Origin IGS: tcgttttttcagaggctatttccgaacaaagttaaaaataaaccgtggaggatagtcctaccgagtggctcagatcggtttacactttcccaaatcataaaatcctcctttgatcagaagtctttgaagtacattttttgccaatgagacattacatattgggcaaaaaaaagaattgatctacaaggcagaccaccccctgcactcgaaggcaaaatgtgtgcaaagaacgaaaataacttaccaaatgcatggttattcggattttttattacaactttggagcgaattttttcaagggcagactcgggagcgttgttttccacgacctttcaacgtagagccgactgcttaatcttattttaaaacaggaacagaaat .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 atttctgttcctgttttaaaataagattaagcagtcggctctacgttgaaaggtcgtggaaaacaacgctcccgagtctgcccttgaaaaaattcgctccaaagttgtaataaaaaatccgaataaccatgcatttggtaagttattttcgttctttgcacacattttgccttcgagtgcagggggtggtctgccttgtagatcaattcttttttttgcccaatatgtaatgtctcattggcaaaaaatgtacttcaaagacttctgatcaaaggaggattttatgatttgggaaagtgtaaaccgatctgagccactcggtaggactatcctccacggtttatttttaactttgttcggaaatagcctctgaaaaaacga Mask Tandem Repeat Region ================================================ tcgttttttcagaggctatttccgaacaaagttaaaaataaaccgtggaggatagtcctaccgagtggctcagatcggtttacactttcccaaatcataaaatcctcctttgatcagaagtctttgaagtacattttttgccaatgagacattacatattgggcaaaaaaaagaattgatctacaaggcagaccaccccctgcactcgaaggcaaaatgtgtgcaaagaacgaaaataacttaccaaatgcatggttattcggattttttattacaactttggagcgaattttttcaagggcagactcgggagcgttgttttccacgacctttcaacgtagagccgactgcttaatcttattttaaaacaggaacagaaat Find is-nt database================================================ Query_seq: PG2190:PG2192|PG2190:PG2192:cell-division ATP-binding protein:peptidase, M23/M37 family:<-->:2298000..2298380 381 tcgttttttcagaggctatttccgaacaaagttaaaaataaaccgtggaggatagtcctaccgagtggctcagatcggtttacactttcccaaatcataaaatcctcctttgatcagaagtctttgaagtacattttttgccaatgagacattacatattgggcaaaaaaaagaattgatctacaaggcagaccaccccctgcactcgaaggcaaaatgtgtgcaaagaacgaaaataacttaccaaatgcatggttattcggattttttattacaactttggagcgaattttttcaagggcagactcgggagcgttgttttccacgacctttcaacgtagagccgactgcttaatcttattttaaaacaggaacagaaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG2190:PG2192|PG2190:PG2192:cell-division ATP-binding protein:peptidase, M23/M37 family:<-->:2298000..2298380 381 tcgttttttcagaggctatttccgaacaaagttaaaaataaaccgtggaggatagtcctaccgagtggctcagatcggtttacactttcccaaatcataaaatcctcctttgatcagaagtctttgaagtacattttttgccaatgagacattacatattgggcaaaaaaaagaattgatctacaaggcagaccaccccctgcactcgaaggcaaaatgtgtgcaaagaacgaaaataacttaccaaatgcatggttattcggattttttattacaactttggagcgaattttttcaagggcagactcgggagcgttgttttccacgacctttcaacgtagagccgactgcttaatcttattttaaaacaggaacagaaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG2190:PG2192|PG2190:PG2192:cell-division ATP-binding protein:peptidase, M23/M37 family:<-->:2298000..2298380 381 tcgttttttcagaggctatttccgaacaaagttaaaaataaaccgtggaggatagtcctaccgagtggctcagatcggtttacactttcccaaatcataaaatcctcctttgatcagaagtctttgaagtacattttttgccaatgagacattacatattgggcaaaaaaaagaattgatctacaaggcagaccaccccctgcactcgaaggcaaaatgtgtgcaaagaacgaaaataacttaccaaatgcatggttattcggattttttattacaactttggagcgaattttttcaagggcagactcgggagcgttgttttccacgacctttcaacgtagagccgactgcttaatcttattttaaaacaggaacagaaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tcgttttttcagaggctatttccgaacaaagttaaaaataaaccgtggaggatagtcctaccgagtggctcagatcggtttacactttcccaaatcataaaatcctcctttgatcagaagtctttgaagtacattttttgccaatgagacattacatattgggcaaaaaaaagaattgatctacaaggcagaccaccccctgcactcgaaggcaaaatgtgtgcaaagaacgaaaataacttaccaaatgcatggttattcggattttttattacaactttggagcgaattttttcaagggcagactcgggagcgttgttttccacgacctttcaacgtagagccgactgcttaatcttattttaaaacaggaacagaaat Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 52 End: 144 ................................................... M V L P S G S D R F T L S Q I I K S S F D Q K S L K Y I F C Q ............................................................................................................................................................................................................................................. Protein_Len: 60 Strand: + Start: 158 End: 352 ............................................................................................................................................................. M G Q K K E L I Y K A D H P L H S K A K C V Q R T K I T Y Q M H G Y S D F L L Q L W S E F F Q G Q T R E R C F P R P F N ............................. Protein_Len: 60 Strand: + Start: 151 End: 363 ...................................................................................................................................................... M T Y W A K K R I D L Q G R P P P A L E G K M C A K N E N N L P N A W L F G F F I T T L E R I F S R A D S G A L F S T T .................. Protein_Len: 37 Strand: - Start: 155 End: 265 .......................................................................................................................................................... M N P L F F F Q D V L C V V G Q V R L C F T H L S R F Y S V L H M T I R M .................................................................................................................... Protein_Len: 60 Strand: - Start: 117 End: 326 .................................................................................................................... S M V Y Q A F F L I S R C P L G G G A S S P L I H A F F S F L K G F A H N N P N K I V V K S R I K E L A S E P A N N E M ....................................................... Protein_Len: 36 Strand: - Start: 73 End: 180 ........................................................................ I P K C K G L D Y F G G K I L L R Q L V N K A L S V N C I P C F F S N M ......................................................................................................................................................................................................... tcgttttttcagaggctatttccgaacaaagttaaaaataaaccgtggaggatagtcctaccgagtggctcagatcggtttacactttcccaaatcataaaatcctcctttgatcagaagtctttgaagtacattttttgccaatgagacattacatattgggcaaaaaaaagaattgatctacaaggcagaccaccccctgcactcgaaggcaaaatgtgtgcaaagaacgaaaataacttaccaaatgcatggttattcggattttttattacaactttggagcgaattttttcaagggcagactcgggagcgttgttttccacgacctttcaacgtagagccgactgcttaatcttattttaaaacaggaacagaaat 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================================================ tcgttttttcagaggctatttccgaacaaagttaaaaataaaccgtggaggatagtcctaccgagtggctcagatcggtttacactttcccaaatcataaaatcctcctttgatcagaagtctttgaagtacattttttgccaatgagacattacatattgggcaaaaaaaagaattgatctacaaggcagaccaccccctgcactcgaaggcaaaatgtgtgcaaagaacgaaaataacttaccaaatgcatggttattcggattttttattacaactttggagcgaattttttcaagggcagactcgggagcgttgttttccacgacctttcaacgtagagccgactgcttaatcttattttaaaacaggaacagaaat Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 84 HP_score: -2.2 Tail_Score: -5.75945 Start: 173 End: 199 Full_Region: tgccttcgagtgcag ggggtggtctgc ctt gtagatcaattc ttttttttgcccaat ............................................................................................................................................................................ggggtggtctgccttgtagatcaattc...................................................................................................................................................................................... Find igs database================================================ Query_seq: PG2190:PG2192|PG2190:PG2192:cell-division ATP-binding protein:peptidase, M23/M37 family:<-->:2298000..2298380 381 tcgttttttcagaggctatttccgaacaaagttaaaaataaaccgtggaggatagtcctaccgagtggctcagatcggtttacactttcccaaatcataaaatcctcctttgatcagaagtctttgaagtacattttttgccaatgagacattacatattgggcaaaaaaaagaattgatctacaaggcagaccaccccctgcactcgaaggcaaaatgtgtgcaaagaacgaaaataacttaccaaatgcatggttattcggattttttattacaactttggagcgaattttttcaagggcagactcgggagcgttgttttccacgacctttcaacgtagagccgactgcttaatcttattttaaaacaggaacagaaat Intra-Species Hit: Count: 1 Min: 1 Max: 381 Len: 381 Subject: NC_002950_PG2190_PG2192|cell-division ATP-binding protein:peptidase, M23/M37 family|NEGATIVE:POSITIVE|[2298000,2298380]|381 HSP 1 e-value: 0.0 bit: 708.0 Len: 381 Query Start:1 Query End:381 Subject Strand: POSITIVE Subject Start: 1 Subject End: 381 tcgttttttcagaggctatttccgaacaaagttaaaaataaaccgtggaggatagtcctaccgagtggctcagatcggtttacactttcccaaatcataaaatcctcctttgatcagaagtctttgaagtacattttttgccaatgagacattacatattgggcnnnnnnnngaattgatctacaaggcagaccaccccctgcactcgaaggcaaaatgtgtgcaaagaacgaaaataacttaccaaatgcatggttattcggattttttattacaactttggagcgaattttttcaagggcagactcgggagcgttgttttccacgacctttcaacgtagagccgactgcttaatcttattttaaaacaggaacagaaat tcgttttttcagaggctatttccgaacaaagttaaaaataaaccgtggaggatagtcctaccgagtggctcagatcggtttacactttcccaaatcataaaatcctcctttgatcagaagtctttgaagtacattttttgccaatgagacattacatattgggcaaaaaaaagaattgatctacaaggcagaccaccccctgcactcgaaggcaaaatgtgtgcaaagaacgaaaataacttaccaaatgcatggttattcggattttttattacaactttggagcgaattttttcaagggcagactcgggagcgttgttttccacgacctttcaacgtagagccgactgcttaatcttattttaaaacaggaacagaaat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCGUUUUUUCAGAGGCUAUUUCCGAACAAAGUUAAAAAUAAACCGUGGAGGAUAGUCCUACCGAGUGGCUCAGAUCGGUUUACACUUUCCCAAAUCAUAAAAUCCUCCUUUGAUCAGAAGUCUUUGAAGUACAUUUUUUGCCAAUGAGACAUUACAUAUUGGGCAAAAAAAAGAAUUGAUCUACAAGGCAGACCACCCCCUGCACUCGAAGGCAAAAUGUGUGCAAAGAACGAAAAUAACUUACCAAAUGCAUGGUUAUUCGGAUUUUUUAUUACAACUUUGGAGCGAAUUUUUUCAAGGGCAGACUCGGGAGCGUUGUUUUCCACGACCUUUCAACGUAGAGCCGACUGCUUAAUCUUAUUUUAAAACAGGAACAGAAAU ..(((((....)))))...((((........((((((......((((((((((((..((.((((((.((((.....(((((..........)))))......((((((..((((.((((((((.....((((((.(((((((..((((...........(((((((.........))).))))....((((........)))).))))..))))))).))))))..........(((((((...(....)...))))))).)))))))).)))).......)))).))..........))))..)))))).))..))))))))))))..........((((......)))).........))))))....))))....... (-85.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUUCUGUUCCUGUUUUAAAAUAAGAUUAAGCAGUCGGCUCUACGUUGAAAGGUCGUGGAAAACAACGCUCCCGAGUCUGCCCUUGAAAAAAUUCGCUCCAAAGUUGUAAUAAAAAAUCCGAAUAACCAUGCAUUUGGUAAGUUAUUUUCGUUCUUUGCACACAUUUUGCCUUCGAGUGCAGGGGGUGGUCUGCCUUGUAGAUCAAUUCUUUUUUUUGCCCAAUAUGUAAUGUCUCAUUGGCAAAAAAUGUACUUCAAAGACUUCUGAUCAAAGGAGGAUUUUAUGAUUUGGGAAAGUGUAAACCGAUCUGAGCCACUCGGUAGGACUAUCCUCCACGGUUUAUUUUUAACUUUGUUCGGAAAUAGCCUCUGAAAAAACGA .((((.(...(((((((..((((((.(((((..(((((.((((((((....)).)))))).....(((((((((((((..((((((.....(((((...(((((((((..((((.(((..(((((((..(((.....))).)))))))..))).)))).))).))))))....))))).)))))).((((((((...))))))))......(((((((((....(((........))).)))))))))........(((..(((((......)))))..)))...)))))))))..))))...))))).((((((....((.(((.....)))))..))))))..))))).))))))..)))))))...).))))...... (-94.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1009 90 41 181 132 NC_002950:PG2190|5end_cell-division_ATP-binding_protein_2297909..2298139_NEGATIVE 405 90 43 66 17 NC_002950:PG1738|5end_hypothetical_protein_1825131..1825361_NEGATIVE 379 78 42 45 5 NC_002950:PG0753|5end_protease_798301..798531_POSITIVE 365 340 291 208 143 NC_002950:PG1720|5end_hypothetical_protein_1808615..1808845_POSITIVE 361 79 43 50 11 NC_002950:PG1359|5end_hypothetical_protein_1438615..1438845_NEGATIVE 354 350 301 225 171 NC_002950:PG0226|5end_transglutaminase-related_protein_262531..262761_NEGATIVE 352 359 311 182 137 NC_002950:PG0464|5end_adenylosuccinate_synthetase_508874..509104_NEGATIVE 344 348 301 212 155 NC_002950:PG0322|5end_serine/threonine_transporter_355708..355938_POSITIVE 341 233 193 57 13 NC_002950:PG0434|5end_hypothetical_protein_472513..472743_NEGATIVE 340 349 307 67 25 NC_002950:PG1826|5end_hypothetical_protein_1920065..1920295_NEGATIVE 333 350 301 198 143 NC_002950:PG2155|5end_lipoprotein,_putative_2261862..2262092_NEGATIVE 333 350 301 72 7 NC_002950:PG1718|5end_hypothetical_protein_1806807..1807037_NEGATIVE 328 351 311 219 182 NC_002950:PG0987|5end_hypothetical_protein_1048002..1048232_POSITIVE 324 350 306 205 167 NC_002950:PG2100|5end_immunoreactive_63_kDa_antigen_PG102_2210191..2210421_NEGATIVE 323 312 278 59 26 NC_002950:PG0959|5end_ATP-binding_protein,_Mrp/Nbp35_family_1021141..1021371_NEGATIVE 320 347 301 176 117 NC_002950:PG2116|5end_hypothetical_protein_2224635..2224865_POSITIVE 318 347 303 40 2 NC_002950:PG1688|5end_transcription_elongation_factor_GreA_1774686..1774916_NEGATIVE 314 85 43 229 188 NC_002950:PG0736|5end_ribonuclease_HII_785608..785838_POSITIVE 312 350 305 221 163 NC_002950:PG1692|5end_ABC_transporter,_ATP-binding_protein_1777173..1777403_NEGATIVE 312 348 302 207 167 NC_002950:PG0526|5end_putative_inner_membrane_protein_translocase_component_YidC_570746..570976_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 405 90 43 69 20 NC_002950:PG1739|3end_hypothetical_protein_1825128..1825278_NEGATIVE 379 78 42 61 21 NC_002950:PG0752|3end_uracil_phosphoribosyltransferase_798397..798547_POSITIVE 361 79 43 47 8 NC_002950:PG1360|3end_phosphoribosylamine--glycine_ligase_1438618..1438768_NEGATIVE 344 350 306 144 103 NC_002950:PG0465|3end_ferric_uptake_transcriptional_regulator_508903..509053_NEGATIVE 336 225 186 62 12 NC_002950:PG0053|3end_hypothetical_protein_64967..65117_NEGATIVE 335 328 281 60 15 NC_002950:PG1117|3end_MATE_efflux_family_protein_1191541..1191691_POSITIVE 332 89 42 53 1 NC_002950:PG1854|3end_5-formyltetrahydrofolate_cyclo-ligase_family_protein_1953325..1953475_NEGATIVE 325 349 301 64 18 NC_002950:PG2212|3end_hypothetical_protein_2324483..2324633_NEGATIVE 324 350 306 118 80 NC_002950:PG2101|3end_hypothetical_protein_2210278..2210428_NEGATIVE 324 333 297 69 31 NC_002950:PG1614|3end_succinate_dehydrogenase_1693800..1693950_NEGATIVE 323 312 278 39 6 NC_002950:PG0960|3end_tRNA_(guanine-N(7)-)-methyltransferase_1021161..1021311_NEGATIVE 317 350 304 57 16 NC_002950:PG0086|3end_ATP-dependent_RNA_helicase,_DEAD/DEAH_box_family_100545..100695_NEGATIVE 315 329 281 91 56 NC_002950:PG0021|3end_TIM-barrel_protein,_putative,_NifR3_family_24122..24272_NEGATIVE 312 350 302 85 26 NC_002950:PG1164|3end_hypothetical_protein_1244107..1244257_NEGATIVE 312 348 302 79 39 NC_002950:PG0525|3end_CTP_synthetase_570698..570848_POSITIVE 311 78 43 145 109 NC_002950:PG1996|3end_deoxyribose-phosphate_aldolase_2086870..2087020_POSITIVE 311 330 290 145 100 NC_002950:PG0227|3end_DNA_repair_protein_RadA_262593..262743_NEGATIVE 310 79 44 147 108 NC_002950:PG0758|3end_peptidyl-dipeptidase_Dcp_806467..806617_NEGATIVE 308 330 283 135 74 NC_002950:PG2086|3end_hypothetical_protein_2187070..2187220_POSITIVE 308 89 41 141 84 NC_002950:PG1352|3end_hypothetical_protein_1432737..1432887_NEGATIVE