Origin IGS: tacttttttatgtataaatagatgtgtttaatgactaatacttcatagctgatagcagctaactactgcaaagttagcaataaactatcagataacgaaactaatatatgaaattctattgccgttcggtaaaactttgaacttaccgaaacatctgtaaaatagcctttaaaccgcttgtcgttcgccgtttttcggcagtacagcaaattatttacgtgtaaataaatatttttctacgtgtaagtaagaatttatttacatgtaagtaaatatttctcaacgtgtagataattcggcagctcgctttttaagctgataaaaggctgaatttcaatgtgataattcagccttgtttttagtgcgtgggtaagcaggttgcagagtaaaaataataaaaaacctccctgctcgatgtttatcggacagggaggaatttggtgtttacagattaatggtgttta .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaacaccattaatctgtaaacaccaaattcctccctgtccgataaacatcgagcagggaggttttttattatttttactctgcaacctgcttacccacgcactaaaaacaaggctgaattatcacattgaaattcagccttttatcagcttaaaaagcgagctgccgaattatctacacgttgagaaatatttacttacatgtaaataaattcttacttacacgtagaaaaatatttatttacacgtaaataatttgctgtactgccgaaaaacggcgaacgacaagcggtttaaaggctattttacagatgtttcggtaagttcaaagttttaccgaacggcaatagaatttcatatattagtttcgttatctgatagtttattgctaactttgcagtagttagctgctatcagctatgaagtattagtcattaaacacatctatttatacataaaaaagta Mask Tandem Repeat Region ================================================ tacttttttatgtataaatagatgtgtttaatgactaatacttcatagctgatagcagctaactactgcaaagttagcaataaactatcagataacgaaactaatatatgaaattctattgccgttcggtaaaactttgaacttaccgaaacatctgtaaaatagcctttaaaccgcttgtcgttcgccgtttttcggcagtacagcaaattattnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnttcggcagctcgctttttaagctgataaaaggctgaatttcaatgtgataattcagccttgtttttagtgcgtgggtaagcaggttgcagagtaaaaataataaaaaacctccctgctcgatgtttatcggacagggaggaatttggtgtttacagattaatggtgttta Find is-nt database================================================ Query_seq: PI0609:PI0610|PI0609:PI0610:conserved hypothetical protein:conserved hypothetical protein:->->:557079..557542 464 tacttttttatgtataaatagatgtgtttaatgactaatacttcatagctgatagcagctaactactgcaaagttagcaataaactatcagataacgaaactaatatatgaaattctattgccgttcggtaaaactttgaacttaccgaaacatctgtaaaatagcctttaaaccgcttgtcgttcgccgtttttcggcagtacagcaaattatttacgtgtaaataaatatttttctacgtgtaagtaagaatttatttacatgtaagtaaatatttctcaacgtgtagataattcggcagctcgctttttaagctgataaaaggctgaatttcaatgtgataattcagccttgtttttagtgcgtgggtaagcaggttgcagagtaaaaataataaaaaacctccctgctcgatgtttatcggacagggaggaatttggtgtttacagattaatggtgttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0609:PI0610|PI0609:PI0610:conserved hypothetical protein:conserved hypothetical protein:->->:557079..557542 464 tacttttttatgtataaatagatgtgtttaatgactaatacttcatagctgatagcagctaactactgcaaagttagcaataaactatcagataacgaaactaatatatgaaattctattgccgttcggtaaaactttgaacttaccgaaacatctgtaaaatagcctttaaaccgcttgtcgttcgccgtttttcggcagtacagcaaattatttacgtgtaaataaatatttttctacgtgtaagtaagaatttatttacatgtaagtaaatatttctcaacgtgtagataattcggcagctcgctttttaagctgataaaaggctgaatttcaatgtgataattcagccttgtttttagtgcgtgggtaagcaggttgcagagtaaaaataataaaaaacctccctgctcgatgtttatcggacagggaggaatttggtgtttacagattaatggtgttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0609:PI0610|PI0609:PI0610:conserved hypothetical protein:conserved hypothetical protein:->->:557079..557542 464 tacttttttatgtataaatagatgtgtttaatgactaatacttcatagctgatagcagctaactactgcaaagttagcaataaactatcagataacgaaactaatatatgaaattctattgccgttcggtaaaactttgaacttaccgaaacatctgtaaaatagcctttaaaccgcttgtcgttcgccgtttttcggcagtacagcaaattatttacgtgtaaataaatatttttctacgtgtaagtaagaatttatttacatgtaagtaaatatttctcaacgtgtagataattcggcagctcgctttttaagctgataaaaggctgaatttcaatgtgataattcagccttgtttttagtgcgtgggtaagcaggttgcagagtaaaaataataaaaaacctccctgctcgatgtttatcggacagggaggaatttggtgtttacagattaatggtgttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tacttttttatgtataaatagatgtgtttaatgactaatacttcatagctgatagcagctaactactgcaaagttagcaataaactatcagataacgaaactaatatatgaaattctattgccgttcggtaaaactttgaacttaccgaaacatctgtaaaatagcctttaaaccgcttgtcgttcgccgtttttcggcagtacagcaaattatttacgtgtaaataaatatttttctacgtgtaagtaagaatttatttacatgtaagtaaatatttctcaacgtgtagataattcggcagctcgctttttaagctgataaaaggctgaatttcaatgtgataattcagccttgtttttagtgcgtgggtaagcaggttgcagagtaaaaataataaaaaacctccctgctcgatgtttatcggacagggaggaatttggtgtttacagattaatggtgttta Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: - Start: 337 End: 429 ................................................................................................................................................................................................................................................................................................................................................ H S L E A K N K T R P Y A P Q L T F I I F F R G A R H K D S M ................................... Protein_Len: 60 Strand: - Start: 258 End: 452 ................................................................................................................................................................................................................................................................. Y K E V H L Y N P L E S K L S I F P Q I E I H Y N L R T K L A H T L L N C L L F L L F G G Q E I N I P C P P I Q H K C M ............ Protein_Len: 55 Strand: - Start: 66 End: 230 ................................................................. Q L T L L L S D S L S V L I H F E I A T R Y F K S S V S V D T F Y G K F R K D N A T K R C Y L L N N V H L Y M .......................................................................................................................................................................................................................................... tacttttttatgtataaatagatgtgtttaatgactaatacttcatagctgatagcagctaactactgcaaagttagcaataaactatcagataacgaaactaatatatgaaattctattgccgttcggtaaaactttgaacttaccgaaacatctgtaaaatagcctttaaaccgcttgtcgttcgccgtttttcggcagtacagcaaattatttacgtgtaaataaatatttttctacgtgtaagtaagaatttatttacatgtaagtaaatatttctcaacgtgtagataattcggcagctcgctttttaagctgataaaaggctgaatttcaatgtgataattcagccttgtttttagtgcgtgggtaagcaggttgcagagtaaaaataataaaaaacctccctgctcgatgtttatcggacagggaggaatttggtgtttacagattaatggtgttta 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================================================ tacttttttatgtataaatagatgtgtttaatgactaatacttcatagctgatagcagctaactactgcaaagttagcaataaactatcagataacgaaactaatatatgaaattctattgccgttcggtaaaactttgaacttaccgaaacatctgtaaaatagcctttaaaccgcttgtcgttcgccgtttttcggcagtacagcaaattatttacgtgtaaataaatatttttctacgtgtaagtaagaatttatttacatgtaagtaaatatttctcaacgtgtagataattcggcagctcgctttttaagctgataaaaggctgaatttcaatgtgataattcagccttgtttttagtgcgtgggtaagcaggttgcagagtaaaaataataaaaaacctccctgctcgatgtttatcggacagggaggaatttggtgtttacagattaatggtgttta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 51 HP_score: -5.5 Tail_Score: -2.64243 Start: 58 End: 78 Full_Region: atctgatagtttatt gctaact ttgcagt agttagc tgctatcagctatga .........................................................gctaactttgcagtagttagc.................................................................................................................................................................................................................................................................................................................................................................................................. TransTerm Strand: + Conf: 100 HP_score: -9.1 Tail_Score: -4.7497 Start: 322 End: 355 Full_Region: CTTTTTAAGCTGATA AAAGGCTGAATTTCA ATG TGATAATTCAGCCTTG TTTTTAGTGCGTGGG .................................................................................................................................................................................................................................................................................................................................AAAGGCTGAATTTCAATGTGATAATTCAGCCTTG............................................................................................................. TransTerm Strand: + Conf: 100 HP_score: -10.8 Tail_Score: -4.4831 Start: 325 End: 352 Full_Region: TTTAAGCTGATAAAA GGCTGAATTTCA ATG TGATAATTCAGCC TTGTTTTTAGTGCGT ....................................................................................................................................................................................................................................................................................................................................GGCTGAATTTCAATGTGATAATTCAGCC................................................................................................................ TransTerm Strand: - Conf: 100 HP_score: -10.8 Tail_Score: -4.42788 Start: 325 End: 352 Full_Region: acgcactaaaaacaa ggctgaattatca cat tgaaattcagcc ttttatcagcttaaa ....................................................................................................................................................................................................................................................................................................................................ggctgaattatcacattgaaattcagcc................................................................................................................ TransTerm Strand: + Conf: 79 HP_score: -8.2 Tail_Score: -4.00532 Start: 401 End: 436 Full_Region: GTAAAAATAATAAAA AACCTCCCTGCTCGAT GTTT ATCGGACAGGGAGGAA TTTGGTGTTTACAGA ................................................................................................................................................................................................................................................................................................................................................................................................................AACCTCCCTGCTCGATGTTTATCGGACAGGGAGGAA............................ TransTerm Strand: + Conf: 84 HP_score: -11.7 Tail_Score: -2.99837 Start: 402 End: 435 Full_Region: TAAAAATAATAAAAA ACCTCCCTGCTCGAT GTTT ATCGGACAGGGAGGA ATTTGGTGTTTACAG .................................................................................................................................................................................................................................................................................................................................................................................................................ACCTCCCTGCTCGATGTTTATCGGACAGGGAGGA............................. TransTerm Strand: - Conf: 100 HP_score: -15.2 Tail_Score: -5.80727 Start: 403 End: 434 Full_Region: tgtaaacaccaaatt cctccctgtccgat aaac atcgagcagggagg ttttttattattttt ..................................................................................................................................................................................................................................................................................................................................................................................................................cctccctgtccgataaacatcgagcagggagg.............................. Find igs database================================================ Query_seq: PI0609:PI0610|PI0609:PI0610:conserved hypothetical protein:conserved hypothetical protein:->->:557079..557542 464 tacttttttatgtataaatagatgtgtttaatgactaatacttcatagctgatagcagctaactactgcaaagttagcaataaactatcagataacgaaactaatatatgaaattctattgccgttcggtaaaactttgaacttaccgaaacatctgtaaaatagcctttaaaccgcttgtcgttcgccgtttttcggcagtacagcaaattatttacgtgtaaataaatatttttctacgtgtaagtaagaatttatttacatgtaagtaaatatttctcaacgtgtagataattcggcagctcgctttttaagctgataaaaggctgaatttcaatgtgataattcagccttgtttttagtgcgtgggtaagcaggttgcagagtaaaaataataaaaaacctccctgctcgatgtttatcggacagggaggaatttggtgtttacagattaatggtgttta Intra-Species Hit: Count: 1 Min: 1 Max: 464 Len: 464 Subject: pint_PI0609_PI0610|conserved hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[557079,557542]|464 HSP 1 e-value: 0.0 bit: 920.0 Len: 464 Query Start:1 Query End:464 Subject Strand: POSITIVE Subject Start: 1 Subject End: 464 tacttttttatgtataaatagatgtgtttaatgactaatacttcatagctgatagcagctaactactgcaaagttagcaataaactatcagataacgaaactaatatatgaaattctattgccgttcggtaaaactttgaacttaccgaaacatctgtaaaatagcctttaaaccgcttgtcgttcgccgtttttcggcagtacagcaaattatttacgtgtaaataaatatttttctacgtgtaagtaagaatttatttacatgtaagtaaatatttctcaacgtgtagataattcggcagctcgctttttaagctgataaaaggctgaatttcaatgtgataattcagccttgtttttagtgcgtgggtaagcaggttgcagagtaaaaataataaaaaacctccctgctcgatgtttatcggacagggaggaatttggtgtttacagattaatggtgttta tacttttttatgtataaatagatgtgtttaatgactaatacttcatagctgatagcagctaactactgcaaagttagcaataaactatcagataacgaaactaatatatgaaattctattgccgttcggtaaaactttgaacttaccgaaacatctgtaaaatagcctttaaaccgcttgtcgttcgccgtttttcggcagtacagcaaattatttacgtgtaaataaatatttttctacgtgtaagtaagaatttatttacatgtaagtaaatatttctcaacgtgtagataattcggcagctcgctttttaagctgataaaaggctgaatttcaatgtgataattcagccttgtttttagtgcgtgggtaagcaggttgcagagtaaaaataataaaaaacctccctgctcgatgtttatcggacagggaggaatttggtgtttacagattaatggtgttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UACUUUUUUAUGUAUAAAUAGAUGUGUUUAAUGACUAAUACUUCAUAGCUGAUAGCAGCUAACUACUGCAAAGUUAGCAAUAAACUAUCAGAUAACGAAACUAAUAUAUGAAAUUCUAUUGCCGUUCGGUAAAACUUUGAACUUACCGAAACAUCUGUAAAAUAGCCUUUAAACCGCUUGUCGUUCGCCGUUUUUCGGCAGUACAGCAAAUUAUUUACGUGUAAAUAAAUAUUUUUCUACGUGUAAGUAAGAAUUUAUUUACAUGUAAGUAAAUAUUUCUCAACGUGUAGAUAAUUCGGCAGCUCGCUUUUUAAGCUGAUAAAAGGCUGAAUUUCAAUGUGAUAAUUCAGCCUUGUUUUUAGUGCGUGGGUAAGCAGGUUGCAGAGUAAAAAUAAUAAAAAACCUCCCUGCUCGAUGUUUAUCGGACAGGGAGGAAUUUGGUGUUUACAGAUUAAUGGUGUUUA .....((((((((((.....((.(((((........))))).))....(((((((..(((((((.......)))))))......)))))))............)))))))))).......((((((((((((..........)))))))...(((((((((...(((........((((.......((((.....)))).........((((((((((((((....((((((((...(((((((((((((....)))))))))))))...))))))))....))))))))))))))..(((((..((((((((.(((((...(((((((((((((.....)).)))))))))))....)))))...)))).))))..))))).))))...............((((((((..((((....))))..)))))))).....))).)))))))))..)))))..... (-141.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAACACCAUUAAUCUGUAAACACCAAAUUCCUCCCUGUCCGAUAAACAUCGAGCAGGGAGGUUUUUUAUUAUUUUUACUCUGCAACCUGCUUACCCACGCACUAAAAACAAGGCUGAAUUAUCACAUUGAAAUUCAGCCUUUUAUCAGCUUAAAAAGCGAGCUGCCGAAUUAUCUACACGUUGAGAAAUAUUUACUUACAUGUAAAUAAAUUCUUACUUACACGUAGAAAAAUAUUUAUUUACACGUAAAUAAUUUGCUGUACUGCCGAAAAACGGCGAACGACAAGCGGUUUAAAGGCUAUUUUACAGAUGUUUCGGUAAGUUCAAAGUUUUACCGAACGGCAAUAGAAUUUCAUAUAUUAGUUUCGUUAUCUGAUAGUUUAUUGCUAACUUUGCAGUAGUUAGCUGCUAUCAGCUAUGAAGUAUUAGUCAUUAAACACAUCUAUUUAUACAUAAAAAAGUA ......((....(((((((((....(((..((((((((..((((....))))..))))))))..))).....((((((..((((....(((........)))........(((((((((((.((.....)))))))))))))....((((((.......)))))).((((((((.(((..((....((((((((..((((.(((((.(((....))).))))).))))..))))))))....))..))).)))))))).(((..(((((.....)))))....))).))))..))))))....)))))))))..(((((((((........))))))))).)).((((((.......(((((((((((((...((((((((.....(((((((.......))))))).))))))))..)))))..)))))).))........))))))................ (-121.16) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 521 280 231 195 146 pint:PI0115|5end_hypothetical_protein_108062..108292_POSITIVE 521 280 231 181 132 pint:PI0111|5end_hypothetical_protein_108048..108278_POSITIVE 521 280 231 146 97 pint:PI0112|5end_hypothetical_protein_108013..108243_POSITIVE 502 250 204 215 163 pint:PI0173|5end_hypothetical_protein_165305..165535_POSITIVE 486 248 203 231 181 pint:PI0599|5end_hypothetical_protein_547376..547606_POSITIVE 477 250 210 142 102 pint:PI1462|5end_hypothetical_protein_1385094..1385324_POSITIVE 452 250 203 132 82 pint:PI0619|5end_hypothetical_protein_569364..569594_POSITIVE 443 250 206 224 179 pint:PI0311|5end_hypothetical_protein_294721..294951_POSITIVE 443 250 206 94 49 pint:PI0312|5end_hypothetical_protein_294591..294821_POSITIVE 428 280 232 150 102 pint:PI0130|5end_hypothetical_protein_122032..122262_POSITIVE 405 278 237 231 190 pint:PI0172|5end_ISPg3-related_transposase_164262..164492_POSITIVE 379 250 204 120 73 pint:PI0648|5end_hypothetical_protein_589448..589678_POSITIVE 377 268 227 116 75 pint:PI1450|5end_hypothetical_protein_1372683..1372913_POSITIVE 351 296 253 159 116 pint:PI0983|5end_hypothetical_protein_909750..909980_POSITIVE 351 239 206 231 198 pint:PI0114|5end_hypothetical_protein_108139..108369_POSITIVE 343 201 174 35 2 pint:PI0361|5end_hypothetical_protein_333062..333292_POSITIVE 341 219 173 220 172 pint:PI0471|5end_50S_ribosomal_protein_L24_437736..437966_POSITIVE 336 78 39 85 44 pint:PI1550|5end_conserved_hypothetical_protein_1467360..1467590_POSITIVE 320 190 146 180 129 pint:PI2094|5end_hypothetical_protein_2049540..2049770_POSITIVE 318 207 174 169 130 pint:PI0930|5end_alpha-L-fucosidase_precursor_860977..861207_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 502 250 204 68 16 pint:PI0172|3end_ISPg3-related_transposase_165238..165388_POSITIVE 477 250 210 41 1 pint:PI1461|3end_conserved_hypothetical_protein_1385073..1385223_POSITIVE 439 250 208 101 59 pint:PI2105|3end_hypothetical_protein_2059586..2059736_POSITIVE 422 300 252 60 12 pint:PI0598|3end_hypothetical_protein_547233..547383_POSITIVE 399 443 403 138 96 pint:PI0914|3end_ATPase,_AAA_family_844992..845142_POSITIVE 381 268 221 53 6 pint:PI2106|3end_hypothetical_protein_2059498..2059648_POSITIVE 346 389 344 91 42 pint:PI1146|3end_translation_initiation_factor_IF3_1073503..1073653_POSITIVE 344 308 264 89 46 pint:PI1314|3end_hypothetical_protein_1231423..1231573_POSITIVE 340 198 154 110 68 pint:PI0377|3end_DNA_primase/mobilizable_transposon,_excision_protein_347823..347973_POSITIVE 314 208 162 112 57 pint:PI0356|3end_hypothetical_protein_327288..327438_POSITIVE 299 445 403 78 26 pint:PI1226|3end_hypothetical_protein_1148263..1148413_POSITIVE 298 335 298 71 30 pint:PI1792|3end_hypothetical_protein_1725143..1725293_POSITIVE 292 442 401 59 10 pint:PI1352|3end_conserved_hypothetical_protein_1269787..1269937_POSITIVE 292 200 162 150 108 pint:PI0750|3end_zinc_protease_680633..680783_POSITIVE 292 267 224 100 57 pint:PI0725|3end_hypothetical_protein_658933..659083_POSITIVE 292 390 346 49 8 pint:PI0526|3end_hypothetical_protein_482439..482589_POSITIVE 290 375 337 56 4 pint:PI2161|3end_hypothetical_protein_2108751..2108901_POSITIVE 288 385 347 144 101 pint:PI0704|3end_conserved_hypothetical_protein_641364..641514_POSITIVE 287 385 348 110 72 pint:PI0955|3end_conserved_hypothetical_protein_886084..886234_POSITIVE 284 383 348 125 84 pint:PI0805|3end_conserved_hypothetical_protein_743807..743957_POSITIVE