Origin IGS: tagagaagatatgtatcggactaagacttgtggcgaacttcgcttaatagatgctggtaaggaagtagtacttgcgggctgggttcagcgctcacgtaagatgggtggt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 accacccatcttacgtgagcgctgaacccagcccgcaagtactacttccttaccagcatctattaagcgaagttcgccacaagtcttagtccgatacatatcttctcta Mask Tandem Repeat Region ================================================ tagagaagatatgtatcggactaagacttgtggcgaacttcgcttaatagatgctggtaaggaagtagtacttgcgggctgggttcagcgctcacgtaagatgggtggt Find is-nt database================================================ Query_seq: PI0984:PI0985|PI0984:PI0985:hypothetical protein:aspartyl-tRNA synthetase:->->:910205..910313 109 tagagaagatatgtatcggactaagacttgtggcgaacttcgcttaatagatgctggtaaggaagtagtacttgcgggctgggttcagcgctcacgtaagatgggtggt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0984:PI0985|PI0984:PI0985:hypothetical protein:aspartyl-tRNA synthetase:->->:910205..910313 109 tagagaagatatgtatcggactaagacttgtggcgaacttcgcttaatagatgctggtaaggaagtagtacttgcgggctgggttcagcgctcacgtaagatgggtggt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0984:PI0985|PI0984:PI0985:hypothetical protein:aspartyl-tRNA synthetase:->->:910205..910313 109 tagagaagatatgtatcggactaagacttgtggcgaacttcgcttaatagatgctggtaaggaagtagtacttgcgggctgggttcagcgctcacgtaagatgggtggt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagagaagatatgtatcggactaagacttgtggcgaacttcgcttaatagatgctggtaaggaagtagtacttgcgggctgggttcagcgctcacgtaagatgggtggt Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 11 End: 109 .......... M Y R T K T C G E L R L I D A G K E V V L A G W V Q R S R K M G G tagagaagatatgtatcggactaagacttgtggcgaacttcgcttaatagatgctggtaaggaagtagtacttgcgggctgggttcagcgctcacgtaagatgggtggt 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================================================ tagagaagatatgtatcggactaagacttgtggcgaacttcgcttaatagatgctggtaaggaagtagtacttgcgggctgggttcagcgctcacgtaagatgggtggt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0984:PI0985|PI0984:PI0985:hypothetical protein:aspartyl-tRNA synthetase:->->:910205..910313 109 tagagaagatatgtatcggactaagacttgtggcgaacttcgcttaatagatgctggtaaggaagtagtacttgcgggctgggttcagcgctcacgtaagatgggtggt Intra-Species Hit: Count: 1 Min: 1 Max: 109 Len: 109 Subject: pint_PI0984_PI0985|hypothetical protein:aspartyl-tRNA synthetase|POSITIVE:POSITIVE|[910205,910313]|109 HSP 1 e-value: 1.0E-55 bit: 216.0 Len: 109 Query Start:1 Query End:109 Subject Strand: POSITIVE Subject Start: 1 Subject End: 109 tagagaagatatgtatcggactaagacttgtggcgaacttcgcttaatagatgctggtaaggaagtagtacttgcgggctgggttcagcgctcacgtaagatgggtggt tagagaagatatgtatcggactaagacttgtggcgaacttcgcttaatagatgctggtaaggaagtagtacttgcgggctgggttcagcgctcacgtaagatgggtggt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGAGAAGAUAUGUAUCGGACUAAGACUUGUGGCGAACUUCGCUUAAUAGAUGCUGGUAAGGAAGUAGUACUUGCGGGCUGGGUUCAGCGCUCACGUAAGAUGGGUGGU .................(((((....((...((((.....))))....))..(((.(((((.........))))).)))..)))))..(((((((....).)))))).. (-28.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACCACCCAUCUUACGUGAGCGCUGAACCCAGCCCGCAAGUACUACUUCCUUACCAGCAUCUAUUAAGCGAAGUUCGCCACAAGUCUUAGUCCGAUACAUAUCUUCUCUA .......(((....(((.(.((((....))))))))..((...(((((((((..((...))..)))).)))))..))...............))).............. (-15.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 384 98 60 46 7 pint:PI0384|5end_probable_radical_SAM_domain_protein_352884..353114_POSITIVE 361 99 56 142 90 pint:PI1157|5end_hypothetical_protein_1081704..1081934_POSITIVE 350 99 53 68 21 pint:PI1480|5end_xanthine/uracil_permease_family_protein_1402675..1402905_POSITIVE 343 80 32 162 92 pint:PI0546|5end_hypothetical_protein_497799..498029_POSITIVE 335 97 51 109 58 pint:PI1446|5end_conserved_hypothetical_protein_1369027..1369257_POSITIVE 335 80 31 187 142 pint:PI1046|5end_hypothetical_protein_965792..966022_POSITIVE 318 96 65 170 137 pint:PI2176|5end_conserved_hypothetical_protein_2116484..2116714_POSITIVE 316 100 52 64 10 pint:PI1749|5end_conserved_hypothetical_protein_1671039..1671269_POSITIVE 314 99 54 77 27 pint:PI1460|5end_ribonucleotide_reductase,_alpha_subunit,_N-terminal_region_1382215..1382445_POSITIVE 313 79 31 82 30 pint:PI1086|5end_pyruvate:ferredoxin_oxidoreductase_1006602..1006832_POSITIVE 313 96 53 223 163 pint:PI0334|5end_hypothetical_protein_313234..313464_POSITIVE 313 80 31 221 174 pint:PI0331|5end_hypothetical_protein_311656..311886_POSITIVE 311 97 53 51 8 pint:PI1935|5end_possible__internalin-related_protein_1883324..1883554_POSITIVE 311 93 51 119 78 pint:PI1617|5end_hypothetical_protein_1542923..1543153_POSITIVE 310 98 61 39 1 pint:PI1763|5end_two-component_system_sensor_histidine_kinase/response_regulator_1685877..1686107_POSITIVE 309 57 16 65 27 pint:PI1347|5end_DNA_damage-inducible_protein_1261130..1261360_POSITIVE 306 78 32 108 53 pint:PI1164|5end_hypothetical_protein_1088203..1088433_POSITIVE 301 90 41 190 142 pint:PI1974|5end_hypothetical_protein_1931193..1931423_POSITIVE 301 98 52 94 35 pint:PI1551|5end_HesA/MoeB/ThiF_family_protein_1467787..1468017_POSITIVE 301 95 54 48 7 pint:PI0441|5end_50S_ribosomal_protein_L11_411182..411412_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 380 95 51 128 78 pint:PI1143|3end_hypothetical_protein_1070504..1070654_POSITIVE 361 99 56 139 87 pint:PI1156|3end_possible_glycerate_kinase_family_protein_1081781..1081931_POSITIVE 350 99 53 60 13 pint:PI1479|3end_xanthine_phosphoribosyltransferase_1402747..1402897_POSITIVE 343 80 32 150 80 pint:PI0545|3end_sugar_kinase_497867..498017_POSITIVE 335 97 51 75 24 pint:PI1445|3end_hypothetical_protein_1369073..1369223_POSITIVE 318 96 65 132 99 pint:PI2175|3end_RNA_polymerase_sigma-54_2116526..2116676_POSITIVE 314 99 54 90 40 pint:PI1459|3end_ribonucleotide_reductase,_alpha_subunit,_C-terminal_region_1382308..1382458_POSITIVE 314 75 31 148 114 pint:PI0835|3end_conserved_hypothetical_protein;_possible_protein-export_membrane_protein_771859..772009_POSITIVE 306 78 32 69 14 pint:PI1163|3end_single-strand_DNA_binding_protein_1088244..1088394_POSITIVE 301 90 41 88 40 pint:PI1973|3end_conserved_hypothetical_protein_1931171..1931321_POSITIVE 297 100 51 129 65 pint:PI0345|3end_conserved_hypothetical_protein_320809..320959_POSITIVE 295 45 13 38 2 pint:PI2111|3end_conserved_hypothetical_protein_2063258..2063408_POSITIVE 295 57 11 112 63 pint:PI0865|3end_possible_phosphoglycerol_transferase_803684..803834_POSITIVE 295 89 41 142 78 pint:PI0607|3end_2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxy_lic_acid_synthase/2-oxoglutarate_decarboxylase_555548..555698_POSITIVE 294 89 41 84 27 pint:PI1660|3end_hypothetical_protein_1575005..1575155_POSITIVE 293 92 51 126 79 pint:PI0221|3end_DNA_methylase,_site-specific_DNA-methyltransferase_(adenine-specific)_217796..217946_POSITIVE 291 90 42 119 73 pint:PI1945|3end_ribonuclease_HII_1902587..1902737_POSITIVE 291 70 28 81 36 pint:PI0684|3end_coproporphyrinogen_III_oxidase_620507..620657_POSITIVE 290 90 45 90 28 pint:PI1501|3end_GTP-binding_elongation_factor_family_protein_TypA/BipA_1423246..1423396_POSITIVE 290 100 63 83 54 pint:PI1057|3end_hypothetical_protein_977548..977698_POSITIVE