Origin IGS: taattcgacaacataatatgaataccaaatattttgaacatatcgtagtatatctgtccgttcttgttgtttgtgtcattattgcgttatttgcaagagtggttgcc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ggcaaccactcttgcaaataacgcaataatgacacaaacaacaagaacggacagatatactacgatatgttcaaaatatttggtattcatattatgttgtcgaatta Mask Tandem Repeat Region ================================================ taattcgacaacataatatgaataccaaatattttgaacatatcgtagtatatctgtccgttcttgttgtttgtgtcattattgcgttatttgcaagagtggttgcc Find is-nt database================================================ Query_seq: PI0499:PI0500|PI0499:PI0500:integrase, C-terminal region:mobilizable transposon, tnpC protein:->->:460707..460813 107 taattcgacaacataatatgaataccaaatattttgaacatatcgtagtatatctgtccgttcttgttgtttgtgtcattattgcgttatttgcaagagtggttgcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0499:PI0500|PI0499:PI0500:integrase, C-terminal region:mobilizable transposon, tnpC protein:->->:460707..460813 107 taattcgacaacataatatgaataccaaatattttgaacatatcgtagtatatctgtccgttcttgttgtttgtgtcattattgcgttatttgcaagagtggttgcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0499:PI0500|PI0499:PI0500:integrase, C-terminal region:mobilizable transposon, tnpC protein:->->:460707..460813 107 taattcgacaacataatatgaataccaaatattttgaacatatcgtagtatatctgtccgttcttgttgtttgtgtcattattgcgttatttgcaagagtggttgcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taattcgacaacataatatgaataccaaatattttgaacatatcgtagtatatctgtccgttcttgttgtttgtgtcattattgcgttatttgcaagagtggttgcc Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 3 End: 107 .. M R Q H N M N T K Y F E H I V V Y L S V L V V C V I I A L F A R V V A taattcgacaacataatatgaataccaaatattttgaacatatcgtagtatatctgtccgttcttgttgtttgtgtcattattgcgttatttgcaagagtggttgcc 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================================================ taattcgacaacataatatgaataccaaatattttgaacatatcgtagtatatctgtccgttcttgttgtttgtgtcattattgcgttatttgcaagagtggttgcc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0499:PI0500|PI0499:PI0500:integrase, C-terminal region:mobilizable transposon, tnpC protein:->->:460707..460813 107 taattcgacaacataatatgaataccaaatattttgaacatatcgtagtatatctgtccgttcttgttgtttgtgtcattattgcgttatttgcaagagtggttgcc Intra-Species Hit: Count: 1 Min: 1 Max: 107 Len: 107 Subject: pint_PI0499_PI0500|integrase, C-terminal region:mobilizable transposon, tnpC protein|POSITIVE:POSITIVE|[460707,460813]|107 HSP 1 e-value: 2.0E-54 bit: 212.0 Len: 107 Query Start:1 Query End:107 Subject Strand: POSITIVE Subject Start: 1 Subject End: 107 taattcgacaacataatatgaataccaaatattttgaacatatcgtagtatatctgtccgttcttgttgtttgtgtcattattgcgttatttgcaagagtggttgcc taattcgacaacataatatgaataccaaatattttgaacatatcgtagtatatctgtccgttcttgttgtttgtgtcattattgcgttatttgcaagagtggttgcc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUCGACAACAUAAUAUGAAUACCAAAUAUUUUGAACAUAUCGUAGUAUAUCUGUCCGUUCUUGUUGUUUGUGUCAUUAUUGCGUUAUUUGCAAGAGUGGUUGCC ......(((((((....(((.(((....(((((.(((.....))).)))))...))).)))...)))))))....(((((.(((((.....))))).)))))..... (-16.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGCAACCACUCUUGCAAAUAACGCAAUAAUGACACAAACAACAAGAACGGACAGAUAUACUACGAUAUGUUCAAAAUAUUUGGUAUUCAUAUUAUGUUGUCGAAUUA ((((((.....((((.......))))...........................((.((((((.(((((.......))))))))))))).......))))))...... (-15.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 317 87 41 222 165 pint:PI0559|5end_conserved_hypothetical_protein_507668..507898_POSITIVE 296 100 57 163 117 pint:PI1549|5end_conserved_hypothetical_protein_1467021..1467251_POSITIVE 265 99 58 145 111 pint:PI0573|5end_aminopeptidase_C_(bleomycin_hydrolase)_517832..518062_POSITIVE 260 95 54 78 31 pint:PI0935|5end_collagenase,_protease_866297..866527_POSITIVE 257 100 52 186 132 pint:PI0742|5end_hypothetical_protein_672394..672624_POSITIVE 254 85 43 127 82 pint:PI1437|5end_hypothetical_protein_1356088..1356318_POSITIVE 253 76 40 209 173 pint:PI1191|5end_phosphoribosyl_pyrophosphate_synthetase_1109464..1109694_POSITIVE 249 88 41 54 4 pint:PI0331|5end_hypothetical_protein_311656..311886_POSITIVE 247 88 43 221 174 pint:PI1203|5end_conserved_hypothetical_protein_1121489..1121719_POSITIVE 245 98 54 190 147 pint:PI0261|5end_conjugative_transposon_protein,_TraK_254065..254295_POSITIVE 244 100 55 95 45 pint:PI0361|5end_hypothetical_protein_333062..333292_POSITIVE 243 94 55 39 1 pint:PI0819|5end_hypothetical_protein_759414..759644_POSITIVE 241 95 55 52 6 pint:PI1382|5end_hypothetical_protein_1303608..1303838_POSITIVE 240 88 45 189 151 pint:PI1097|5end_acetyltransferase,_GNAT_family_1021443..1021673_POSITIVE 239 98 53 139 82 pint:PI0466|5end_30S_ribosomal_protein_S3_435725..435955_POSITIVE 236 78 39 202 153 pint:PI1630|5end_hypothetical_protein_1552127..1552357_POSITIVE 236 74 36 67 24 pint:PI1110|5end_probable_glycosyltransferase,_family_8_1033669..1033899_POSITIVE 236 86 43 44 4 pint:PI0676|5end_hypothetical_protein_614576..614806_POSITIVE 235 100 54 116 51 pint:PI2100|5end_conserved_hypothetical_protein_2053351..2053581_POSITIVE 235 88 44 211 166 pint:PI0932|5end_conserved_hypothetical_protein;_possible_hemin_receptor_863854..864084_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 280 95 54 151 110 pint:PI0363|3end_hypothetical_protein_333760..333910_POSITIVE 260 94 52 137 91 pint:PI0758|3end_hypothetical_protein_690506..690656_POSITIVE 257 100 52 77 23 pint:PI0740|3end_hypothetical_protein_672365..672515_POSITIVE 247 87 41 78 31 pint:PI0358|3end_hypothetical_protein_328105..328255_POSITIVE 241 94 54 135 91 pint:PI1873|3end_hypothetical_protein_1818419..1818569_POSITIVE 239 98 53 127 70 pint:PI0465|3end_50S_ribosomal_protein_L22_435793..435943_POSITIVE 236 90 41 91 46 pint:PI0145|3end_secDF_export_membrane_protein_139724..139874_POSITIVE 234 77 44 40 5 pint:PI2036|3end_hypothetical_protein_1989516..1989666_POSITIVE 234 95 53 112 55 pint:PI0334|3end_hypothetical_protein_313598..313748_POSITIVE 234 95 53 66 9 pint:PI0332|3end_conserved_hypothetical_protein_313552..313702_POSITIVE 233 100 51 86 37 pint:PI1397|3end_histidine_ammonia-lyase_1319431..1319581_POSITIVE 231 88 43 86 47 pint:PI2133|3end_collagenase_2082319..2082469_POSITIVE 229 95 54 142 104 pint:PI1646|3end_hypothetical_protein_1563128..1563278_POSITIVE 228 89 41 70 28 pint:PI2016|3end_ribosomal_large_subunit_pseudouridine_synthase_D_1974933..1975083_POSITIVE 224 80 44 75 34 pint:PI1173|3end_transcription_regulatory_protein,_LacI_family_1096192..1096342_POSITIVE 222 100 53 56 13 pint:PI0114|3end_hypothetical_protein_108527..108677_POSITIVE 221 77 32 142 106 pint:PI1824|3end_ThiJ/PfpI_family_protein_1765005..1765155_POSITIVE 221 100 55 68 17 pint:PI1189|3end_conserved_hypothetical_protein_1108768..1108918_POSITIVE 221 100 60 128 78 pint:PI0681|3end_hypothetical_protein_619256..619406_POSITIVE 220 94 53 144 108 pint:PI0674|3end_conserved_hypothetical_protein_616154..616304_POSITIVE