NEGATIVE 377 50 15 219 178 NC_002950:PG0221|5end_hypothetical_protein_255834..256064_NEGATIVE 376 50 1 145 73 NC_002950:PG1799|5end_hypothetical_protein_1894499..1894729_POSITIVE 374 60 14 76 30 NC_002950:PG1495|5end_DNA_topoisomerase_III_1571243..1571473_POSITIVE 374 52 11 107 56 NC_002950:PG1006|5end_hypothetical_protein_1066478..1066708_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 634 60 11 138 77 NC_002950:PG0732|3end_hypothetical_protein_783018..783168_POSITIVE 518 67 21 49 3 NC_002950:PG1943|3end_hypothetical_protein_2028974..2029124_NEGATIVE 507 50 3 62 12 NC_002950:PG0542|3end_hypothetical_protein_595377..595527_NEGATIVE 487 59 14 90 43 NC_002950:PG2027|3end_hypothetical_protein_2126098..2126248_POSITIVE 415 59 15 137 99 NC_002950:PG0443|3end_hemagglutinin-related_protein_483147..483297_POSITIVE 414 50 23 27 1 NC_002950:PG1654|3end_D-alanyl-D-alanine_dipeptidase_1737161..1737311_POSITIVE 412 47 1 73 22 NC_002950:PG0155|3end_riboflavin_biosynthesis_protein_RibD_177861..178011_NEGATIVE 403 60 11 76 28 NC_002950:PG0737|3end_hypothetical_protein_786546..786696_POSITIVE 397 79 32 141 93 NC_002950:PG1632|3end_aldose_1-epimerase_1713415..1713565_POSITIVE 386 60 11 150 99 NC_002950:PG1353|3end_orotate_phosphoribosyltransferase_1433201..1433351_NEGATIVE 385 59 14 64 12 NC_002950:PG0310|3end_nitroreductase_family_protein_345020..345170_NEGATIVE 384 58 14 51 6 NC_002950:PG0032|3end_beta-mannosidase,_putative_37627..37777_NEGATIVE 380 147 101 57 2 NC_002950:PG1110|3end_hypothetical_protein_1183237..1183387_POSITIVE 377 50 15 140 99 NC_002950:PG0222|3end_DNA-binding_protein,_histone-like_family_255913..256063_NEGATIVE 374 52 11 67 16 NC_002950:PG1007|3end_transcriptional_regulator,_GntR_family_1066518..1066668_NEGATIVE 374 60 15 55 8 NC_002950:PG0086|3end_ATP-dependent_RNA_helicase,_DEAD/DEAH_box_family_100545..100695_NEGATIVE 371 78 33 56 9 NC_002950:PG1247|3end_3-dehydroquinate_synthase_1325585..1325735_POSITIVE 370 59 31 29 1 NC_002950:PG2227|3end_hypothetical_protein_2342744..2342894_POSITIVE 370 57 11 144 89 NC_002950:PG2099|3end_ATP-dependent_RNA_helicase,_DEAD/DEAH_box_family_2206649..2206799_NEGATIVE 370 65 25 86 39 NC_002950:PG0148|3end_sigma-54-dependent_transcriptional_regulator_169654..169804_NEGATIVE