Origin IGS: taataagcttagaagctgtaatagtccttgaaaaaaagcaatagggcatataaaaagaaagtaattcggcataataaaaggaggctttccacagcggaaagcctccttttattttatttcttaatgacgtgtttacttcta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tagaagtaaacacgtcattaagaaataaaataaaaggaggctttccgctgtggaaagcctccttttattatgccgaattactttctttttatatgccctattgctttttttcaaggactattacagcttctaagcttatta Mask Tandem Repeat Region ================================================ taataagcttagaagctgtaatagtccttgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnggaggctttccacagcggaaagcctccttttattttatttcttaatgacgtgtttacttcta Find is-nt database================================================ Query_seq: PI0889:PI0890|PI0889:PI0890:pyruvate kinase:ribose 5-phosphate isomerase B:->->:820416..820556 141 taataagcttagaagctgtaatagtccttgaaaaaaagcaatagggcatataaaaagaaagtaattcggcataataaaaggaggctttccacagcggaaagcctccttttattttatttcttaatgacgtgtttacttcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0889:PI0890|PI0889:PI0890:pyruvate kinase:ribose 5-phosphate isomerase B:->->:820416..820556 141 taataagcttagaagctgtaatagtccttgaaaaaaagcaatagggcatataaaaagaaagtaattcggcataataaaaggaggctttccacagcggaaagcctccttttattttatttcttaatgacgtgtttacttcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0889:PI0890|PI0889:PI0890:pyruvate kinase:ribose 5-phosphate isomerase B:->->:820416..820556 141 taataagcttagaagctgtaatagtccttgaaaaaaagcaatagggcatataaaaagaaagtaattcggcataataaaaggaggctttccacagcggaaagcctccttttattttatttcttaatgacgtgtttacttcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taataagcttagaagctgtaatagtccttgaaaaaaagcaatagggcatataaaaagaaagtaattcggcataataaaaggaggctttccacagcggaaagcctccttttattttatttcttaatgacgtgtttacttcta Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 28 End: 141 ........................... M K K S N R A Y K K K V I R H N K R R L S T A E S L L L F Y F L M T C L L L Protein_Len: 37 Strand: - Start: 2 End: 112 . I L K S A T I T R S F F C Y P M Y F S L L E A Y Y F S A K W L P F G G K M ............................. taataagcttagaagctgtaatagtccttgaaaaaaagcaatagggcatataaaaagaaagtaattcggcataataaaaggaggctttccacagcggaaagcctccttttattttatttcttaatgacgtgtttacttcta 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================================================ taataagcttagaagctgtaatagtccttgaaaaaaagcaatagggcatataaaaagaaagtaattcggcataataaaaggaggctttccacagcggaaagcctccttttattttatttcttaatgacgtgtttacttcta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -21.2 Tail_Score: -5.12172 Start: 75 End: 111 Full_Region: AGTAATTCGGCATAA TAAAAGGAGGCTTTCC ACAGC GGAAAGCCTCCTTTTA TTTTATTTCTTAATG ..........................................................................TAAAAGGAGGCTTTCCACAGCGGAAAGCCTCCTTTTA.............................. TransTerm Strand: - Conf: 100 HP_score: -21.9 Tail_Score: -3.31501 Start: 75 End: 111 Full_Region: cattaagaaataaaa taaaaggaggctttccg ctg tggaaagcctcctttta ttatgccgaattact ..........................................................................taaaaggaggctttccgctgtggaaagcctcctttta.............................. TransTerm Strand: + Conf: 100 HP_score: -16.7 Tail_Score: -5.3689 Start: 80 End: 106 Full_Region: TTCGGCATAATAAAA GGAGGCTTTCC ACAGC GGAAAGCCTCC TTTTATTTTATTTCT ...............................................................................GGAGGCTTTCCACAGCGGAAAGCCTCC................................... TransTerm Strand: - Conf: 100 HP_score: -17.4 Tail_Score: -4.77165 Start: 80 End: 106 Full_Region: agaaataaaataaaa ggaggctttccg ctg tggaaagcctcc ttttattatgccgaa ...............................................................................ggaggctttccgctgtggaaagcctcc................................... Find igs database================================================ Query_seq: PI0889:PI0890|PI0889:PI0890:pyruvate kinase:ribose 5-phosphate isomerase B:->->:820416..820556 141 taataagcttagaagctgtaatagtccttgaaaaaaagcaatagggcatataaaaagaaagtaattcggcataataaaaggaggctttccacagcggaaagcctccttttattttatttcttaatgacgtgtttacttcta Intra-Species Hit: Count: 1 Min: 1 Max: 141 Len: 141 Subject: pint_PI0889_PI0890|pyruvate kinase:ribose 5-phosphate isomerase B|POSITIVE:POSITIVE|[820416,820556]|141 HSP 1 e-value: 4.0E-62 bit: 238.0 Len: 141 Query Start:1 Query End:141 Subject Strand: POSITIVE Subject Start: 1 Subject End: 141 taataagcttagaagctgtaatagtccttgnnnnnnngcaatagggcatataaaaagaaagtaattcggcataataaaaggaggctttccacagcggaaagcctccttttattttatttcttaatgacgtgtttacttcta taataagcttagaagctgtaatagtccttgaaaaaaagcaatagggcatataaaaagaaagtaattcggcataataaaaggaggctttccacagcggaaagcctccttttattttatttcttaatgacgtgtttacttcta HSP 2 e-value: 8.0E-8 bit: 58.0 Len: 41 Query Start:73 Query End:113 Subject Strand: NEGATIVE Subject Start: 73 Subject End: 113 ........................................................................aataaaaggaggctttccacagcggaaagcctccttttatt............................ ........................................................................aataaaaggaggctttccgctgtggaaagcctccttttatt............................ Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUAAGCUUAGAAGCUGUAAUAGUCCUUGAAAAAAAGCAAUAGGGCAUAUAAAAAGAAAGUAAUUCGGCAUAAUAAAAGGAGGCUUUCCACAGCGGAAAGCCUCCUUUUAUUUUAUUUCUUAAUGACGUGUUUACUUCUA .....((((....))))......(((((((........))..)))))........((((.((((..((.(((((((((((((((((((((.....))))))))))))))))))..........))).))...)))))))). (-42.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGAAGUAAACACGUCAUUAAGAAAUAAAAUAAAAGGAGGCUUUCCGCUGUGGAAAGCCUCCUUUUAUUAUGCCGAAUUACUUUCUUUUUAUAUGCCCUAUUGCUUUUUUUCAAGGACUAUUACAGCUUCUAAGCUUAUUA (((((((......(((...((((((...((((((((((((((((((.....)))))))))))))))))).....(((.....)))....................))))))....))).......)))))))......... (-38.72) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 301 105 67 152 115 pint:PI0654|5end_K+-dependent_Na+/Ca+_exchanger_related-protein_596283..596513_POSITIVE 293 50 6 189 131 pint:PI2006|5end_potassium_uptake_system_protein_1964480..1964710_POSITIVE 277 97 53 136 81 pint:PI1680|5end_conserved_hypothetical_protein_1595038..1595268_POSITIVE 276 100 68 111 73 pint:PI1150|5end_30S_ribosomal_protein_S6_1075683..1075913_POSITIVE 274 95 61 110 73 pint:PI0964|5end_conserved_hypothetical_protein_893238..893468_POSITIVE 274 95 61 70 33 pint:PI0963|5end_hypothetical_protein_893198..893428_POSITIVE 273 120 73 149 97 pint:PI0518|5end_5'-nucleotidase_precursor_477076..477306_POSITIVE 267 68 21 135 84 pint:PI0898|5end_conserved_hypothetical_protein_828474..828704_POSITIVE 266 105 67 63 20 pint:PI1035|5end_queuine_tRNA-ribosyltransferase_(tRNA-guanine_transglycosylase)_953329..953559_POSITIVE 266 111 79 202 169 pint:PI0891|5end_transketolase_820912..821142_POSITIVE 259 133 95 145 108 pint:PI0528|5end_hypothetical_protein_482791..483021_POSITIVE 254 106 65 55 12 pint:PI1871|5end_glycosyl_transferase,_group_1_family_protein_1815788..1816018_POSITIVE 254 110 68 55 11 pint:PI1829|5end_hypothetical_protein_1769255..1769485_POSITIVE 253 50 1 169 110 pint:PI1078|5end_conserved_hypothetical_protein_999500..999730_POSITIVE 252 112 80 231 186 pint:PI2097|5end_conserved_hypothetical_protein_2050912..2051142_POSITIVE 252 106 66 62 3 pint:PI0258|5end_conjugative_transposon_protein,_TraG_249722..249952_POSITIVE 251 104 61 231 182 pint:PI1830|5end_conserved_hypothetical_protein_1769439..1769669_POSITIVE 248 106 65 135 98 pint:PI1478|5end_hypothetical_protein_1401873..1402103_POSITIVE 246 137 94 158 104 pint:PI2154|5end_leucyl-tRNA_synthetase_2099861..2100091_POSITIVE 243 112 80 51 22 pint:PI0086|5end_possible_uroporphyrinogen-III_synthase_84944..85174_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 304 102 67 66 26 pint:PI0778|3end_hypothetical_protein_714885..715035_POSITIVE 285 107 77 43 9 pint:PI1102|3end_conserved_hypothetical_protein_1026247..1026397_POSITIVE 276 100 68 105 67 pint:PI1149|3end_30S_ribosomal_protein_S18_1075757..1075907_POSITIVE 273 120 73 77 25 pint:PI0517|3end_apparent_PorT_homolog_477084..477234_POSITIVE 267 68 21 118 67 pint:PI0897|3end_ferredoxin,_4Fe-4S_828537..828687_POSITIVE 266 105 67 50 7 pint:PI1034|3end_conserved_hypothetical_protein;_possible_membrane_protein_953396..953546_POSITIVE 254 110 61 137 80 pint:PI1814|3end_hypothetical_protein_1753233..1753383_POSITIVE 252 112 80 123 78 pint:PI2096|3end_conserved_hypothetical_protein;_possible_phosphoesterase_2050884..2051034_POSITIVE 252 106 66 62 3 pint:PI0257|3end_conjugative_transposon_protein,_TraF_249802..249952_POSITIVE 251 104 61 151 102 pint:PI1829|3end_hypothetical_protein_1769439..1769589_POSITIVE 250 80 41 78 35 pint:PI1201|3end_peptidyl-arginine_deiminase_1117835..1117985_POSITIVE 248 106 65 65 28 pint:PI1477|3end_TonB-dependent_outer_membrane_receptor_1401883..1402033_POSITIVE 245 106 64 105 50 pint:PI1651|3end_hypothetical_protein_1564512..1564662_POSITIVE 244 105 63 146 99 pint:PI0631|3end_50S_ribosomal_protein_L25/general_stress_protein_578400..578550_POSITIVE 241 110 63 88 33 pint:PI0945|3end_sodium:solute_symporter_family_protein_877624..877774_POSITIVE 238 113 96 18 1 pint:PI0889|3end_pyruvate_kinase_820355..820505_POSITIVE 236 112 74 128 86 pint:PI0133|3end_hypothetical_protein_124632..124782_POSITIVE 235 50 3 79 36 pint:PI1414|3end_conserved_hypothetical_protein_1334436..1334586_POSITIVE 235 109 71 103 56 pint:PI1057|3end_hypothetical_protein_977548..977698_POSITIVE 234 109 62 70 11 pint:PI1670|3end_hypothetical_protein_1587026..1587176_POSITIVE