Origin IGS: tcgctttgcctgtcggttctttgggggggtgtgaaatttttcctcccctctgacataccgtagcgaacaggcaacaagataggggtgccgatgtcggtgccgaagaatccctacgcaacgaaaatat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 atattttcgttgcgtagggattcttcggcaccgacatcggcacccctatcttgttgcctgttcgctacggtatgtcagaggggaggaaaaatttcacacccccccaaagaaccgacaggcaaagcga Mask Tandem Repeat Region ================================================ tcgctttgcctgtcggttctttgggggggtgtgaaatttttcctcccctctgacataccgtagcgaacaggcaacaagataggggtgccgatgtcggtgccgaagaatccctacgcaacgaaaatat Find is-nt database================================================ Query_seq: PG0525:PG0526|PG0525:PG0526:CTP synthetase:putative inner membrane protein translocase component YidC:->->:570759..570885 127 tcgctttgcctgtcggttctttgggggggtgtgaaatttttcctcccctctgacataccgtagcgaacaggcaacaagataggggtgccgatgtcggtgccgaagaatccctacgcaacgaaaatat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0525:PG0526|PG0525:PG0526:CTP synthetase:putative inner membrane protein translocase component YidC:->->:570759..570885 127 tcgctttgcctgtcggttctttgggggggtgtgaaatttttcctcccctctgacataccgtagcgaacaggcaacaagataggggtgccgatgtcggtgccgaagaatccctacgcaacgaaaatat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0525:PG0526|PG0525:PG0526:CTP synthetase:putative inner membrane protein translocase component YidC:->->:570759..570885 127 tcgctttgcctgtcggttctttgggggggtgtgaaatttttcctcccctctgacataccgtagcgaacaggcaacaagataggggtgccgatgtcggtgccgaagaatccctacgcaacgaaaatat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tcgctttgcctgtcggttctttgggggggtgtgaaatttttcctcccctctgacataccgtagcgaacaggcaacaagataggggtgccgatgtcggtgccgaagaatccctacgcaacgaaaatat Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: - Start: 3 End: 92 .. S Q R D T R Q P P T F N K R G E S M G Y R V P L L I P T G M ................................... Protein_Len: 42 Strand: - Start: 2 End: 127 . A K G T P E K P P H S I K G G R Q C V T A F L C C S L P A S T P A S S D R R L S F M Protein_Len: 36 Strand: - Start: 1 End: 108 R K A Q R N K P P T H F K E E G R V Y R L S C A V L Y P H R H R H R L M ................... tcgctttgcctgtcggttctttgggggggtgtgaaatttttcctcccctctgacataccgtagcgaacaggcaacaagataggggtgccgatgtcggtgccgaagaatccctacgcaacgaaaatat 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================================================ tcgctttgcctgtcggttctttgggggggtgtgaaatttttcctcccctctgacataccgtagcgaacaggcaacaagataggggtgccgatgtcggtgccgaagaatccctacgcaacgaaaatat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG0525:PG0526|PG0525:PG0526:CTP synthetase:putative inner membrane protein translocase component YidC:->->:570759..570885 127 tcgctttgcctgtcggttctttgggggggtgtgaaatttttcctcccctctgacataccgtagcgaacaggcaacaagataggggtgccgatgtcggtgccgaagaatccctacgcaacgaaaatat Intra-Species Hit: Count: 1 Min: 1 Max: 127 Len: 127 Subject: NC_002950_PG0525_PG0526|CTP synthetase:putative inner membrane protein translocase component YidC|POSITIVE:POSITIVE|[570759,570885]|127 HSP 1 e-value: 8.0E-54 bit: 210.0 Len: 127 Query Start:1 Query End:127 Subject Strand: POSITIVE Subject Start: 1 Subject End: 127 tcgctttgcctgtcggttctttnnnnnnntgtgaaatttttcctcccctctgacataccgtagcgaacaggcaacaagataggggtgccgatgtcggtgccgaagaatccctacgcaacgaaaatat tcgctttgcctgtcggttctttgggggggtgtgaaatttttcctcccctctgacataccgtagcgaacaggcaacaagataggggtgccgatgtcggtgccgaagaatccctacgcaacgaaaatat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCGCUUUGCCUGUCGGUUCUUUGGGGGGGUGUGAAAUUUUUCCUCCCCUCUGACAUACCGUAGCGAACAGGCAACAAGAUAGGGGUGCCGAUGUCGGUGCCGAAGAAUCCCUACGCAACGAAAAUAU ..((.((((((((((((...(..((((((.(.(((....)))).))))))..)...))))......)))))))).....((((((..(((....)))..)........))))).))........... (-45.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUAUUUUCGUUGCGUAGGGAUUCUUCGGCACCGACAUCGGCACCCCUAUCUUGUUGCCUGUUCGCUACGGUAUGUCAGAGGGGAGGAAAAAUUUCACACCCCCCCAAAGAACCGACAGGCAAAGCGA ......(((((..((((((...(....)..(((....)))...))))))....(((((((((.((....))........((((.((.............))))))........)))))))))))))) (-37.42) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 397 88 41 230 182 NC_002950:PG1671|5end_hypothetical_protein_1757658..1757888_NEGATIVE 397 88 41 230 182 NC_002950:PG1266|5end_hypothetical_protein_1346987..1347217_NEGATIVE 397 88 41 230 182 NC_002950:PG0101|5end_hypothetical_protein_119198..119428_POSITIVE 380 110 61 214 167 NC_002950:PG1752|5end_hypothetical_protein_1838394..1838624_POSITIVE 369 100 52 79 24 NC_002950:PG1301|5end_hypothetical_protein_1379921..1380151_NEGATIVE 365 31 3 61 28 NC_002950:PG0304|5end_electron_transport_complex,_RnfABCDGE_type,_C_subunit_339559..339789_POSITIVE 357 103 62 198 159 NC_002950:PG1024|5end_hypothetical_protein_1086698..1086928_POSITIVE 352 50 5 205 149 NC_002950:PG2008|5end_TonB-dependent_receptor,_putative_2095243..2095473_POSITIVE 351 77 37 69 23 NC_002950:PG1315|5end_peptidyl-prolyl_cis-trans_isomerase_SlyD,_FKBP-type_1396190..1396420_NEGATIVE 350 60 14 145 99 NC_002950:PG1042|5end_glycogen_synthase,_putative_1110638..1110868_NEGATIVE 349 105 61 219 159 NC_002950:PG1463|5end_hypothetical_protein_1541110..1541340_POSITIVE 346 87 42 55 19 NC_002950:PG1418|5end_DNA_polymerase_III,_gamma_and_tau_subunits_1503064..1503294_POSITIVE 345 103 62 39 3 NC_002950:PG0322|5end_serine/threonine_transporter_355708..355938_POSITIVE 343 99 52 167 118 NC_002950:PG1560|5end_dTDP-glucose_4,6-dehydratase_1640131..1640361_NEGATIVE 337 110 63 196 141 NC_002950:PG2053|5end_dithiobiotin_synthetase_2150534..2150764_POSITIVE 337 110 63 81 18 NC_002950:PG0428|5end_hypothetical_protein_465977..466207_NEGATIVE 337 116 82 132 78 NC_002950:PG0328|5end_imidazolonepropionase_363426..363656_NEGATIVE 337 71 42 184 155 NC_002950:PG0312|5end_hypothetical_protein_347048..347278_NEGATIVE 335 100 53 63 11 NC_002950:PG0280|5end_ABC_transporter,_permease_protein,_putative_314625..314855_NEGATIVE 333 100 52 195 141 NC_002950:PG0771|5end_hypothetical_protein_824524..824754_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 402 50 2 80 30 NC_002950:PG0143|3end_hydrolase,_carbon-nitrogen_family_165747..165897_NEGATIVE 372 48 6 68 17 NC_002950:PG0525|3end_CTP_synthetase_570698..570848_POSITIVE 369 100 52 61 6 NC_002950:PG1302|3end_hypothetical_protein_1379939..1380089_NEGATIVE 350 60 14 108 62 NC_002950:PG1043|3end_ferrous_iron_transport_protein_B_1110675..1110825_NEGATIVE 339 87 43 45 5 NC_002950:PG2136|3end_hypothetical_protein_2245104..2245254_POSITIVE 334 50 1 78 32 NC_002950:PG0090|3end_Dps_family_protein_106083..106233_POSITIVE 331 102 64 38 2 NC_002950:PG1150|3end_hypothetical_protein_1233249..1233399_POSITIVE 328 49 5 149 108 NC_002950:PG2073|3end_hypothetical_protein_2174219..2174369_NEGATIVE 328 49 5 149 108 NC_002950:PG1669|3end_hypothetical_protein_1755411..1755561_NEGATIVE 328 49 5 149 108 NC_002950:PG1264|3end_hypothetical_protein_1344740..1344890_NEGATIVE 328 49 5 149 108 NC_002950:PG0103|3end_hypothetical_protein_121525..121675_POSITIVE 327 100 58 97 48 NC_002950:PG2188|3end_diaminopimelate_decarboxylase_2294633..2294783_NEGATIVE 326 120 81 129 83 NC_002950:PG1648|3end_RelA/SpoT_family_protein_1730082..1730232_POSITIVE 326 120 82 61 21 NC_002950:PG1342|3end_UDP-N-acetylenolpyruvoylglucosamine_reductase_1423681..1423831_POSITIVE 326 67 21 90 37 NC_002950:PG0037|3end_50S_ribosomal_protein_L19_46964..47114_POSITIVE 325 120 77 64 13 NC_002950:PG1220|3end_erythronate-4-phosphate_dehydrogenase_1298199..1298349_POSITIVE 325 46 3 75 32 NC_002950:PG0731|3end_hypothetical_protein_782020..782170_NEGATIVE 323 50 3 144 78 NC_002950:PG1968|3end_hypothetical_protein_2058460..2058610_NEGATIVE 320 117 79 82 48 NC_002950:PG2081|3end_biotin_synthetase_2180669..2180819_NEGATIVE 318 116 82 148 116 NC_002950:PG1310|3end_exsB_protein_1389826..1389976_POSITIVE