Origin IGS: tgttggagttgcgtctgatgccttttcgcctgacgatttcccctttcctttaccacacgatgttattagcagcaatgccaagataaaatataagagcctatttttcataacttttggtttagattagcaaagttacggctattttccgatacttgcaaataaaattatttatttgttaaataagcgataatagtataggattgcaattcttaaataagatgaatttgtaatttattttgtcggtttatgttttaaatattgttatctttgtagtcttaaataaattctatgaatatggaaaatataaccgaagaaacagagaaagtaatgaaagaaccaagcaacgaaaccacccaagagaaggaa .........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 ttccttctcttgggtggtttcgttgcttggttctttcattactttctctgtttcttcggttatattttccatattcatagaatttatttaagactacaaagataacaatatttaaaacataaaccgacaaaataaattacaaattcatcttatttaagaattgcaatcctatactattatcgcttatttaacaaataaataattttatttgcaagtatcggaaaatagccgtaactttgctaatctaaaccaaaagttatgaaaaataggctcttatattttatcttggcattgctgctaataacatcgtgtggtaaaggaaaggggaaatcgtcaggcgaaaaggcatcagacgcaactccaaca Mask Tandem Repeat Region ================================================ tgttggagttgcgtctgatgccttttcgcctgacgatttcccctttcctttaccacacgatgttattagcagcaatgccaagataaaatataagagcctatttttcataacttttggtttagattagcaaagttacggctattttccgatacttgcaaataaaattatttatttgttaaataagcgataatagtataggattgcaattcttaaataagatgaatttgtaatttattttgtcggtttatgttttaaatattgttatctttgtagtcttaaataaattctatgaatatggaaaatataaccgaagaaacagagaaagtaatgaaagaaccaagcaacgaaaccacccaagagaaggaa Find is-nt database================================================ Query_seq: PI0879:PI0880|PI0879:PI0880:hypothetical protein:hypothetical protein:->->:814112..814477 366 tgttggagttgcgtctgatgccttttcgcctgacgatttcccctttcctttaccacacgatgttattagcagcaatgccaagataaaatataagagcctatttttcataacttttggtttagattagcaaagttacggctattttccgatacttgcaaataaaattatttatttgttaaataagcgataatagtataggattgcaattcttaaataagatgaatttgtaatttattttgtcggtttatgttttaaatattgttatctttgtagtcttaaataaattctatgaatatggaaaatataaccgaagaaacagagaaagtaatgaaagaaccaagcaacgaaaccacccaagagaaggaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0879:PI0880|PI0879:PI0880:hypothetical protein:hypothetical protein:->->:814112..814477 366 tgttggagttgcgtctgatgccttttcgcctgacgatttcccctttcctttaccacacgatgttattagcagcaatgccaagataaaatataagagcctatttttcataacttttggtttagattagcaaagttacggctattttccgatacttgcaaataaaattatttatttgttaaataagcgataatagtataggattgcaattcttaaataagatgaatttgtaatttattttgtcggtttatgttttaaatattgttatctttgtagtcttaaataaattctatgaatatggaaaatataaccgaagaaacagagaaagtaatgaaagaaccaagcaacgaaaccacccaagagaaggaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0879:PI0880|PI0879:PI0880:hypothetical protein:hypothetical protein:->->:814112..814477 366 tgttggagttgcgtctgatgccttttcgcctgacgatttcccctttcctttaccacacgatgttattagcagcaatgccaagataaaatataagagcctatttttcataacttttggtttagattagcaaagttacggctattttccgatacttgcaaataaaattatttatttgttaaataagcgataatagtataggattgcaattcttaaataagatgaatttgtaatttattttgtcggtttatgttttaaatattgttatctttgtagtcttaaataaattctatgaatatggaaaatataaccgaagaaacagagaaagtaatgaaagaaccaagcaacgaaaccacccaagagaaggaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgttggagttgcgtctgatgccttttcgcctgacgatttcccctttcctttaccacacgatgttattagcagcaatgccaagataaaatataagagcctatttttcataacttttggtttagattagcaaagttacggctattttccgatacttgcaaataaaattatttatttgttaaataagcgataatagtataggattgcaattcttaaataagatgaatttgtaatttattttgtcggtttatgttttaaatattgttatctttgtagtcttaaataaattctatgaatatggaaaatataaccgaagaaacagagaaagtaatgaaagaaccaagcaacgaaaccacccaagagaaggaa Predict ORF larger than 30AA ================================================ Protein_Len: 44 Strand: + Start: 234 End: 365 ......................................................................................................................................................................................................................................... M L S V Y V L N I V I F V V L N K F Y E Y G K Y N R R N R E S N E R T K Q R N H P R E G . Protein_Len: 31 Strand: - Start: 265 End: 357 ........................................................................................................................................................................................................................................................................ R Q L R L Y I R H I H F I Y G F F C L F Y H F F W A V F G G M ......... Protein_Len: 36 Strand: - Start: 1 End: 108 T P T A D S A K E G S S K G K G K G C S T I L L L A L I F Y L L R N K M .................................................................................................................................................................................................................................................................. tgttggagttgcgtctgatgccttttcgcctgacgatttcccctttcctttaccacacgatgttattagcagcaatgccaagataaaatataagagcctatttttcataacttttggtttagattagcaaagttacggctattttccgatacttgcaaataaaattatttatttgttaaataagcgataatagtataggattgcaattcttaaataagatgaatttgtaatttattttgtcggtttatgttttaaatattgttatctttgtagtcttaaataaattctatgaatatggaaaatataaccgaagaaacagagaaagtaatgaaagaaccaagcaacgaaaccacccaagagaaggaa Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: + Score: 81 Start: 172 End: 201 ...........................................................................................................................................................................TTTGTTAAATAAGCGATAATAGTATAGGAT..................................................................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tgttggagttgcgtctgatgccttttcgcctgacgatttcccctttcctttaccacacgatgttattagcagcaatgccaagataaaatataagagcctatttttcataacttttggtttagattagcaaagttacggctattttccgatacttgcaaataaaattatttatttgttaaataagcgataatagtataggattgcaattcttaaataagatgaatttgtaatttattttgtcggtttatgttttaaatattgttatctttgtagtcttaaataaattctatgaatatggaaaatataaccgaagaaacagagaaagtaatgaaagaaccaagcaacgaaaccacccaagagaaggaa Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 66 HP_score: -3.3 Tail_Score: -4.87803 Start: 165 End: 183 Full_Region: ctatactattatcgc ttattta acaaa taaataa ttttatttgcaagta ....................................................................................................................................................................ttatttaacaaataaataa....................................................................................................................................................................................... Find igs database================================================ Query_seq: PI0879:PI0880|PI0879:PI0880:hypothetical protein:hypothetical protein:->->:814112..814477 366 tgttggagttgcgtctgatgccttttcgcctgacgatttcccctttcctttaccacacgatgttattagcagcaatgccaagataaaatataagagcctatttttcataacttttggtttagattagcaaagttacggctattttccgatacttgcaaataaaattatttatttgttaaataagcgataatagtataggattgcaattcttaaataagatgaatttgtaatttattttgtcggtttatgttttaaatattgttatctttgtagtcttaaataaattctatgaatatggaaaatataaccgaagaaacagagaaagtaatgaaagaaccaagcaacgaaaccacccaagagaaggaa Intra-Species Hit: Count: 1 Min: 1 Max: 366 Len: 366 Subject: pint_PI0879_PI0880|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[814112,814477]|366 HSP 1 e-value: 0.0 bit: 726.0 Len: 366 Query Start:1 Query End:366 Subject Strand: POSITIVE Subject Start: 1 Subject End: 366 tgttggagttgcgtctgatgccttttcgcctgacgatttcccctttcctttaccacacgatgttattagcagcaatgccaagataaaatataagagcctatttttcataacttttggtttagattagcaaagttacggctattttccgatacttgcaaataaaattatttatttgttaaataagcgataatagtataggattgcaattcttaaataagatgaatttgtaatttattttgtcggtttatgttttaaatattgttatctttgtagtcttaaataaattctatgaatatggaaaatataaccgaagaaacagagaaagtaatgaaagaaccaagcaacgaaaccacccaagagaaggaa tgttggagttgcgtctgatgccttttcgcctgacgatttcccctttcctttaccacacgatgttattagcagcaatgccaagataaaatataagagcctatttttcataacttttggtttagattagcaaagttacggctattttccgatacttgcaaataaaattatttatttgttaaataagcgataatagtataggattgcaattcttaaataagatgaatttgtaatttattttgtcggtttatgttttaaatattgttatctttgtagtcttaaataaattctatgaatatggaaaatataaccgaagaaacagagaaagtaatgaaagaaccaagcaacgaaaccacccaagagaaggaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUUGGAGUUGCGUCUGAUGCCUUUUCGCCUGACGAUUUCCCCUUUCCUUUACCACACGAUGUUAUUAGCAGCAAUGCCAAGAUAAAAUAUAAGAGCCUAUUUUUCAUAACUUUUGGUUUAGAUUAGCAAAGUUACGGCUAUUUUCCGAUACUUGCAAAUAAAAUUAUUUAUUUGUUAAAUAAGCGAUAAUAGUAUAGGAUUGCAAUUCUUAAAUAAGAUGAAUUUGUAAUUUAUUUUGUCGGUUUAUGUUUUAAAUAUUGUUAUCUUUGUAGUCUUAAAUAAAUUCUAUGAAUAUGGAAAAUAUAACCGAAGAAACAGAGAAAGUAAUGAAAGAACCAAGCAACGAAACCACCCAAGAGAAGGAA ....((((...((((....((......))..))))..))))((((..(((.......((.((((....(((....)))......................((((((((.((((((.((((......(((((((....((((((.(((.......(((((((((....))))))))).......).)).))))))...(((((((((.((((....)))).....))))))))))))))))(((((.(((((((..(((((((....(((((........)))))....)).)))))..))))))))))))...))))...)))))).))))))))....)))).)).........)))..)))).. (-69.73) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUCCUUCUCUUGGGUGGUUUCGUUGCUUGGUUCUUUCAUUACUUUCUCUGUUUCUUCGGUUAUAUUUUCCAUAUUCAUAGAAUUUAUUUAAGACUACAAAGAUAACAAUAUUUAAAACAUAAACCGACAAAAUAAAUUACAAAUUCAUCUUAUUUAAGAAUUGCAAUCCUAUACUAUUAUCGCUUAUUUAACAAAUAAAUAAUUUUAUUUGCAAGUAUCGGAAAAUAGCCGUAACUUUGCUAAUCUAAACCAAAAGUUAUGAAAAAUAGGCUCUUAUAUUUUAUCUUGGCAUUGCUGCUAAUAACAUCGUGUGGUAAAGGAAAGGGGAAAUCGUCAGGCGAAAAGGCAUCAGACGCAACUCCAACA ((((((..((..((((........(((((....((((((.(((((...(((((..((((((.............((.((((.....)))).))......(((((....)))))........))))))..)))))......................(((...((((...(((.(((((.((...(((((..((((((((....)))))))).)))))...)).)))))..)))...))))...)))......))))).))))))..)))))..............((((((....))))))...))))....))..)))))).((((....((((..((......))....))))...)))).... (-61.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 354 48 6 230 168 pint:PI0263|5end_conjugative_transposon_protein,_TraM_255256..255486_POSITIVE 345 49 3 69 17 pint:PI1637|5end_hypothetical_protein_1554500..1554730_POSITIVE 311 80 31 66 17 pint:PI0207|5end_conserved_hypothetical_protein_199797..200027_POSITIVE 308 97 52 68 19 pint:PI1524|5end_phosphatidylserine_decarboxylase_1445924..1446154_POSITIVE 297 46 1 183 121 pint:PI1430|5end_subtilisin-like_serine_proteinase_1349598..1349828_POSITIVE 296 62 26 136 101 pint:PI0989|5end_mannose-1-phosphate_guanylyltransferase_912833..913063_POSITIVE 295 47 1 224 171 pint:PI0627|5end_conserved_hypothetical_protein_575618..575848_POSITIVE 290 49 4 154 110 pint:PI0253|5end_conjugative_transposon_protein,_TraD_248294..248524_POSITIVE 285 79 31 225 187 pint:PI2074|5end_conserved_hypothetical_protein_2033660..2033890_POSITIVE 283 162 127 194 159 pint:PI0435|5end_30S_ribosomal_protein_S21_406997..407227_POSITIVE 281 48 1 174 119 pint:PI0701|5end_hypothetical_protein_638356..638586_POSITIVE 280 39 1 185 143 pint:PI0080|5end_hypothetical_protein_79047..79277_POSITIVE 276 59 12 200 148 pint:PI2145|5end_hypothetical_protein_2092213..2092443_POSITIVE 276 34 1 221 190 pint:PI1779|5end_16S_rRNA_processing_protein_1711335..1711565_POSITIVE 274 62 26 228 187 pint:PI0257|5end_conjugative_transposon_protein,_TraF_249348..249578_POSITIVE 273 360 315 159 102 pint:PI1070|5end_peptidoglycan-associated_lipoprotein_986110..986340_POSITIVE 273 50 1 202 140 pint:PI0171|5end_hypothetical_protein_163850..164080_POSITIVE 271 36 1 106 65 pint:PI0645|5end_hypothetical_protein_586419..586649_POSITIVE 271 36 1 85 44 pint:PI0643|5end_hypothetical_protein_586398..586628_POSITIVE 270 57 15 210 170 pint:PI1463|5end_fumarate_hydratase,_class_I_1385349..1385579_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 308 50 1 133 84 pint:PI1712|3end_hypothetical_protein_1627774..1627924_POSITIVE 281 48 1 151 96 pint:PI0700|3end_UDP-glucose_4-epimerase_638413..638563_POSITIVE 280 50 1 104 44 pint:PI0434|3end_possible_beta-lactamase_406890..407040_POSITIVE 273 360 315 135 78 pint:PI1068|3end_nucleolar_protein,_Sun_(Fmu)_family_protein;_tRNA/rRNA_cytosine-C5-methylase_986166..986316_POSITIVE 267 41 2 52 14 pint:PI0383|3end_conserved_hypothetical_protein;_possible_Zn-dependent_hydrolase_352901..353051_POSITIVE 264 36 11 148 123 pint:PI0790|3end_hypothetical_protein_729206..729356_POSITIVE 264 36 11 51 26 pint:PI0791|3end_conserved_hypothetical_protein_729109..729259_POSITIVE 262 80 32 46 1 pint:PI1943|3end_hypothetical_protein_1902206..1902356_POSITIVE 262 83 41 137 89 pint:PI0353|3end_hypothetical_protein_325337..325487_POSITIVE 261 64 25 62 23 pint:PI0187|3end_hypothetical_protein_178211..178361_POSITIVE 260 60 13 88 19 pint:PI2085|3end_conserved_hypothetical_protein_2041803..2041953_POSITIVE 260 44 4 73 37 pint:PI0731|3end_conserved_hypothetical_protein_663673..663823_POSITIVE 257 97 54 63 22 pint:PI0105|3end_possible_sulfatase_101453..101603_POSITIVE 254 37 5 70 32 pint:PI0728|3end_integrase_661508..661658_POSITIVE 253 59 12 75 14 pint:PI0634|3end_conserved_hypothetical_protein_581121..581271_POSITIVE 252 49 2 114 73 pint:PI1264|3end_hypothetical_protein_1185074..1185224_POSITIVE 250 349 311 107 68 pint:PI1422|3end_hypothetical_protein_1341942..1342092_POSITIVE 247 50 4 150 104 pint:PI0274|3end_conserved_hypothetical_protein_263187..263337_POSITIVE 246 37 1 102 56 pint:PI1962|3end_conserved_hypothetical_protein_1920706..1920856_POSITIVE 246 48 1 103 56 pint:PI0817|3end_glycosyl_transferase,_group_1_family_protein_758209..758359_POSITIVE