Origin IGS: gctaatattgcagtttttcagaacagatgcaaaagtaataatattttcttaatatgccaacacaaagcctttttacttacaattaaattgccgagaaatgcgtgagtattttatacttgctgcgtattctctcaaaattgtcttataagacaatttaaattctcctataagacaattttaattctcttataagggaattttgcacctctgcgaaccgctgattatcaatgagttacaaaagtgtatttttagcccttgaaaagggggaaatcggtgcgtgaaaaagacgctttttatctggctgaaacaacgtcgtaccagcaaagaaataaaaagatttttgcgttgctta .........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 taagcaacgcaaaaatctttttatttctttgctggtacgacgttgtttcagccagataaaaagcgtctttttcacgcaccgatttcccccttttcaagggctaaaaatacacttttgtaactcattgataatcagcggttcgcagaggtgcaaaattcccttataagagaattaaaattgtcttataggagaatttaaattgtcttataagacaattttgagagaatacgcagcaagtataaaatactcacgcatttctcggcaatttaattgtaagtaaaaaggctttgtgttggcatattaagaaaatattattacttttgcatctgttctgaaaaactgcaatattagc Mask Tandem Repeat Region ================================================ gctaatattgcagtttttcagaacagatgcaaaagtaataatattttcttaatatgccaacacaaagcctttttacttacaattaaattgccgagaaatgcgtgagtattttatacttgctgcgtattctctcaannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnggaattttgcacctctgcgaaccgctgattatcaatgagttacaaaagtgtatttttagcccttgaaaagggggaaatcggtgcgtgaaaaagacgctttttatctggctgaaacaacgtcgtaccagcaaagaaataaaaagatttttgcgttgctta Find is-nt database================================================ Query_seq: PI1429:PI1430|PI1429:PI1430:L-aspartate oxidase:subtilisin-like serine proteinase:->->:1349386..1349737 352 gctaatattgcagtttttcagaacagatgcaaaagtaataatattttcttaatatgccaacacaaagcctttttacttacaattaaattgccgagaaatgcgtgagtattttatacttgctgcgtattctctcaaaattgtcttataagacaatttaaattctcctataagacaattttaattctcttataagggaattttgcacctctgcgaaccgctgattatcaatgagttacaaaagtgtatttttagcccttgaaaagggggaaatcggtgcgtgaaaaagacgctttttatctggctgaaacaacgtcgtaccagcaaagaaataaaaagatttttgcgttgctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1429:PI1430|PI1429:PI1430:L-aspartate oxidase:subtilisin-like serine proteinase:->->:1349386..1349737 352 gctaatattgcagtttttcagaacagatgcaaaagtaataatattttcttaatatgccaacacaaagcctttttacttacaattaaattgccgagaaatgcgtgagtattttatacttgctgcgtattctctcaaaattgtcttataagacaatttaaattctcctataagacaattttaattctcttataagggaattttgcacctctgcgaaccgctgattatcaatgagttacaaaagtgtatttttagcccttgaaaagggggaaatcggtgcgtgaaaaagacgctttttatctggctgaaacaacgtcgtaccagcaaagaaataaaaagatttttgcgttgctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1429:PI1430|PI1429:PI1430:L-aspartate oxidase:subtilisin-like serine proteinase:->->:1349386..1349737 352 gctaatattgcagtttttcagaacagatgcaaaagtaataatattttcttaatatgccaacacaaagcctttttacttacaattaaattgccgagaaatgcgtgagtattttatacttgctgcgtattctctcaaaattgtcttataagacaatttaaattctcctataagacaattttaattctcttataagggaattttgcacctctgcgaaccgctgattatcaatgagttacaaaagtgtatttttagcccttgaaaagggggaaatcggtgcgtgaaaaagacgctttttatctggctgaaacaacgtcgtaccagcaaagaaataaaaagatttttgcgttgctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gctaatattgcagtttttcagaacagatgcaaaagtaataatattttcttaatatgccaacacaaagcctttttacttacaattaaattgccgagaaatgcgtgagtattttatacttgctgcgtattctctcaaaattgtcttataagacaatttaaattctcctataagacaattttaattctcttataagggaattttgcacctctgcgaaccgctgattatcaatgagttacaaaagtgtatttttagcccttgaaaagggggaaatcggtgcgtgaaaaagacgctttttatctggctgaaacaacgtcgtaccagcaaagaaataaaaagatttttgcgttgctta Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 7 End: 102 ...... M A V F Q N R C K S N N I F L I C Q H K A F L L T I K L P R N A .......................................................................................................................................................................................................................................................... Protein_Len: 32 Strand: + Start: 256 End: 351 ............................................................................................................................................................................................................................................................... M K R G K S V R E K D A F Y L A E T T S Y Q Q R N K K I F A L L . Protein_Len: 47 Strand: - Start: 190 End: 330 ............................................................................................................................................................................................. L P I K C R Q S G S I I L S N C F H I K L G Q F P P F R H T F F V S K I Q S F C R R V L L S M ...................... Protein_Len: 31 Strand: - Start: 76 End: 168 ........................................................................... K C N F Q R S I R S Y K I S A A Y E R L I T K Y S L K F E G M ........................................................................................................................................................................................ gctaatattgcagtttttcagaacagatgcaaaagtaataatattttcttaatatgccaacacaaagcctttttacttacaattaaattgccgagaaatgcgtgagtattttatacttgctgcgtattctctcaaaattgtcttataagacaatttaaattctcctataagacaattttaattctcttataagggaattttgcacctctgcgaaccgctgattatcaatgagttacaaaagtgtatttttagcccttgaaaagggggaaatcggtgcgtgaaaaagacgctttttatctggctgaaacaacgtcgtaccagcaaagaaataaaaagatttttgcgttgctta 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================================================ gctaatattgcagtttttcagaacagatgcaaaagtaataatattttcttaatatgccaacacaaagcctttttacttacaattaaattgccgagaaatgcgtgagtattttatacttgctgcgtattctctcaaaattgtcttataagacaatttaaattctcctataagacaattttaattctcttataagggaattttgcacctctgcgaaccgctgattatcaatgagttacaaaagtgtatttttagcccttgaaaagggggaaatcggtgcgtgaaaaagacgctttttatctggctgaaacaacgtcgtaccagcaaagaaataaaaagatttttgcgttgctta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 83 HP_score: -9.7 Tail_Score: -3.7511 Start: 132 End: 181 Full_Region: TTGCTGCGTATTCTC TCAAAATTGTCTTATAAGACAAT TTAA ATTCTCCTATAAGACAATTTTAA TTCTCTTATAAGGGA ...................................................................................................................................TCAAAATTGTCTTATAAGACAATTTAAATTCTCCTATAAGACAATTTTAA........................................................................................................................................................................... TransTerm Strand: + Conf: 89 HP_score: -8.7 Tail_Score: -4.57218 Start: 138 End: 175 Full_Region: CGTATTCTCTCAAAA TTGTCTTATAAGACAAT TTAA ATTCTCCTATAAGACAA TTTTAATTCTCTTAT .........................................................................................................................................TTGTCTTATAAGACAATTTAAATTCTCCTATAAGACAA................................................................................................................................................................................. TransTerm Strand: - Conf: 100 HP_score: -10.9 Tail_Score: -4.08767 Start: 138 End: 175 Full_Region: ataagagaattaaaa ttgtcttataggagaat ttaa attgtcttataagacaa ttttgagagaatacg .........................................................................................................................................ttgtcttataggagaatttaaattgtcttataagacaa................................................................................................................................................................................. TransTerm Strand: + Conf: 71 HP_score: -6.5 Tail_Score: -4.13014 Start: 160 End: 197 Full_Region: ATAAGACAATTTAAA TTCTCCTATAAGACAAT TTTA ATTCTCTTATAAGGGAA TTTTGCACCTCTGCG ...............................................................................................................................................................TTCTCCTATAAGACAATTTTAATTCTCTTATAAGGGAA........................................................................................................................................................... Find igs database================================================ Query_seq: PI1429:PI1430|PI1429:PI1430:L-aspartate oxidase:subtilisin-like serine proteinase:->->:1349386..1349737 352 gctaatattgcagtttttcagaacagatgcaaaagtaataatattttcttaatatgccaacacaaagcctttttacttacaattaaattgccgagaaatgcgtgagtattttatacttgctgcgtattctctcaaaattgtcttataagacaatttaaattctcctataagacaattttaattctcttataagggaattttgcacctctgcgaaccgctgattatcaatgagttacaaaagtgtatttttagcccttgaaaagggggaaatcggtgcgtgaaaaagacgctttttatctggctgaaacaacgtcgtaccagcaaagaaataaaaagatttttgcgttgctta Intra-Species Hit: Count: 1 Min: 1 Max: 352 Len: 352 Subject: pint_PI1429_PI1430|L-aspartate oxidase:subtilisin-like serine proteinase|POSITIVE:POSITIVE|[1349386,1349737]|352 HSP 1 e-value: 0.0 bit: 698.0 Len: 352 Query Start:1 Query End:352 Subject Strand: POSITIVE Subject Start: 1 Subject End: 352 gctaatattgcagtttttcagaacagatgcaaaagtaataatattttcttaatatgccaacacaaagcctttttacttacaattaaattgccgagaaatgcgtgagtattttatacttgctgcgtattctctcaaaattgtcttataagacaatttaaattctcctataagacaattttaattctcttataagggaattttgcacctctgcgaaccgctgattatcaatgagttacaaaagtgtatttttagcccttgaaaagggggaaatcggtgcgtgaaaaagacgctttttatctggctgaaacaacgtcgtaccagcaaagaaataaaaagatttttgcgttgctta gctaatattgcagtttttcagaacagatgcaaaagtaataatattttcttaatatgccaacacaaagcctttttacttacaattaaattgccgagaaatgcgtgagtattttatacttgctgcgtattctctcaaaattgtcttataagacaatttaaattctcctataagacaattttaattctcttataagggaattttgcacctctgcgaaccgctgattatcaatgagttacaaaagtgtatttttagcccttgaaaagggggaaatcggtgcgtgaaaaagacgctttttatctggctgaaacaacgtcgtaccagcaaagaaataaaaagatttttgcgttgctta HSP 2 e-value: 5.0E-8 bit: 60.0 Len: 46 Query Start:134 Query End:179 Subject Strand: NEGATIVE Subject Start: 134 Subject End: 179 .....................................................................................................................................aaaattgtcttataagacaatttaaattctcctataagacaatttt............................................................................................................................................................................. .....................................................................................................................................aaaattgtcttataggagaatttaaattgtcttataagacaatttt............................................................................................................................................................................. Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCUAAUAUUGCAGUUUUUCAGAACAGAUGCAAAAGUAAUAAUAUUUUCUUAAUAUGCCAACACAAAGCCUUUUUACUUACAAUUAAAUUGCCGAGAAAUGCGUGAGUAUUUUAUACUUGCUGCGUAUUCUCUCAAAAUUGUCUUAUAAGACAAUUUAAAUUCUCCUAUAAGACAAUUUUAAUUCUCUUAUAAGGGAAUUUUGCACCUCUGCGAACCGCUGAUUAUCAAUGAGUUACAAAAGUGUAUUUUUAGCCCUUGAAAAGGGGGAAAUCGGUGCGUGAAAAAGACGCUUUUUAUCUGGCUGAAACAACGUCGUACCAGCAAAGAAAUAAAAAGAUUUUUGCGUUGCUUA ((.......)).((((....)))).(((((((((((........((((((.............(((((.(((((..((((.......((((.((((((((((..(((((...)))))..).)))).))))).(((((((.((((((((((.((((.(((((.((......)).))))).)))).)))))))))).))))))).......))))..((((((((.....((((.((((....))))..)))).(((((....)))))..)))))))).)))).))))).))))).......((((..((......))..)))).)))))).......)))))))))))..... (-86.36) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGCAACGCAAAAAUCUUUUUAUUUCUUUGCUGGUACGACGUUGUUUCAGCCAGAUAAAAAGCGUCUUUUUCACGCACCGAUUUCCCCCUUUUCAAGGGCUAAAAAUACACUUUUGUAACUCAUUGAUAAUCAGCGGUUCGCAGAGGUGCAAAAUUCCCUUAUAAGAGAAUUAAAAUUGUCUUAUAGGAGAAUUUAAAUUGUCUUAUAAGACAAUUUUGAGAGAAUACGCAGCAAGUAUAAAAUACUCACGCAUUUCUCGGCAAUUUAAUUGUAAGUAAAAAGGCUUUGUGUUGGCAUAUUAAGAAAAUAUUAUUACUUUUGCAUCUGUUCUGAAAAACUGCAAUAUUAGC ....((((((((....((((((((((....(((((.(((....))).))))).)))))))))).((((((((...(((((..(((..((((.....))))..)))........(((((((((..(((.....))).)))).))))))))))........(((((((..((((((((((((((((((((((.(((....))).)))))))))))))))))..(((((...((.(..(((((...)))))..)))..)))))...)))))..))))))).)))))))).)))))))).........................(((((...(((......))))))))....... (-84.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 337 236 192 142 99 pint:PI1611|5end_aspartate-semialdehyde_dehydrogenase_1538156..1538386_POSITIVE 310 260 211 133 80 pint:PI0576|5end_helicase,_UvrD/Rep_520226..520456_POSITIVE 309 190 141 228 179 pint:PI0245|5end_possible_mobilization_protein_242946..243176_POSITIVE 306 299 251 114 65 pint:PI0681|5end_hypothetical_protein_619000..619230_POSITIVE 306 299 251 86 37 pint:PI0682|5end_hypothetical_protein_618972..619202_POSITIVE 302 248 209 149 107 pint:PI1679|5end_hypothetical_protein_1594744..1594974_POSITIVE 292 322 289 180 147 pint:PI1483|5end_hypothetical_protein_1404310..1404540_POSITIVE 292 322 289 49 16 pint:PI1482|5end_hypothetical_protein_1404179..1404409_POSITIVE 286 231 191 175 134 pint:PI2036|5end_hypothetical_protein_1989239..1989469_POSITIVE 282 132 98 84 38 pint:PI2113|5end_hypothetical_protein_2063794..2064024_POSITIVE 277 290 241 172 102 pint:PI0264|5end_transfer_region-related_protein,_TraN_256494..256724_POSITIVE 276 300 251 138 94 pint:PI1639|5end_conserved_hypothetical_protein_1556725..1556955_POSITIVE 276 290 252 193 146 pint:PI0553|5end_recombination_protein_503344..503574_POSITIVE 272 289 241 68 21 pint:PI0566|5end_enoyl-[acyl-carrier-protein]_reductase_511832..512062_POSITIVE 271 307 265 171 131 pint:PI2099|5end_D-alanyl-D-alanine_dipeptidase_2052409..2052639_POSITIVE 271 221 183 48 6 pint:PI0341|5end_conserved_hypothetical_protein_317038..317268_POSITIVE 268 320 273 189 131 pint:PI1295|5end_hypothetical_protein_1208636..1208866_POSITIVE 268 304 262 227 183 pint:PI1276|5end_hypothetical_protein_1194266..1194496_POSITIVE 265 140 91 73 20 pint:PI0743|5end_hypothetical_protein_672728..672958_POSITIVE 264 126 88 156 119 pint:PI0737|5end_hypothetical_protein_671182..671412_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 310 260 211 55 2 pint:PI0575|3end_hypothetical_protein_520228..520378_POSITIVE 299 306 261 99 45 pint:PI0879|3end_hypothetical_protein_814051..814201_POSITIVE 289 300 251 72 27 pint:PI0674|3end_conserved_hypothetical_protein_616154..616304_POSITIVE 282 325 286 81 28 pint:PI1898|3end_S-adenosyl-methyltransferase_1842444..1842594_POSITIVE 276 290 252 104 57 pint:PI0552|3end_hypothetical_protein_503335..503485_POSITIVE 273 125 83 105 56 pint:PI1367|3end_redox-sensitive_transcriptional_activator,__OxyR_1287863..1288013_POSITIVE 253 227 197 53 25 pint:PI0469|3end_30S_ribosomal_protein_S17_437445..437595_POSITIVE 252 307 262 117 83 pint:PI1275|3end_indole-3-glycerol_phosphate_synthase_1194307..1194457_POSITIVE 251 300 254 61 7 pint:PI1652|3end_hypothetical_protein_1565235..1565385_POSITIVE 249 292 252 79 34 pint:PI0734|3end_ABC_transporter,_ATP-binding_/_permease_668760..668910_POSITIVE 246 294 256 81 46 pint:PI0366|3end_conserved_hypothetical_protein_337894..338044_POSITIVE 246 290 251 70 19 pint:PI0007|3end_hypothetical_protein_7300..7450_POSITIVE 245 245 201 121 85 pint:PI1395|3end_hypothetical_protein_1314407..1314557_POSITIVE 243 222 194 92 54 pint:PI1716|3end_hypothetical_protein_1632006..1632156_POSITIVE 242 299 262 151 117 pint:PI1206|3end_ATP-dependent_DNA_helicase,_UvrD/PcrA/Rep_family_1127132..1127282_POSITIVE 241 319 271 139 84 pint:PI1492|3end_triosephosphate_isomerase_1412310..1412460_POSITIVE 241 290 256 71 27 pint:PI1174|3end_hypothetical_protein_1097042..1097192_POSITIVE 240 290 251 46 4 pint:PI0046|3end_thiamine_monophosphate_synthase_(thiamine-phosphate_pyrophosphorylase)_46044..46194_POSITIVE 239 224 198 90 66 pint:PI1713|3end_ABC_transporter,_ATP-binding_protein_1630192..1630342_POSITIVE 239 291 253 38 1 pint:PI0624|3end_hypothetical_protein_574471..574621_POSITIVE