Origin IGS: taaccacttttctctattcctagtctctatcccaaaacgaagacaaagcaaaagagagaaatcttcatcaaaaacgcttgttattcaaagcaaattattatctttgcagatagaataacaagcgttctttgttgatgcagaaatctgcgattgaaagtacttcgctcgtttccaaatcattacctatttagtctatgcaacaaggtaacttctttatcttcaattagatacattttgagaattatctttacgtgtaaagaaatcggcagagaaacgtttttgtagcgtaaatcactgtgaatgaaaataatagggctgcctttcggtttcgtgaaaagcagccctgttcagtctta .........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 taagactgaacagggctgcttttcacgaaaccgaaaggcagccctattattttcattcacagtgatttacgctacaaaaacgtttctctgccgatttctttacacgtaaagataattctcaaaatgtatctaattgaagataaagaagttaccttgttgcatagactaaataggtaatgatttggaaacgagcgaagtactttcaatcgcagatttctgcatcaacaaagaacgcttgttattctatctgcaaagataataatttgctttgaataacaagcgtttttgatgaagatttctctcttttgctttgtcttcgttttgggatagagactaggaatagagaaaagtggtta Mask Tandem Repeat Region ================================================ taaccacttttctctattcctagtctctatcccaaaacgaagacaaagcaaaagagagaaatcttcatcaaaaacgcttgttattcaaagcaaattattatctttgcagatagaataacaagcgttctttgttgatgcagaaatctgcgattgaaagtacttcgctcgtttccaaatcattacctatttagtctatgcaacaaggtaacttctttatcttcaattagatacattttgagaattatctttacgtgtaaagaaatcggcagagaaacgtttttgtagcgtaaatcactgtgaatgaaaataatagggctgcctttcggtttcgtgaaaagcagccctgttcagtctta Find is-nt database================================================ Query_seq: PI0749:PI0750|PI0749:PI0750:hypothetical protein:zinc protease:->->:677530..677885 356 taaccacttttctctattcctagtctctatcccaaaacgaagacaaagcaaaagagagaaatcttcatcaaaaacgcttgttattcaaagcaaattattatctttgcagatagaataacaagcgttctttgttgatgcagaaatctgcgattgaaagtacttcgctcgtttccaaatcattacctatttagtctatgcaacaaggtaacttctttatcttcaattagatacattttgagaattatctttacgtgtaaagaaatcggcagagaaacgtttttgtagcgtaaatcactgtgaatgaaaataatagggctgcctttcggtttcgtgaaaagcagccctgttcagtctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0749:PI0750|PI0749:PI0750:hypothetical protein:zinc protease:->->:677530..677885 356 taaccacttttctctattcctagtctctatcccaaaacgaagacaaagcaaaagagagaaatcttcatcaaaaacgcttgttattcaaagcaaattattatctttgcagatagaataacaagcgttctttgttgatgcagaaatctgcgattgaaagtacttcgctcgtttccaaatcattacctatttagtctatgcaacaaggtaacttctttatcttcaattagatacattttgagaattatctttacgtgtaaagaaatcggcagagaaacgtttttgtagcgtaaatcactgtgaatgaaaataatagggctgcctttcggtttcgtgaaaagcagccctgttcagtctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0749:PI0750|PI0749:PI0750:hypothetical protein:zinc protease:->->:677530..677885 356 taaccacttttctctattcctagtctctatcccaaaacgaagacaaagcaaaagagagaaatcttcatcaaaaacgcttgttattcaaagcaaattattatctttgcagatagaataacaagcgttctttgttgatgcagaaatctgcgattgaaagtacttcgctcgtttccaaatcattacctatttagtctatgcaacaaggtaacttctttatcttcaattagatacattttgagaattatctttacgtgtaaagaaatcggcagagaaacgtttttgtagcgtaaatcactgtgaatgaaaataatagggctgcctttcggtttcgtgaaaagcagccctgttcagtctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaccacttttctctattcctagtctctatcccaaaacgaagacaaagcaaaagagagaaatcttcatcaaaaacgcttgttattcaaagcaaattattatctttgcagatagaataacaagcgttctttgttgatgcagaaatctgcgattgaaagtacttcgctcgtttccaaatcattacctatttagtctatgcaacaaggtaacttctttatcttcaattagatacattttgagaattatctttacgtgtaaagaaatcggcagagaaacgtttttgtagcgtaaatcactgtgaatgaaaataatagggctgcctttcggtttcgtgaaaagcagccctgttcagtctta Predict ORF larger than 30AA ================================================ Protein_Len: 39 Strand: + Start: 16 End: 132 ............... M P S L Y P K T K T K Q K R E I F I K N A C Y S K Q I I I F A D R I T S V L C ................................................................................................................................................................................................................................ Protein_Len: 46 Strand: + Start: 145 End: 282 ................................................................................................................................................ M R L K V L R S F P N H Y L F S L C N K V T S L S S I R Y I L R I I F T C K E I G R E T F L .......................................................................... Protein_Len: 53 Strand: - Start: 183 End: 341 ...................................................................................................................................................................................... R N L R H L L T V E K D E I L Y M K L I I K V H L S I P L S V N K Y R L D S H I F I I P S G K P K T F L M ............... Protein_Len: 31 Strand: - Start: 88 End: 180 ....................................................................................... L L N N D K C I S Y C A N K T S A S I Q S Q F Y K A R K W I M ................................................................................................................................................................................ taaccacttttctctattcctagtctctatcccaaaacgaagacaaagcaaaagagagaaatcttcatcaaaaacgcttgttattcaaagcaaattattatctttgcagatagaataacaagcgttctttgttgatgcagaaatctgcgattgaaagtacttcgctcgtttccaaatcattacctatttagtctatgcaacaaggtaacttctttatcttcaattagatacattttgagaattatctttacgtgtaaagaaatcggcagagaaacgtttttgtagcgtaaatcactgtgaatgaaaataatagggctgcctttcggtttcgtgaaaagcagccctgttcagtctta 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: 82 Start: 307 End: 336 ..................................................................................................................................................................................................................................................................................................................TTTCACGAAACCGAAAGGCAGCCCTATTAT.................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ taaccacttttctctattcctagtctctatcccaaaacgaagacaaagcaaaagagagaaatcttcatcaaaaacgcttgttattcaaagcaaattattatctttgcagatagaataacaagcgttctttgttgatgcagaaatctgcgattgaaagtacttcgctcgtttccaaatcattacctatttagtctatgcaacaaggtaacttctttatcttcaattagatacattttgagaattatctttacgtgtaaagaaatcggcagagaaacgtttttgtagcgtaaatcactgtgaatgaaaataatagggctgcctttcggtttcgtgaaaagcagccctgttcagtctta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0749:PI0750|PI0749:PI0750:hypothetical protein:zinc protease:->->:677530..677885 356 taaccacttttctctattcctagtctctatcccaaaacgaagacaaagcaaaagagagaaatcttcatcaaaaacgcttgttattcaaagcaaattattatctttgcagatagaataacaagcgttctttgttgatgcagaaatctgcgattgaaagtacttcgctcgtttccaaatcattacctatttagtctatgcaacaaggtaacttctttatcttcaattagatacattttgagaattatctttacgtgtaaagaaatcggcagagaaacgtttttgtagcgtaaatcactgtgaatgaaaataatagggctgcctttcggtttcgtgaaaagcagccctgttcagtctta Intra-Species Hit: Count: 1 Min: 1 Max: 356 Len: 356 Subject: pint_PI0749_PI0750|hypothetical protein:zinc protease|POSITIVE:POSITIVE|[677530,677885]|356 HSP 1 e-value: 0.0 bit: 706.0 Len: 356 Query Start:1 Query End:356 Subject Strand: POSITIVE Subject Start: 1 Subject End: 356 taaccacttttctctattcctagtctctatcccaaaacgaagacaaagcaaaagagagaaatcttcatcaaaaacgcttgttattcaaagcaaattattatctttgcagatagaataacaagcgttctttgttgatgcagaaatctgcgattgaaagtacttcgctcgtttccaaatcattacctatttagtctatgcaacaaggtaacttctttatcttcaattagatacattttgagaattatctttacgtgtaaagaaatcggcagagaaacgtttttgtagcgtaaatcactgtgaatgaaaataatagggctgcctttcggtttcgtgaaaagcagccctgttcagtctta taaccacttttctctattcctagtctctatcccaaaacgaagacaaagcaaaagagagaaatcttcatcaaaaacgcttgttattcaaagcaaattattatctttgcagatagaataacaagcgttctttgttgatgcagaaatctgcgattgaaagtacttcgctcgtttccaaatcattacctatttagtctatgcaacaaggtaacttctttatcttcaattagatacattttgagaattatctttacgtgtaaagaaatcggcagagaaacgtttttgtagcgtaaatcactgtgaatgaaaataatagggctgcctttcggtttcgtgaaaagcagccctgttcagtctta Inter-species Hit: Count: 1 Min: 67 Max: 178 Len: 112 Subject: tfor_TF1629_TF1630|hypothetical protein:mobilization protein|POSITIVE:POSITIVE|[1741976,1742161]|186 HSP 1 e-value: 1.0E-33 bit: 145.0 Len: 112 Query Start:67 Query End:178 Subject Strand: NEGATIVE Subject Start: 5 Subject End: 117 ..................................................................atcaaaaacgcttgttattcaaagcaaattattatctttgcag-atagaataacaagcgttctttgttgatgcagaaatctgcgattgaaagtacttcgctcgtttccaaatc.................................................................................................................................................................................. ..................................................................atcaaaaacgcttgttattcaaagcaaatgattatctttgcaatatagaataacaagcgttctttgttgatgtagaaacatgcgacagaaagcacttcgctcgtttccaaatc.................................................................................................................................................................................. Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCAAAAACGCUUGUUAUUCAAAGCAAAUUAUUAUCUUUGCAGAUAGAAUAACAAGCGUUCUUUGUUGAUGCAGAAAUCUGCGAUUGAAAGUACUUCGCUCGUUUCCAAAUC ..((((((((((((((((((...(((((........))))).....)))))))))))))).))))..(((...(((((..((((...........))))..)))))...))) (-32.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUUUGGAAACGAGCGAAGUACUUUCAAUCGCAGAUUUCUGCAUCAACAAAGAACGCUUGUUAUUCUAUCUGCAAAGAUAAUAAUUUGCUUUGAAUAACAAGCGUUUUUGAU (.((((....)))))...............((((....)))).......(((((((((((((((((.....(((((........)))))...)))))))))))))))))... (-36.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 594 67 23 216 172 pint:PI1542|5end_mobilization_protein_1461728..1461958_POSITIVE 594 67 23 92 48 pint:PI1541|5end_hypothetical_protein_1461604..1461834_POSITIVE 334 100 54 74 21 pint:PI1601|5end_hypothetical_protein_1530282..1530512_POSITIVE 311 107 71 50 9 pint:PI1621|5end_hypothetical_protein_1545424..1545654_POSITIVE 306 100 54 74 21 pint:PI2002|5end_hypothetical_protein_1960662..1960892_POSITIVE 306 100 54 62 9 pint:PI1129|5end_hypothetical_protein_1055377..1055607_POSITIVE 306 99 56 183 138 pint:PI0276|5end_anti-restriction_protein_264429..264659_POSITIVE 301 100 54 62 9 pint:PI2144|5end_hypothetical_protein_2091954..2092184_POSITIVE 292 87 41 118 83 pint:PI0272|5end_conserved_hypothetical_protein_262621..262851_POSITIVE 282 88 42 49 7 pint:PI0392|5end_possible_transcriptional_regulator_358344..358574_POSITIVE 278 100 54 74 21 pint:PI1829|5end_hypothetical_protein_1769255..1769485_POSITIVE 278 100 54 205 152 pint:PI0771|5end_conserved_hypothetical_protein_706524..706754_POSITIVE 276 99 55 179 115 pint:PI0819|5end_hypothetical_protein_759414..759644_POSITIVE 274 107 65 200 155 pint:PI0171|5end_hypothetical_protein_163850..164080_POSITIVE 273 110 65 167 121 pint:PI0454|5end_hypothetical_protein_426653..426883_POSITIVE 270 100 54 74 21 pint:PI1076|5end_hypothetical_protein_998893..999123_POSITIVE 269 90 55 145 100 pint:PI0167|5end_hypothetical_protein_163164..163394_POSITIVE 268 48 8 62 22 pint:PI0267|5end_conjugative_transposon_protein,_TraQ_258786..259016_POSITIVE 267 100 54 43 2 pint:PI1799|5end_30S_ribosomal_protein_S2_1732900..1733130_POSITIVE 265 100 52 44 1 pint:PI1086|5end_pyruvate:ferredoxin_oxidoreductase_1006602..1006832_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 334 89 47 151 109 pint:PI0726|3end_hypothetical_protein_659253..659403_POSITIVE 325 39 4 151 115 pint:PI1540|3end_hypothetical_protein_1461771..1461921_POSITIVE 306 100 54 57 4 pint:PI0996|3end_hypothetical_protein_920660..920810_POSITIVE 290 88 41 151 105 pint:PI0275|3end_hypothetical_protein_264489..264639_POSITIVE 277 100 54 116 63 pint:PI0759|3end_hypothetical_protein_693998..694148_POSITIVE 273 83 54 142 113 pint:PI1601|3end_hypothetical_protein_1530454..1530604_POSITIVE 258 99 56 100 62 pint:PI0742|3end_hypothetical_protein_672749..672899_POSITIVE 256 98 52 135 94 pint:PI0940|3end_ribonuclease_G_874429..874579_POSITIVE 250 93 54 150 103 pint:PI0061|3end_hypothetical_protein_60690..60840_POSITIVE 249 99 52 111 56 pint:PI1730|3end_hypothetical_protein_1650367..1650517_POSITIVE 247 107 69 65 17 pint:PI0338|3end_hypothetical_protein_315713..315863_POSITIVE 246 107 69 65 17 pint:PI1631|3end_hypothetical_protein_1552797..1552947_POSITIVE 245 101 63 40 14 pint:PI0140|3end_conserved_hypothetical_protein_132106..132256_POSITIVE 240 110 65 145 98 pint:PI1827|3end_peptidase,_M23/M37_family,_N-terminal_1768602..1768752_POSITIVE 239 104 65 111 76 pint:PI0654|3end_K+-dependent_Na+/Ca+_exchanger_related-protein_597223..597373_POSITIVE 238 100 54 130 77 pint:PI1356|3end_hypothetical_protein_1273340..1273490_POSITIVE 238 100 56 83 39 pint:PI0810|3end_hypothetical_protein_747026..747176_POSITIVE 236 107 61 66 20 pint:PI1635|3end_hypothetical_protein_1554306..1554456_POSITIVE 235 82 41 148 102 pint:PI0717|3end_conserved_hypothetical_protein_653120..653270_POSITIVE 234 83 41 103 61 pint:PI1230|3end_probable_metallo-beta-lactamase_family_protein_1152729..1152879_POSITIVE