Origin IGS: aagcggttgcttgagtttcttgaatagcagcgttacgaaacctgctactacgagaattaaagcaaggtcttttacgagtacaggaagttctgacataagcagcgttgtaaatgtttgaatagtttattgatgtgttagcatgattcgtcaatgcggaaaatatagtatgctgatgtgcttgtatatagttcgccgatgtgctaatataataaggtggaggcgcattgcccccgctgaaaatacgaacaccacaaactgttctctccgttttccgagctgatagcagcaccgaaatgcggtgagagcagactttgtagtgttcctcttcgtatttatgagccgccgaaagccgacggaattacttctgatta .........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 taatcagaagtaattccgtcggctttcggcggctcataaatacgaagaggaacactacaaagtctgctctcaccgcatttcggtgctgctatcagctcggaaaacggagagaacagtttgtggtgttcgtattttcagcgggggcaatgcgcctccaccttattatattagcacatcggcgaactatatacaagcacatcagcatactatattttccgcattgacgaatcatgctaacacatcaataaactattcaaacatttacaacgctgcttatgtcagaacttcctgtactcgtaaaagaccttgctttaattctcgtagtagcaggtttcgtaacgctgctattcaagaaactcaagcaaccgctt Mask Tandem Repeat Region ================================================ aagcggttgcttgagtttcttgaatagcagcgttacgaaacctgctactacgagaattaaagcaaggtcttttacgagtacaggaagttctgacataagcagcgttgtaaatgtttgaatagtttattgatgtgttagcatgattcgtcaatgcggaaaatatagtatgctgatgtgcttgtatatagttcgccgatgtgctaatataataaggtggaggcgcattgcccccgctgaaaatacgaacaccacaaactgttctctccgttttccgagctgatagcagcaccgaaatgcggtgagagcagactttgtagtgttcctcttcgtatttatgagccgccgaaagccgacggaattacttctgatta Find is-nt database================================================ Query_seq: PI0655:PI0656|PI0655:PI0656:Na+/H+ anitporter:peptidase T (tripeptide aminopeptidase):->->:599602..599972 371 aagcggttgcttgagtttcttgaatagcagcgttacgaaacctgctactacgagaattaaagcaaggtcttttacgagtacaggaagttctgacataagcagcgttgtaaatgtttgaatagtttattgatgtgttagcatgattcgtcaatgcggaaaatatagtatgctgatgtgcttgtatatagttcgccgatgtgctaatataataaggtggaggcgcattgcccccgctgaaaatacgaacaccacaaactgttctctccgttttccgagctgatagcagcaccgaaatgcggtgagagcagactttgtagtgttcctcttcgtatttatgagccgccgaaagccgacggaattacttctgatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0655:PI0656|PI0655:PI0656:Na+/H+ anitporter:peptidase T (tripeptide aminopeptidase):->->:599602..599972 371 aagcggttgcttgagtttcttgaatagcagcgttacgaaacctgctactacgagaattaaagcaaggtcttttacgagtacaggaagttctgacataagcagcgttgtaaatgtttgaatagtttattgatgtgttagcatgattcgtcaatgcggaaaatatagtatgctgatgtgcttgtatatagttcgccgatgtgctaatataataaggtggaggcgcattgcccccgctgaaaatacgaacaccacaaactgttctctccgttttccgagctgatagcagcaccgaaatgcggtgagagcagactttgtagtgttcctcttcgtatttatgagccgccgaaagccgacggaattacttctgatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0655:PI0656|PI0655:PI0656:Na+/H+ anitporter:peptidase T (tripeptide aminopeptidase):->->:599602..599972 371 aagcggttgcttgagtttcttgaatagcagcgttacgaaacctgctactacgagaattaaagcaaggtcttttacgagtacaggaagttctgacataagcagcgttgtaaatgtttgaatagtttattgatgtgttagcatgattcgtcaatgcggaaaatatagtatgctgatgtgcttgtatatagttcgccgatgtgctaatataataaggtggaggcgcattgcccccgctgaaaatacgaacaccacaaactgttctctccgttttccgagctgatagcagcaccgaaatgcggtgagagcagactttgtagtgttcctcttcgtatttatgagccgccgaaagccgacggaattacttctgatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aagcggttgcttgagtttcttgaatagcagcgttacgaaacctgctactacgagaattaaagcaaggtcttttacgagtacaggaagttctgacataagcagcgttgtaaatgtttgaatagtttattgatgtgttagcatgattcgtcaatgcggaaaatatagtatgctgatgtgcttgtatatagttcgccgatgtgctaatataataaggtggaggcgcattgcccccgctgaaaatacgaacaccacaaactgttctctccgttttccgagctgatagcagcaccgaaatgcggtgagagcagactttgtagtgttcctcttcgtatttatgagccgccgaaagccgacggaattacttctgatta Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 11 End: 115 .......... M S F L N S S V T K P A T T R I K A R S F T S T G S S D I S S V V N V ................................................................................................................................................................................................................................................................ Protein_Len: 46 Strand: + Start: 140 End: 277 ........................................................................................................................................... M I R Q C G K Y S M L M C L Y I V R R C A N I I R W R R I A P A E N T N T T N C S L R F P S .............................................................................................. Protein_Len: 38 Strand: + Start: 256 End: 369 ............................................................................................................................................................................................................................................................... M F S P F S E L I A A P K C G E S R L C S V P L R I Y E P P K A D G I T S D .. Protein_Len: 43 Strand: - Start: 204 End: 332 ........................................................................................................................................................................................................... Y L L T S A C Q G R Q F Y S C W L S N E G N E S S I A A G F H P S L L S Q L T G R R M ....................................... Protein_Len: 60 Strand: - Start: 151 End: 369 ...................................................................................................................................................... R R H A L I I L H L R M A G A S F V F V V F Q E R R K G L Q Y C C R F A T L A S K T T N R K T N I L R R F G V S N S R M .. Protein_Len: 60 Strand: - Start: 2 End: 295 . S Y N I S T N A H N T L A S F I T H Q H A Q I Y N A S T S I Y Y P P P A N G G S F I R V G C V T R E T K R A S L L V S M ............................................................................ Protein_Len: 40 Strand: - Start: 1 End: 120 L P Q K L K K F L L T V F G A V V L I L A L D K V L V P L E S M L L T T F T Q M ........................................................................................................................................................................................................................................................... aagcggttgcttgagtttcttgaatagcagcgttacgaaacctgctactacgagaattaaagcaaggtcttttacgagtacaggaagttctgacataagcagcgttgtaaatgtttgaatagtttattgatgtgttagcatgattcgtcaatgcggaaaatatagtatgctgatgtgcttgtatatagttcgccgatgtgctaatataataaggtggaggcgcattgcccccgctgaaaatacgaacaccacaaactgttctctccgttttccgagctgatagcagcaccgaaatgcggtgagagcagactttgtagtgttcctcttcgtatttatgagccgccgaaagccgacggaattacttctgatta 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================================================ aagcggttgcttgagtttcttgaatagcagcgttacgaaacctgctactacgagaattaaagcaaggtcttttacgagtacaggaagttctgacataagcagcgttgtaaatgtttgaatagtttattgatgtgttagcatgattcgtcaatgcggaaaatatagtatgctgatgtgcttgtatatagttcgccgatgtgctaatataataaggtggaggcgcattgcccccgctgaaaatacgaacaccacaaactgttctctccgttttccgagctgatagcagcaccgaaatgcggtgagagcagactttgtagtgttcctcttcgtatttatgagccgccgaaagccgacggaattacttctgatta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 78 HP_score: -8.4 Tail_Score: -4.07455 Start: 256 End: 308 Full_Region: ggaacactacaaagt ctgctctcaccgcatttcggtgctg ctat cagctcggaaaacggagagaacag tttgtggtgttcgta ...............................................................................................................................................................................................................................................................ctgctctcaccgcatttcggtgctgctatcagctcggaaaacggagagaacag............................................................... Find igs database================================================ Query_seq: PI0655:PI0656|PI0655:PI0656:Na+/H+ anitporter:peptidase T (tripeptide aminopeptidase):->->:599602..599972 371 aagcggttgcttgagtttcttgaatagcagcgttacgaaacctgctactacgagaattaaagcaaggtcttttacgagtacaggaagttctgacataagcagcgttgtaaatgtttgaatagtttattgatgtgttagcatgattcgtcaatgcggaaaatatagtatgctgatgtgcttgtatatagttcgccgatgtgctaatataataaggtggaggcgcattgcccccgctgaaaatacgaacaccacaaactgttctctccgttttccgagctgatagcagcaccgaaatgcggtgagagcagactttgtagtgttcctcttcgtatttatgagccgccgaaagccgacggaattacttctgatta Intra-Species Hit: Count: 1 Min: 1 Max: 371 Len: 371 Subject: pint_PI0655_PI0656|Na+/H+ anitporter:peptidase T (tripeptide aminopeptidase)|POSITIVE:POSITIVE|[599602,599972]|371 HSP 1 e-value: 0.0 bit: 735.0 Len: 371 Query Start:1 Query End:371 Subject Strand: POSITIVE Subject Start: 1 Subject End: 371 aagcggttgcttgagtttcttgaatagcagcgttacgaaacctgctactacgagaattaaagcaaggtcttttacgagtacaggaagttctgacataagcagcgttgtaaatgtttgaatagtttattgatgtgttagcatgattcgtcaatgcggaaaatatagtatgctgatgtgcttgtatatagttcgccgatgtgctaatataataaggtggaggcgcattgcccccgctgaaaatacgaacaccacaaactgttctctccgttttccgagctgatagcagcaccgaaatgcggtgagagcagactttgtagtgttcctcttcgtatttatgagccgccgaaagccgacggaattacttctgatta aagcggttgcttgagtttcttgaatagcagcgttacgaaacctgctactacgagaattaaagcaaggtcttttacgagtacaggaagttctgacataagcagcgttgtaaatgtttgaatagtttattgatgtgttagcatgattcgtcaatgcggaaaatatagtatgctgatgtgcttgtatatagttcgccgatgtgctaatataataaggtggaggcgcattgcccccgctgaaaatacgaacaccacaaactgttctctccgttttccgagctgatagcagcaccgaaatgcggtgagagcagactttgtagtgttcctcttcgtatttatgagccgccgaaagccgacggaattacttctgatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGCGGUUGCUUGAGUUUCUUGAAUAGCAGCGUUACGAAACCUGCUACUACGAGAAUUAAAGCAAGGUCUUUUACGAGUACAGGAAGUUCUGACAUAAGCAGCGUUGUAAAUGUUUGAAUAGUUUAUUGAUGUGUUAGCAUGAUUCGUCAAUGCGGAAAAUAUAGUAUGCUGAUGUGCUUGUAUAUAGUUCGCCGAUGUGCUAAUAUAAUAAGGUGGAGGCGCAUUGCCCCCGCUGAAAAUACGAACACCACAAACUGUUCUCUCCGUUUUCCGAGCUGAUAGCAGCACCGAAAUGCGGUGAGAGCAGACUUUGUAGUGUUCCUCUUCGUAUUUAUGAGCCGCCGAAAGCCGACGGAAUUACUUCUGAUUA ...(((((((((....((((((..((((((.(((....)))))))))...))))))...))))..(((..((((..(((((((((.((((.(((((..((......))..))))).))))..........(((((((((((...(((.....(((((..(((((.((.((......)).)))))))..)))))))).)))))))))))....(((((.(((.....))).)))))........((((((.(((((((((((((.((((((((.(.((((....)))).).)))).)))).))))))))..))))).)))))).)))).)))))..))))..)))...))))).(((((....))))).... (-120.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCAGAAGUAAUUCCGUCGGCUUUCGGCGGCUCAUAAAUACGAAGAGGAACACUACAAAGUCUGCUCUCACCGCAUUUCGGUGCUGCUAUCAGCUCGGAAAACGGAGAGAACAGUUUGUGGUGUUCGUAUUUUCAGCGGGGGCAAUGCGCCUCCACCUUAUUAUAUUAGCACAUCGGCGAACUAUAUACAAGCACAUCAGCAUACUAUAUUUUCCGCAUUGACGAAUCAUGCUAACACAUCAAUAAACUAUUCAAACAUUUACAACGCUGCUUAUGUCAGAACUUCCUGUACUCGUAAAAGACCUUGCUUUAAUUCUCGUAGUAGCAGGUUUCGUAACGCUGCUAUUCAAGAAACUCAAGCAACCGCUU ....(((((((....((((((.....))))))..(((((..........((((((((((((..(((.((((.(((..((((((.((((....))))))))))..))).)))).))))))))))))))).......((((((((((.....))))))...........((((((..((((((....(((((...((......))....)))))....))).....)))....))))))...............................)))).))))).....)))).))).........(((...((((((...((((.(.(((((((((((....))).))))))))).))))....))))))...))) (-99.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 416 309 265 85 33 pint:PI2136|5end_hypothetical_protein_2082605..2082835_POSITIVE 413 306 265 231 182 pint:PI2135|5end_conserved_hypothetical_protein_2082754..2082984_POSITIVE 406 310 263 82 25 pint:PI0842|5end_5-formyltetrahydrofolate_cyclo-ligase_775533..775763_POSITIVE 375 238 191 78 7 pint:PI0592|5end_DNA_mismatch_repair_protein_540795..541025_POSITIVE 373 216 175 176 128 pint:PI0998|5end_possible_flavin_reductase_domain_protein_922696..922926_POSITIVE 369 309 265 82 40 pint:PI0587|5end_conserved_hypothetical_protein_534416..534646_POSITIVE 364 301 262 61 24 pint:PI0810|5end_hypothetical_protein_746743..746973_POSITIVE 364 301 262 56 19 pint:PI0811|5end_protease/hemagglutinin_PrtT,_streptopain_family_746738..746968_POSITIVE 361 238 194 166 117 pint:PI2036|5end_hypothetical_protein_1989239..1989469_POSITIVE 357 293 260 231 198 pint:PI1199|5end_possible_acetyltransferase_1115139..1115369_POSITIVE 356 304 272 110 73 pint:PI0212|5end_surface_protein/internalin-related_protein_204417..204647_POSITIVE 353 327 284 77 17 pint:PI1912|5end_possible_DNA_repair_protein_1856364..1856594_POSITIVE 353 238 191 123 71 pint:PI0005|5end_hypothetical_protein_6984..7214_POSITIVE 346 104 62 74 33 pint:PI1847|5end_conserved_hypothetical_protein;_possible_integral_membrane_protein_1792006..1792236_POSITIVE 346 330 283 182 128 pint:PI0028|5end_aminopeptidase_31559..31789_POSITIVE 345 308 273 220 188 pint:PI0029|5end_glutamine_amidotransferase_(GMP_synthase_(glutamine-hydrolyzing))_32593..32823_POSITIVE 335 317 274 164 109 pint:PI1187|5end_conserved_hypothetical_protein_1106692..1106922_POSITIVE 335 287 242 159 115 pint:PI0870|5end_branched-chain_amino_acid_aminotransferase_805933..806163_POSITIVE 333 290 249 68 22 pint:PI1550|5end_conserved_hypothetical_protein_1467360..1467590_POSITIVE 330 307 261 63 14 pint:PI0492|5end_hypothetical_protein_451701..451931_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 371 316 271 56 1 pint:PI0841|3end_hypothetical_protein_775581..775731_POSITIVE 349 304 273 151 120 pint:PI0063|3end_transcriptional_regulator,_GntR_family_63620..63770_POSITIVE 339 309 264 107 68 pint:PI1548|3end_conserved_hypothetical_protein_1466886..1467036_POSITIVE 318 278 232 49 2 pint:PI2125|3end_D-tyrosyl-tRNA(Tyr)_deacylase_2074979..2075129_POSITIVE 317 237 192 109 55 pint:PI1309|3end_excinuclease_ABC,_A_subunit_1226605..1226755_POSITIVE 316 297 251 130 90 pint:PI2062|3end_type_I_restriction-modification_system_2024008..2024158_POSITIVE 313 234 194 137 95 pint:PI2098|3end_hypothetical_protein_2052473..2052623_POSITIVE 311 300 263 60 26 pint:PI0706|3end_pyridoxal_phosphate_biosynthetic_protein_(4-hydroxythreonine-4-phosphate_dehydrogenase)_643394..643544_POSITIVE 307 298 251 51 5 pint:PI0571|3end_conserved_hypothetical_protein;_possible_permease_516449..516599_POSITIVE 306 298 251 41 7 pint:PI1879|3end_uracil_phosphoribosyltransferase_1821245..1821395_POSITIVE 306 308 265 79 38 pint:PI1794|3end_conserved_hypothetical_protein_1726696..1726846_POSITIVE 306 330 281 76 16 pint:PI1698|3end_subtilisin-like_serine_protease_1616669..1616819_POSITIVE 305 258 213 111 64 pint:PI1857|3end_guanylate_kinase_1804396..1804546_POSITIVE 300 316 271 57 4 pint:PI2166|3end_hypothetical_protein_2112073..2112223_POSITIVE 299 309 266 61 25 pint:PI1719|3end_conserved_hypothetical_protein_1636207..1636357_POSITIVE 299 110 63 63 15 pint:PI1642|3end_conserved_hypothetical_protein_1560439..1560589_POSITIVE 299 268 221 64 8 pint:PI1608|3end_possible_Na+/H+_anti-porter_1536300..1536450_POSITIVE 299 313 273 101 71 pint:PI1491|3end_conserved_hypothetical_protein_1410188..1410338_POSITIVE 299 110 63 63 15 pint:PI0348|3end_conserved_hypothetical_protein_323211..323361_POSITIVE 296 358 320 42 3 pint:PI2158|3end_glycosyl_transferase,_group_2_family_protein_2105347..2105497_POSITIVE