Origin IGS: tccgaatcagggtcaatccatatgaacagtactgttggcaattaaggcctaaaacagcaagaatcgtttcatataggctttggcctaaggaacaataccaaggggtgcaccgaaatcaattttcgatgcaccctttctgcataatgcttaggaagtgaggattatatttctataagaacctcccgctaataccgctataagtagtcgtcccttaaaagtccttttaagggacgattagctaaacgctaaacgcaatatacacaggtcgcacgttatttcctgtcagagattacgtaaagcgactgcagagtaacccccatacaaatccggcacggcaaaaggggagagcctcttggcca .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 tggccaagaggctctccccttttgccgtgccggatttgtatgggggttactctgcagtcgctttacgtaatctctgacaggaaataacgtgcgacctgtgtatattgcgtttagcgtttagctaatcgtcccttaaaaggacttttaagggacgactacttatagcggtattagcgggaggttcttatagaaatataatcctcacttcctaagcattatgcagaaagggtgcatcgaaaattgatttcggtgcaccccttggtattgttccttaggccaaagcctatatgaaacgattcttgctgttttaggccttaattgccaacagtactgttcatatggattgaccctgattcgga Mask Tandem Repeat Region ================================================ tccgaatcagggtcaatccatatgaacagtactgttggcaattaaggcctaaaacagcaagaatcgtttcatataggctttggcctaaggaacaataccaaggggtgcaccgaaatcaattttcgatgcaccctttctgcataatgcttaggaagtgaggattatatttctataagaacctcccgctaataccgctataagtagtcgtcccttaaaagtccttttaagggacgattagctaaacgctaaacgcaatatacacaggtcgcacgttatttcctgtcagagattacgtaaagcgactgcagagtaacccccatacaaatccggcacggcaaaaggggagagcctcttggcca Find is-nt database================================================ Query_seq: PG1807:PG1808|PG1807:PG1808:v-type ATPase, subunit K:guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase:-><-:1902686..1903044 359 tccgaatcagggtcaatccatatgaacagtactgttggcaattaaggcctaaaacagcaagaatcgtttcatataggctttggcctaaggaacaataccaaggggtgcaccgaaatcaattttcgatgcaccctttctgcataatgcttaggaagtgaggattatatttctataagaacctcccgctaataccgctataagtagtcgtcccttaaaagtccttttaagggacgattagctaaacgctaaacgcaatatacacaggtcgcacgttatttcctgtcagagattacgtaaagcgactgcagagtaacccccatacaaatccggcacggcaaaaggggagagcctcttggcca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1807:PG1808|PG1807:PG1808:v-type ATPase, subunit K:guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase:-><-:1902686..1903044 359 tccgaatcagggtcaatccatatgaacagtactgttggcaattaaggcctaaaacagcaagaatcgtttcatataggctttggcctaaggaacaataccaaggggtgcaccgaaatcaattttcgatgcaccctttctgcataatgcttaggaagtgaggattatatttctataagaacctcccgctaataccgctataagtagtcgtcccttaaaagtccttttaagggacgattagctaaacgctaaacgcaatatacacaggtcgcacgttatttcctgtcagagattacgtaaagcgactgcagagtaacccccatacaaatccggcacggcaaaaggggagagcctcttggcca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1807:PG1808|PG1807:PG1808:v-type ATPase, subunit K:guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase:-><-:1902686..1903044 359 tccgaatcagggtcaatccatatgaacagtactgttggcaattaaggcctaaaacagcaagaatcgtttcatataggctttggcctaaggaacaataccaaggggtgcaccgaaatcaattttcgatgcaccctttctgcataatgcttaggaagtgaggattatatttctataagaacctcccgctaataccgctataagtagtcgtcccttaaaagtccttttaagggacgattagctaaacgctaaacgcaatatacacaggtcgcacgttatttcctgtcagagattacgtaaagcgactgcagagtaacccccatacaaatccggcacggcaaaaggggagagcctcttggcca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tccgaatcagggtcaatccatatgaacagtactgttggcaattaaggcctaaaacagcaagaatcgtttcatataggctttggcctaaggaacaataccaaggggtgcaccgaaatcaattttcgatgcaccctttctgcataatgcttaggaagtgaggattatatttctataagaacctcccgctaataccgctataagtagtcgtcccttaaaagtccttttaagggacgattagctaaacgctaaacgcaatatacacaggtcgcacgttatttcctgtcagagattacgtaaagcgactgcagagtaacccccatacaaatccggcacggcaaaaggggagagcctcttggcca Predict ORF larger than 30AA ================================================ Protein_Len: 50 Strand: + Start: 6 End: 155 ..... M R V N P Y E Q Y C W Q L R P K T A R I V S Y R L W P K E Q Y Q G V H R N Q F S M H P F C I M L R K ............................................................................................................................................................................................................ Protein_Len: 35 Strand: + Start: 255 End: 359 .............................................................................................................................................................................................................................................................. M Y T G R T L F P V R D Y V K R L Q S N P H T N P A R Q K G R A S W P tccgaatcagggtcaatccatatgaacagtactgttggcaattaaggcctaaaacagcaagaatcgtttcatataggctttggcctaaggaacaataccaaggggtgcaccgaaatcaattttcgatgcaccctttctgcataatgcttaggaagtgaggattatatttctataagaacctcccgctaataccgctataagtagtcgtcccttaaaagtccttttaagggacgattagctaaacgctaaacgcaatatacacaggtcgcacgttatttcctgtcagagattacgtaaagcgactgcagagtaacccccatacaaatccggcacggcaaaaggggagagcctcttggcca 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================================================ tccgaatcagggtcaatccatatgaacagtactgttggcaattaaggcctaaaacagcaagaatcgtttcatataggctttggcctaaggaacaataccaaggggtgcaccgaaatcaattttcgatgcaccctttctgcataatgcttaggaagtgaggattatatttctataagaacctcccgctaataccgctataagtagtcgtcccttaaaagtccttttaagggacgattagctaaacgctaaacgcaatatacacaggtcgcacgttatttcctgtcagagattacgtaaagcgactgcagagtaacccccatacaaatccggcacggcaaaaggggagagcctcttggcca Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 67 HP_score: -7.0 Tail_Score: -3.81146 Start: 96 End: 141 Full_Region: acttcctaagcatta tgcagaaagggtgcatcgaaa attga tttcggtgcaccccttggta ttgttccttaggcca ...............................................................................................tgcagaaagggtgcatcgaaaattgatttcggtgcaccccttggta.......................................................................................................................................................................................................................... TransTerm Strand: - Conf: 68 HP_score: -7.6 Tail_Score: -3.49048 Start: 98 End: 138 Full_Region: tcctaagcattatgc agaaagggtgcatcgaaa attga tttcggtgcaccccttgg tattgttccttaggc .................................................................................................agaaagggtgcatcgaaaattgatttcggtgcaccccttgg............................................................................................................................................................................................................................. TransTerm Strand: - Conf: 100 HP_score: -12.8 Tail_Score: -3.48182 Start: 102 End: 134 Full_Region: aagcattatgcagaa agggtgcatcgaaa attga tttcggtgcacccc ttggtattgttcctt .....................................................................................................agggtgcatcgaaaattgatttcggtgcacccc................................................................................................................................................................................................................................. TransTerm Strand: + Conf: 100 HP_score: -14.1 Tail_Score: -3.93963 Start: 103 End: 133 Full_Region: AGGAACAATACCAAG GGGTGCACCGAAA TCAAT TTTCGATGCACCC TTTCTGCATAATGCT ......................................................................................................GGGTGCACCGAAATCAATTTTCGATGCACCC.................................................................................................................................................................................................................................. TransTerm Strand: - Conf: 100 HP_score: -16.3 Tail_Score: -2.67825 Start: 103 End: 133 Full_Region: agcattatgcagaaa gggtgcatcgaaa attga tttcggtgcaccc cttggtattgttcct ......................................................................................................gggtgcatcgaaaattgatttcggtgcaccc.................................................................................................................................................................................................................................. TransTerm Strand: - Conf: 86 HP_score: -11.5 Tail_Score: -3.33315 Start: 201 End: 238 Full_Region: gcgtttagcgtttag ctaatcgtcccttaaaa ggac ttttaagggacgactac ttatagcggtattag ........................................................................................................................................................................................................ctaatcgtcccttaaaaggacttttaagggacgactac......................................................................................................................... TransTerm Strand: + Conf: 100 HP_score: -16.7 Tail_Score: -3.05816 Start: 205 End: 234 Full_Region: TACCGCTATAAGTAG TCGTCCCTTAAAA GTCC TTTTAAGGGACGA TTAGCTAAACGCTAA ............................................................................................................................................................................................................TCGTCCCTTAAAAGTCCTTTTAAGGGACGA............................................................................................................................. Find igs database================================================ Query_seq: PG1807:PG1808|PG1807:PG1808:v-type ATPase, subunit K:guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase:-><-:1902686..1903044 359 tccgaatcagggtcaatccatatgaacagtactgttggcaattaaggcctaaaacagcaagaatcgtttcatataggctttggcctaaggaacaataccaaggggtgcaccgaaatcaattttcgatgcaccctttctgcataatgcttaggaagtgaggattatatttctataagaacctcccgctaataccgctataagtagtcgtcccttaaaagtccttttaagggacgattagctaaacgctaaacgcaatatacacaggtcgcacgttatttcctgtcagagattacgtaaagcgactgcagagtaacccccatacaaatccggcacggcaaaaggggagagcctcttggcca Intra-Species Hit: Count: 1 Min: 1 Max: 359 Len: 359 Subject: NC_002950_PG1807_PG1808|v-type ATPase, subunit K:guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase|POSITIVE:NEGATIVE|[1902686, 1903044]|359 HSP 1 e-value: 0.0 bit: 712.0 Len: 359 Query Start:1 Query End:359 Subject Strand: POSITIVE Subject Start: 1 Subject End: 359 tccgaatcagggtcaatccatatgaacagtactgttggcaattaaggcctaaaacagcaagaatcgtttcatataggctttggcctaaggaacaataccaaggggtgcaccgaaatcaattttcgatgcaccctttctgcataatgcttaggaagtgaggattatatttctataagaacctcccgctaataccgctataagtagtcgtcccttaaaagtccttttaagggacgattagctaaacgctaaacgcaatatacacaggtcgcacgttatttcctgtcagagattacgtaaagcgactgcagagtaacccccatacaaatccggcacggcaaaaggggagagcctcttggcca tccgaatcagggtcaatccatatgaacagtactgttggcaattaaggcctaaaacagcaagaatcgtttcatataggctttggcctaaggaacaataccaaggggtgcaccgaaatcaattttcgatgcaccctttctgcataatgcttaggaagtgaggattatatttctataagaacctcccgctaataccgctataagtagtcgtcccttaaaagtccttttaagggacgattagctaaacgctaaacgcaatatacacaggtcgcacgttatttcctgtcagagattacgtaaagcgactgcagagtaacccccatacaaatccggcacggcaaaaggggagagcctcttggcca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCCGAAUCAGGGUCAAUCCAUAUGAACAGUACUGUUGGCAAUUAAGGCCUAAAACAGCAAGAAUCGUUUCAUAUAGGCUUUGGCCUAAGGAACAAUACCAAGGGGUGCACCGAAAUCAAUUUUCGAUGCACCCUUUCUGCAUAAUGCUUAGGAAGUGAGGAUUAUAUUUCUAUAAGAACCUCCCGCUAAUACCGCUAUAAGUAGUCGUCCCUUAAAAGUCCUUUUAAGGGACGAUUAGCUAAACGCUAAACGCAAUAUACACAGGUCGCACGUUAUUUCCUGUCAGAGAUUACGUAAAGCGACUGCAGAGUAACCCCCAUACAAAUCCGGCACGGCAAAAGGGGAGAGCCUCUUGGCCA .(((.....(((((((.(((((((((..(..((((((((.......)))...))))).......)..))))))).))..)))))))..((..........(((((((((.(((((.....))))).)))))))))(((((....(((......(((((((.(((((....)))))...))))..)))......((....((((((((((((((((((....))))))))))))))).)))....)).....))).........((((((((((.(((((......))))).))))...))))))))))).......)).........)))...(((..((((((....)))))).))). (-113.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGGCCAAGAGGCUCUCCCCUUUUGCCGUGCCGGAUUUGUAUGGGGGUUACUCUGCAGUCGCUUUACGUAAUCUCUGACAGGAAAUAACGUGCGACCUGUGUAUAUUGCGUUUAGCGUUUAGCUAAUCGUCCCUUAAAAGGACUUUUAAGGGACGACUACUUAUAGCGGUAUUAGCGGGAGGUUCUUAUAGAAAUAUAAUCCUCACUUCCUAAGCAUUAUGCAGAAAGGGUGCAUCGAAAAUUGAUUUCGGUGCACCCCUUGGUAUUGUUCCUUAGGCCAAAGCCUAUAUGAAACGAUUCUUGCUGUUUUAGGCCUUAAUUGCCAACAGUACUGUUCAUAUGGAUUGACCCUGAUUCGGA .(((.((((((......)))))))))...(((((((......(((((((..((((.(((((...((((.((.(((....))).)).)))))))))......(((((((..(((((.....)))))(((((((((((((....))))))))))))).........)))))))..))))((((...(((((....))))).))))....((((((....((((..((.(((((((((((((.....))))))))))))).)).)))).....)))))).......(((((((((........(((((((...(((.......))))))))))...)))))))))..)))))))))))))). (-126.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 939 310 261 184 135 NC_002950:PG0037|5end_50S_ribosomal_protein_L19_46519..46749_POSITIVE 371 137 100 177 134 NC_002950:PG0480|5end_precorrin-2_C20-methyltransferase,_putative_521319..521549_NEGATIVE 369 350 303 218 162 NC_002950:PG2107|5end_thiamine_biosynthesis_protein_ThiH_2216658..2216888_NEGATIVE 364 230 181 71 2 NC_002950:PG2052|5end_dihydrodipicolinate_synthase_2149636..2149866_POSITIVE 355 336 293 40 4 NC_002950:PG0714|5end_copper_homeostasis_protein_CutC_768671..768901_NEGATIVE 351 228 196 230 200 NC_002950:PG1358|5end_acetyltransferase,_GNAT_family_1437333..1437563_NEGATIVE 347 310 263 227 180 NC_002950:PG1136|5end_hypothetical_protein_1218327..1218557_NEGATIVE 341 315 272 223 185 NC_002950:PG2070|5end_hypothetical_protein_2165541..2165771_POSITIVE 337 320 271 135 76 NC_002950:PG0366|5end_hypothetical_protein_400815..401045_NEGATIVE 336 339 299 174 128 NC_002950:PG1068|5end_hypothetical_protein_1134636..1134866_POSITIVE 334 350 307 57 9 NC_002950:PG1864|5end_leucine-rich_protein_1964309..1964539_NEGATIVE 334 149 101 150 107 NC_002950:PG0526|5end_putative_inner_membrane_protein_translocase_component_YidC_570746..570976_POSITIVE 330 109 64 227 188 NC_002950:PG1109|5end_mobilization_protein_1182792..1183022_NEGATIVE 327 117 78 230 187 NC_002950:PG0648|5end_iron_compound_ABC_transporter,_periplasmic_iron_compound-binding_protein,_putative_701285..701515_NEGATIVE 326 340 298 230 182 NC_002950:PG0635|5end_ribosomal_protein_L11_methyltransferase_687773..688003_NEGATIVE 324 90 45 195 152 NC_002950:PG1173|5end_YkgG_family_protein_1252435..1252665_POSITIVE 323 308 263 175 127 NC_002950:PG1579|5end_ATPase,_MoxR_family_1656493..1656723_POSITIVE 323 135 91 109 44 NC_002950:PG1363|5end_hypothetical_protein_1443804..1444034_POSITIVE 315 148 102 59 7 NC_002950:PG1968|5end_hypothetical_protein_2058564..2058794_NEGATIVE 315 317 277 86 34 NC_002950:PG1325|5end_hypothetical_protein_1403878..1404108_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 731 160 112 49 1 NC_002950:PG0037|3end_50S_ribosomal_protein_L19_46964..47114_POSITIVE 426 239 195 123 76 NC_002950:PG1549|3end_hypothetical_protein_1627807..1627957_NEGATIVE 371 137 100 64 21 NC_002950:PG0481|3end_2-amino-3-ketobutyrate_coenzyme_A_ligase_521432..521582_NEGATIVE 366 137 99 42 2 NC_002950:PG0566|3end_DNA-binding_protein,_histone-like_family_622935..623085_NEGATIVE 347 158 111 118 75 NC_002950:PG2214|3end_hypothetical_protein_2325301..2325451_NEGATIVE 336 339 299 146 100 NC_002950:PG1067|3end_hypothetical_protein_1134688..1134838_POSITIVE 327 148 101 62 18 NC_002950:PG2170|3end_sugar_transporter_2276685..2276835_NEGATIVE 323 308 263 74 26 NC_002950:PG1578|3end_quinolinate_synthetase_1656472..1656622_POSITIVE 321 309 262 133 77 NC_002950:PG2125|3end_transcriptional_regulator,_AraC_family_2231376..2231526_NEGATIVE 314 60 16 64 18 NC_002950:PG2221|3end_MiaB-like_tRNA_modifying_enzyme_2336840..2336990_POSITIVE 314 142 101 69 32 NC_002950:PG0373|3end_hypothetical_protein_405453..405603_POSITIVE 310 50 3 50 4 NC_002950:PG1251|3end_hypothetical_protein_1328212..1328362_POSITIVE 310 140 95 59 1 NC_002950:PG0537|3end_aminoacyl-histidine_dipeptidase_588394..588544_POSITIVE 309 40 3 130 87 NC_002950:PG0746|3end_sensor_histidine_kinase_792536..792686_NEGATIVE 307 113 78 38 7 NC_002950:PG0302|3end_hypothetical_protein_338721..338871_POSITIVE 305 310 261 146 99 NC_002950:PG0027|3end_hypothetical_protein_33936..34086_POSITIVE 304 350 301 71 31 NC_002950:PG1950|3end_hypothetical_protein_2040840..2040990_POSITIVE 299 349 328 59 40 NC_002950:PG0477|3end_pantoate--beta-alanine_ligase_518752..518902_NEGATIVE 298 350 305 105 48 NC_002950:PG2041|3end_hypothetical_protein_2139235..2139385_NEGATIVE 298 150 101 64 6 NC_002950:PG1297|3end_ribosomal_protein_S1_1377710..1377860_POSITIVE