Origin IGS: atcttcttcctcagagaacgagtcgcaacccgcttcacctgccattgctactaagagttcgcgcactaattcggtatctggactaaccttaaatgttatttgtaggtacttcattacaatttgtttttatatattgcaaatgtacaaataaaatatttaaatcggtaaaaaaggcaatgcattaatctgtttcgctgctttatgaaactggctatatagcgaacatattgtaaatataattccgaagaaaaatgatagtttcgat .........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 atcgaaactatcatttttcttcggaattatatttacaatatgttcgctatatagccagtttcataaagcagcgaaacagattaatgcattgccttttttaccgatttaaatattttatttgtacatttgcaatatataaaaacaaattgtaatgaagtacctacaaataacatttaaggttagtccagataccgaattagtgcgcgaactcttagtagcaatggcaggtgaagcgggttgcgactcgttctctgaggaagaagat Mask Tandem Repeat Region ================================================ atcttcttcctcagagaacgagtcgcaacccgcttcacctgccattgctactaagagttcgcgcactaattcggtatctggactaaccttaaatgttatttgtaggtacttcattacaatttgtttttatatattgcaaatgtacaaataaaatatttaaatcggtaaaaaaggcaatgcattaatctgtttcgctgctttatgaaactggctatatagcgaacatattgtaaatataattccgaagaaaaatgatagtttcgat Find is-nt database================================================ Query_seq: PI0925:PI0926|PI0925:PI0926:ribosomal protein L11 methyltransferase:hypothetical protein:->->:856699..856963 265 atcttcttcctcagagaacgagtcgcaacccgcttcacctgccattgctactaagagttcgcgcactaattcggtatctggactaaccttaaatgttatttgtaggtacttcattacaatttgtttttatatattgcaaatgtacaaataaaatatttaaatcggtaaaaaaggcaatgcattaatctgtttcgctgctttatgaaactggctatatagcgaacatattgtaaatataattccgaagaaaaatgatagtttcgat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0925:PI0926|PI0925:PI0926:ribosomal protein L11 methyltransferase:hypothetical protein:->->:856699..856963 265 atcttcttcctcagagaacgagtcgcaacccgcttcacctgccattgctactaagagttcgcgcactaattcggtatctggactaaccttaaatgttatttgtaggtacttcattacaatttgtttttatatattgcaaatgtacaaataaaatatttaaatcggtaaaaaaggcaatgcattaatctgtttcgctgctttatgaaactggctatatagcgaacatattgtaaatataattccgaagaaaaatgatagtttcgat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0925:PI0926|PI0925:PI0926:ribosomal protein L11 methyltransferase:hypothetical protein:->->:856699..856963 265 atcttcttcctcagagaacgagtcgcaacccgcttcacctgccattgctactaagagttcgcgcactaattcggtatctggactaaccttaaatgttatttgtaggtacttcattacaatttgtttttatatattgcaaatgtacaaataaaatatttaaatcggtaaaaaaggcaatgcattaatctgtttcgctgctttatgaaactggctatatagcgaacatattgtaaatataattccgaagaaaaatgatagtttcgat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atcttcttcctcagagaacgagtcgcaacccgcttcacctgccattgctactaagagttcgcgcactaattcggtatctggactaaccttaaatgttatttgtaggtacttcattacaatttgtttttatatattgcaaatgtacaaataaaatatttaaatcggtaaaaaaggcaatgcattaatctgtttcgctgctttatgaaactggctatatagcgaacatattgtaaatataattccgaagaaaaatgatagtttcgat Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 44 End: 148 ........................................... M A T K S S R T N S V S G L T L N V I C R Y F I T I C F Y I L Q M Y K ..................................................................................................................... Protein_Len: 30 Strand: + Start: 93 End: 182 ............................................................................................ M L F V G T S L Q F V F I Y C K C T N K I F K S V K K A M H ................................................................................... Protein_Len: 33 Strand: - Start: 117 End: 215 .................................................................................................................... L K N K Y I A F T C I F Y K F R Y F L C H M L R N R Q K I F S A M .................................................. Protein_Len: 40 Strand: - Start: 1 End: 120 D E E E S F S D C G A E G A M A V L L E R V L E T D P S V K F T I Q L Y K M V M ................................................................................................................................................. atcttcttcctcagagaacgagtcgcaacccgcttcacctgccattgctactaagagttcgcgcactaattcggtatctggactaaccttaaatgttatttgtaggtacttcattacaatttgtttttatatattgcaaatgtacaaataaaatatttaaatcggtaaaaaaggcaatgcattaatctgtttcgctgctttatgaaactggctatatagcgaacatattgtaaatataattccgaagaaaaatgatagtttcgat 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: 125 End: 154 ............................................................................................................................TTTTATATATTGCAAATGTACAAATAAAAT............................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ atcttcttcctcagagaacgagtcgcaacccgcttcacctgccattgctactaagagttcgcgcactaattcggtatctggactaaccttaaatgttatttgtaggtacttcattacaatttgtttttatatattgcaaatgtacaaataaaatatttaaatcggtaaaaaaggcaatgcattaatctgtttcgctgctttatgaaactggctatatagcgaacatattgtaaatataattccgaagaaaaatgatagtttcgat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0925:PI0926|PI0925:PI0926:ribosomal protein L11 methyltransferase:hypothetical protein:->->:856699..856963 265 atcttcttcctcagagaacgagtcgcaacccgcttcacctgccattgctactaagagttcgcgcactaattcggtatctggactaaccttaaatgttatttgtaggtacttcattacaatttgtttttatatattgcaaatgtacaaataaaatatttaaatcggtaaaaaaggcaatgcattaatctgtttcgctgctttatgaaactggctatatagcgaacatattgtaaatataattccgaagaaaaatgatagtttcgat Intra-Species Hit: Count: 1 Min: 1 Max: 265 Len: 265 Subject: pint_PI0925_PI0926|ribosomal protein L11 methyltransferase:hypothetical protein|POSITIVE:POSITIVE|[856699,856963]|265 HSP 1 e-value: 1.0E-148 bit: 525.0 Len: 265 Query Start:1 Query End:265 Subject Strand: POSITIVE Subject Start: 1 Subject End: 265 atcttcttcctcagagaacgagtcgcaacccgcttcacctgccattgctactaagagttcgcgcactaattcggtatctggactaaccttaaatgttatttgtaggtacttcattacaatttgtttttatatattgcaaatgtacaaataaaatatttaaatcggtaaaaaaggcaatgcattaatctgtttcgctgctttatgaaactggctatatagcgaacatattgtaaatataattccgaagaaaaatgatagtttcgat atcttcttcctcagagaacgagtcgcaacccgcttcacctgccattgctactaagagttcgcgcactaattcggtatctggactaaccttaaatgttatttgtaggtacttcattacaatttgtttttatatattgcaaatgtacaaataaaatatttaaatcggtaaaaaaggcaatgcattaatctgtttcgctgctttatgaaactggctatatagcgaacatattgtaaatataattccgaagaaaaatgatagtttcgat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCUUCUUCCUCAGAGAACGAGUCGCAACCCGCUUCACCUGCCAUUGCUACUAAGAGUUCGCGCACUAAUUCGGUAUCUGGACUAACCUUAAAUGUUAUUUGUAGGUACUUCAUUACAAUUUGUUUUUAUAUAUUGCAAAUGUACAAAUAAAAUAUUUAAAUCGGUAAAAAAGGCAAUGCAUUAAUCUGUUUCGCUGCUUUAUGAAACUGGCUAUAUAGCGAACAUAUUGUAAAUAUAAUUCCGAAGAAAAAUGAUAGUUUCGAU ...((((((...........(((.((((...((.......))..)))).)))....((((((........(((((.((.......(((((((((((((((((((.(((......))).((((((..(.....)..)))))).))))))))..))))))))...)))....((((((..(((......))).....))))))..)).))))).......))))))...................))))))................ (-45.26) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCGAAACUAUCAUUUUUCUUCGGAAUUAUAUUUACAAUAUGUUCGCUAUAUAGCCAGUUUCAUAAAGCAGCGAAACAGAUUAAUGCAUUGCCUUUUUUACCGAUUUAAAUAUUUUAUUUGUACAUUUGCAAUAUAUAAAAACAAAUUGUAAUGAAGUACCUACAAAUAACAUUUAAGGUUAGUCCAGAUACCGAAUUAGUGCGCGAACUCUUAGUAGCAAUGGCAGGUGAAGCGGGUUGCGACUCGUUCUCUGAGGAAGAAGAU .........(((.((((((((((((...........(((.((((((((.........((((....)))))))).)))).)))..((((..((((.(((((((..(((((((...(((((((((((((.(((((............))))))))).......))))))))).)))))))....(.(((..(((..(...(((......))).)..)))....)))).))))))).))))))))........))))))))))))))) (-51.31) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 351 52 11 159 113 pint:PI0069|5end_hypothetical_protein_67072..67302_POSITIVE 350 65 22 209 157 pint:PI2073|5end_mobilization_protein_2031995..2032225_POSITIVE 334 62 25 230 182 pint:PI0141|5end_glutamine_amidotransferase_involved_in_pyridoxine_biosynthesis_132710..132940_POSITIVE 327 84 41 125 82 pint:PI0906|5end_hypothetical_protein_835653..835883_POSITIVE 326 60 11 196 147 pint:PI0803|5end_DNA-damage-inducible_protein_F_739757..739987_POSITIVE 321 33 1 177 136 pint:PI0815|5end_hypothetical_protein_754475..754705_POSITIVE 318 60 12 209 159 pint:PI1671|5end_hypothetical_protein_1586397..1586627_POSITIVE 317 48 6 56 12 pint:PI1637|5end_hypothetical_protein_1554500..1554730_POSITIVE 315 80 32 52 1 pint:PI1640|5end_hypothetical_protein_1558062..1558292_POSITIVE 315 80 31 179 134 pint:PI1626|5end_hypothetical_protein_1550194..1550424_POSITIVE 312 74 31 59 5 pint:PI2090|5end_thioesterase_family_protein_2047570..2047800_POSITIVE 307 41 6 135 94 pint:PI0009|5end_NAD-dependent_epimerase/dehydratase_family_protein_9653..9883_POSITIVE 304 80 32 85 46 pint:PI0734|5end_ABC_transporter,_ATP-binding_/_permease_667052..667282_POSITIVE 303 220 171 75 23 pint:PI0175|5end_succinyl-CoA_synthetase_beta_subunit_167023..167253_POSITIVE 301 52 13 143 99 pint:PI1611|5end_aspartate-semialdehyde_dehydrogenase_1538156..1538386_POSITIVE 300 76 36 169 135 pint:PI0753|5end_hypothetical_protein_683391..683621_POSITIVE 299 46 1 125 77 pint:PI0989|5end_mannose-1-phosphate_guanylyltransferase_912833..913063_POSITIVE 297 61 25 192 148 pint:PI0088|5end_S-adenosylmethionine_synthetase_86663..86893_POSITIVE 295 67 21 57 14 pint:PI0473|5end_30S_ribosomal_protein_S14_438634..438864_POSITIVE 292 68 21 56 10 pint:PI0545|5end_sugar_kinase_496411..496641_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 321 33 1 48 7 pint:PI0814|3end_conserved_hypothetical_protein_754426..754576_POSITIVE 316 79 31 72 12 pint:PI0801|3end_hypothetical_protein_739687..739837_POSITIVE 312 74 31 59 5 pint:PI2089|3end_conserved_hypothetical_protein_2047650..2047800_POSITIVE 303 260 211 125 74 pint:PI1167|3end_hypothetical_protein_1089890..1090040_POSITIVE 300 77 31 119 76 pint:PI0962|3end_phosphoglycerate_mutase_892702..892852_POSITIVE 299 230 192 81 49 pint:PI0779|3end_predicted_TPR-repeat-containing_protein_715800..715950_POSITIVE 295 67 21 48 5 pint:PI0472|3end_50S_ribosomal_protein_L5_438705..438855_POSITIVE 290 57 18 144 112 pint:PI1510|3end_cell_division_protein_1429274..1429424_POSITIVE 287 64 30 114 76 pint:PI2132|3end_hypothetical_protein_2081139..2081289_POSITIVE 282 66 22 151 118 pint:PI0750|3end_zinc_protease_680633..680783_POSITIVE 282 46 8 68 23 pint:PI0261|3end_conjugative_transposon_protein,_TraK_254765..254915_POSITIVE 281 66 22 149 108 pint:PI0258|3end_conjugative_transposon_protein,_TraG_252285..252435_POSITIVE 280 67 22 105 48 pint:PI0203|3end_conserved_hypothetical_protein_196064..196214_POSITIVE 278 80 39 42 7 pint:PI1363|3end_hypothetical_protein_1281922..1282072_POSITIVE 277 65 22 62 22 pint:PI2016|3end_ribosomal_large_subunit_pseudouridine_synthase_D_1974933..1975083_POSITIVE 276 66 23 144 104 pint:PI0700|3end_UDP-glucose_4-epimerase_638413..638563_POSITIVE 275 68 28 43 3 pint:PI1706|3end_GTP-binding_protein_1623668..1623818_POSITIVE 273 49 4 148 100 pint:PI0139|3end_pyridoxine_biosynthesis_protein_132724..132874_POSITIVE 272 59 12 61 11 pint:PI0706|3end_pyridoxal_phosphate_biosynthetic_protein_(4-hydroxythreonine-4-phosphate_dehydrogenase)_643394..643544_POSITIVE 270 52 12 86 42 pint:PI0634|3end_conserved_hypothetical_protein_581121..581271_POSITIVE