Origin IGS: taggtatctcactccctatacttgacatattctgacagctctttaacaggttcttacggaaagatacataacatacgactttggacacgtttgtccaatgggttggactaacgtgtccaattagttggattaacgtgtccagcgagttggacaaacgtgtccaatttcg .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 cgaaattggacacgtttgtccaactcgctggacacgttaatccaactaattggacacgttagtccaacccattggacaaacgtgtccaaagtcgtatgttatgtatctttccgtaagaacctgttaaagagctgtcagaatatgtcaagtatagggagtgagataccta Mask Tandem Repeat Region ================================================ taggtatctcactccctatacttgacatattctgacagctctttaacaggttcttacggaaagatacataacatacgactttggacacgttnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnttcg Find is-nt database================================================ Query_seq: PI0512:PI0513|PI0512:PI0513:conserved hypothetical protein:ion transporter:->->:471501..471669 169 taggtatctcactccctatacttgacatattctgacagctctttaacaggttcttacggaaagatacataacatacgactttggacacgtttgtccaatgggttggactaacgtgtccaattagttggattaacgtgtccagcgagttggacaaacgtgtccaatttcg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0512:PI0513|PI0512:PI0513:conserved hypothetical protein:ion transporter:->->:471501..471669 169 taggtatctcactccctatacttgacatattctgacagctctttaacaggttcttacggaaagatacataacatacgactttggacacgtttgtccaatgggttggactaacgtgtccaattagttggattaacgtgtccagcgagttggacaaacgtgtccaatttcg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0512:PI0513|PI0512:PI0513:conserved hypothetical protein:ion transporter:->->:471501..471669 169 taggtatctcactccctatacttgacatattctgacagctctttaacaggttcttacggaaagatacataacatacgactttggacacgtttgtccaatgggttggactaacgtgtccaattagttggattaacgtgtccagcgagttggacaaacgtgtccaatttcg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taggtatctcactccctatacttgacatattctgacagctctttaacaggttcttacggaaagatacataacatacgactttggacacgtttgtccaatgggttggactaacgtgtccaattagttggattaacgtgtccagcgagttggacaaacgtgtccaatttcg Predict ORF larger than 30AA ================================================ Protein_Len: 51 Strand: - Start: 2 End: 154 . P I E S G I S S M N Q C S K L L N K R F S V Y C V V K S V N T W H T P S V H G I L Q I L T D L S N S M ............... taggtatctcactccctatacttgacatattctgacagctctttaacaggttcttacggaaagatacataacatacgactttggacacgtttgtccaatgggttggactaacgtgtccaattagttggattaacgtgtccagcgagttggacaaacgtgtccaatttcg 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================================================ taggtatctcactccctatacttgacatattctgacagctctttaacaggttcttacggaaagatacataacatacgactttggacacgtttgtccaatgggttggactaacgtgtccaattagttggattaacgtgtccagcgagttggacaaacgtgtccaatttcg Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 78 HP_score: -9.3 Tail_Score: -3.73008 Start: 72 End: 127 Full_Region: ctggacacgttaatc caactaattggacacgttagtccaa ccca ttggacaaacgtgtccaaagtcgtatg ttatgtatctttccg .......................................................................caactaattggacacgttagtccaacccattggacaaacgtgtccaaagtcgtatg.......................................... TransTerm Strand: - Conf: 76 HP_score: -9.3 Tail_Score: -3.43689 Start: 74 End: 129 Full_Region: cgctggacacgttaa tccaactaattggacacgttagtccaa ccca ttggacaaacgtgtccaaagtcgta tgttatgtatctttc .........................................................................tccaactaattggacacgttagtccaacccattggacaaacgtgtccaaagtcgta........................................ TransTerm Strand: + Conf: 100 HP_score: -21.0 Tail_Score: -3.4052 Start: 81 End: 120 Full_Region: ACATAACATACGACT TTGGACACGTTTGTCCAA TGGG TTGGACTAACGTGTCCAA TTAGTTGGATTAACG ................................................................................TTGGACACGTTTGTCCAATGGGTTGGACTAACGTGTCCAA................................................. Find igs database================================================ Query_seq: PI0512:PI0513|PI0512:PI0513:conserved hypothetical protein:ion transporter:->->:471501..471669 169 taggtatctcactccctatacttgacatattctgacagctctttaacaggttcttacggaaagatacataacatacgactttggacacgtttgtccaatgggttggactaacgtgtccaattagttggattaacgtgtccagcgagttggacaaacgtgtccaatttcg Intra-Species Hit: Count: 1 Min: 1 Max: 169 Len: 169 Subject: pint_PI0512_PI0513|conserved hypothetical protein:ion transporter|POSITIVE:POSITIVE|[471501,471669]|169 HSP 1 e-value: 3.0E-91 bit: 335.0 Len: 169 Query Start:1 Query End:169 Subject Strand: POSITIVE Subject Start: 1 Subject End: 169 taggtatctcactccctatacttgacatattctgacagctctttaacaggttcttacggaaagatacataacatacgactttggacacgtttgtccaatgggttggactaacgtgtccaattagttggattaacgtgtccagcgagttggacaaacgtgtccaatttcg taggtatctcactccctatacttgacatattctgacagctctttaacaggttcttacggaaagatacataacatacgactttggacacgtttgtccaatgggttggactaacgtgtccaattagttggattaacgtgtccagcgagttggacaaacgtgtccaatttcg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGGUAUCUCACUCCCUAUACUUGACAUAUUCUGACAGCUCUUUAACAGGUUCUUACGGAAAGAUACAUAACAUACGACUUUGGACACGUUUGUCCAAUGGGUUGGACUAACGUGUCCAAUUAGUUGGAUUAACGUGUCCAGCGAGUUGGACAAACGUGUCCAAUUUCG ...((((((...(((.((.(((((......................)))))...)).))).))))))........(((..(((((((((((((((((((..(((((((..((((((((((....))))))..)))))))))))..)))))))))))))))))))..))) (-67.75) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGAAAUUGGACACGUUUGUCCAACUCGCUGGACACGUUAAUCCAACUAAUUGGACACGUUAGUCCAACCCAUUGGACAAACGUGUCCAAAGUCGUAUGUUAUGUAUCUUUCCGUAAGAACCUGUUAAAGAGCUGUCAGAAUAUGUCAAGUAUAGGGAGUGAGAUACCUA (((..((((((((((((((((((...(.(((((((((...(((((....))))).))))..))))).)...))))))))))))))))))..)))........((((((((((.((.....((.....)).((((.((.....)).).))).)).)))..)))))))... (-59.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 466 117 81 225 189 pint:PI0734|5end_ABC_transporter,_ATP-binding_/_permease_667052..667282_POSITIVE 326 115 72 102 47 pint:PI2053|5end_conserved_hypothetical_protein;_possible_outer_membrane_receptor_protein_2010673..2010903_POSITIVE 323 117 76 211 172 pint:PI2010|5end_ABC_transporter,_permease_component_1968936..1969166_POSITIVE 315 49 3 195 140 pint:PI0351|5end_hypothetical_protein_324317..324547_POSITIVE 304 114 72 87 49 pint:PI2086|5end_signal_peptidase_I_2041835..2042065_POSITIVE 302 138 91 164 118 pint:PI1507|5end_tRNA_pseudouridine_synthase_B_1426554..1426784_POSITIVE 291 117 76 89 46 pint:PI1636|5end_hypothetical_protein_1554246..1554476_POSITIVE 288 117 76 86 35 pint:PI1117|5end_glycosyl_transferase,_family_2_1041318..1041548_POSITIVE 280 115 83 213 175 pint:PI1611|5end_aspartate-semialdehyde_dehydrogenase_1538156..1538386_POSITIVE 275 158 125 199 167 pint:PI0251|5end_hypothetical_protein_247551..247781_POSITIVE 270 119 75 48 12 pint:PI0544|5end_hypoxanthine-guanine_phosphoribosyltransferase_(hypoxanthine_phosphoribosyltransferase)_495645..495875_POSITIVE 267 116 71 84 45 pint:PI1987|5end_conserved_hypothetical_protein;_possible_outer_outer_membrane_lipoprotein_Omp28_1941556..1941786_POSITIVE 267 53 13 70 30 pint:PI1226|5end_hypothetical_protein_1147884..1148114_POSITIVE 267 118 75 58 15 pint:PI0829|5end_nucleotidyl_transferase_family;_possible_mannose-1-phosphate_guanyltransferase_765665..765895_POSITIVE 267 128 81 181 127 pint:PI0244|5end_possible_mobilization_protein_C_240752..240982_POSITIVE 266 113 71 163 125 pint:PI1938|5end_hypothetical_protein_1891854..1892084_POSITIVE 266 149 101 166 121 pint:PI1785|5end_conserved_hypothetical_protein_1717122..1717352_POSITIVE 266 149 101 52 1 pint:PI1710|5end_ABC-type_permease_component_1626644..1626874_POSITIVE 265 128 82 141 92 pint:PI0702|5end_conserved_hypothetical_protein;_possible_tetracenomycin_C_synthesis_protein_homolog_638640..638870_POSITIVE 264 117 74 116 75 pint:PI0542|5end_hypothetical_protein_495554..495784_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 560 129 81 63 15 pint:PI0733|3end_membrane_protein;_predicted_exporter_666958..667108_POSITIVE 302 138 91 92 46 pint:PI1506|3end_S-adenosylmethionine:tRNA_ribosyltransferase-isomerase_(queuine_synthetase)_1426562..1426712_POSITIVE 291 117 76 69 26 pint:PI1635|3end_hypothetical_protein_1554306..1554456_POSITIVE 288 117 76 68 17 pint:PI1116|3end_conserved_hypothetical_protein_1041380..1041530_POSITIVE 281 115 75 146 104 pint:PI0537|3end_alanyl-tRNA_synthetase_(alanine--tRNA_ligase)_492412..492562_POSITIVE 270 119 75 118 82 pint:PI0542|3end_hypothetical_protein_495795..495945_POSITIVE 270 119 75 45 9 pint:PI0543|3end_adenylate_kinase_495722..495872_POSITIVE 267 128 81 87 33 pint:PI0243|3end_hypothetical_protein_240738..240888_POSITIVE 259 129 81 57 9 pint:PI0043|3end_thiamine_phosphate_pyrophosphorylase_43156..43306_POSITIVE 249 153 112 142 97 pint:PI0377|3end_DNA_primase/mobilizable_transposon,_excision_protein_347823..347973_POSITIVE 247 117 73 148 105 pint:PI1707|3end_GTP-binding_protein_1625149..1625299_POSITIVE 245 107 76 137 113 pint:PI1711|3end_ABC_transporter,_ATP-binding_protein_1628429..1628579_POSITIVE 243 150 101 139 94 pint:PI0582|3end_hypothetical_protein_525214..525364_POSITIVE 239 53 18 39 4 pint:PI1225|3end_hypothetical_protein_1147933..1148083_POSITIVE 239 150 102 50 8 pint:PI0300|3end_transposase_285761..285911_POSITIVE 238 120 79 141 95 pint:PI0437|3end_conserved_hypothetical_protein;_possible_ribosomal_subunit_interface_protein_408543..408693_POSITIVE 237 157 114 98 51 pint:PI1206|3end_ATP-dependent_DNA_helicase,_UvrD/PcrA/Rep_family_1127132..1127282_POSITIVE 235 149 101 133 89 pint:PI1507|3end_tRNA_pseudouridine_synthase_B_1427440..1427590_POSITIVE 235 115 71 93 35 pint:PI1136|3end_conserved_hypothetical_protein_1062541..1062691_POSITIVE 233 95 51 135 86 pint:PI1782|3end_possible_LPS_biosynthesis_protein_1715395..1715545_POSITIVE