Origin IGS: gctgttttttctttggcggttcttctttggtcggtcggacgtttactataggcactccttccgtccgaccattctttatttatggttggtcggttggtcaggcatatatagcctgcgcccgaccgaaccgatgtg .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 cacatcggttcggtcgggcgcaggctatatatgcctgaccaaccgaccaaccataaataaagaatggtcggacggaaggagtgcctatagtaaacgtccgaccgaccaaagaagaaccgccaaagaaaaaacagc Mask Tandem Repeat Region ================================================ gctgttttttctttggcggttcttctttggtcggtcggacgtttactataggcactccttccgtccgaccattctttatttatggttggtcggttggtcaggcatatatagcctgcgcccgaccgaaccgatgtg Find is-nt database================================================ Query_seq: PG0841:PG0842|PG0841:PG0842:mobilizable transposon, excision protein, putative:mobilizable transposon, hypothetical protein, putative:<-<-:903765..903899 135 gctgttttttctttggcggttcttctttggtcggtcggacgtttactataggcactccttccgtccgaccattctttatttatggttggtcggttggtcaggcatatatagcctgcgcccgaccgaaccgatgtg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0841:PG0842|PG0841:PG0842:mobilizable transposon, excision protein, putative:mobilizable transposon, hypothetical protein, putative:<-<-:903765..903899 135 gctgttttttctttggcggttcttctttggtcggtcggacgtttactataggcactccttccgtccgaccattctttatttatggttggtcggttggtcaggcatatatagcctgcgcccgaccgaaccgatgtg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0841:PG0842|PG0841:PG0842:mobilizable transposon, excision protein, putative:mobilizable transposon, hypothetical protein, putative:<-<-:903765..903899 135 gctgttttttctttggcggttcttctttggtcggtcggacgtttactataggcactccttccgtccgaccattctttatttatggttggtcggttggtcaggcatatatagcctgcgcccgaccgaaccgatgtg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gctgttttttctttggcggttcttctttggtcggtcggacgtttactataggcactccttccgtccgaccattctttatttatggttggtcggttggtcaggcatatatagcctgcgcccgaccgaaccgatgtg Predict ORF larger than 30AA ================================================ Protein_Len: 44 Strand: + Start: 2 End: 133 . M F F L W R F F F G R S D V Y Y R H S F R P T I L Y L W L V G W S G I Y S L R P T E P M .. Protein_Len: 36 Strand: + Start: 27 End: 134 .......................... M V G R T F T I G T P S V R P F F I Y G W S V G Q A Y I A C A R P N R C . Protein_Len: 35 Strand: - Start: 3 End: 107 .. T K E K A T R R Q D T P R K S Y A S R G D S W E K N I T P R N T L C M ............................ gctgttttttctttggcggttcttctttggtcggtcggacgtttactataggcactccttccgtccgaccattctttatttatggttggtcggttggtcaggcatatatagcctgcgcccgaccgaaccgatgtg 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================================================ gctgttttttctttggcggttcttctttggtcggtcggacgtttactataggcactccttccgtccgaccattctttatttatggttggtcggttggtcaggcatatatagcctgcgcccgaccgaaccgatgtg Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 59 HP_score: -7.0 Tail_Score: -3.15249 Start: 61 End: 93 Full_Region: CTATAGGCACTCCTT CCGTCCGACCAT TCTTTATTT ATGGTTGGTCGG TTGGTCAGGCATATA ............................................................CCGTCCGACCATTCTTTATTTATGGTTGGTCGG.......................................... Find igs database================================================ Query_seq: PG0841:PG0842|PG0841:PG0842:mobilizable transposon, excision protein, putative:mobilizable transposon, hypothetical protein, putative:<-<-:903765..903899 135 gctgttttttctttggcggttcttctttggtcggtcggacgtttactataggcactccttccgtccgaccattctttatttatggttggtcggttggtcaggcatatatagcctgcgcccgaccgaaccgatgtg Intra-Species Hit: Count: 1 Min: 1 Max: 135 Len: 135 Subject: NC_002950_PG0841_PG0842|mobilizable transposon, excision protein, putative:mobilizable transposon, hypothetical protein, putative|NEGATIVE:NEGATIVE|[903765,903899]|135 HSP 1 e-value: 4.0E-71 bit: 268.0 Len: 135 Query Start:1 Query End:135 Subject Strand: POSITIVE Subject Start: 1 Subject End: 135 gctgttttttctttggcggttcttctttggtcggtcggacgtttactataggcactccttccgtccgaccattctttatttatggttggtcggttggtcaggcatatatagcctgcgcccgaccgaaccgatgtg gctgttttttctttggcggttcttctttggtcggtcggacgtttactataggcactccttccgtccgaccattctttatttatggttggtcggttggtcaggcatatatagcctgcgcccgaccgaaccgatgtg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCUGUUUUUUCUUUGGCGGUUCUUCUUUGGUCGGUCGGACGUUUACUAUAGGCACUCCUUCCGUCCGACCAUUCUUUAUUUAUGGUUGGUCGGUUGGUCAGGCAUAUAUAGCCUGCGCCCGACCGAACCGAUGUG ((((((........))))))......((((((((((((.(((...(((((.((...((..(((.((((((((.........)))))))).)))..))....))...)))))...))).))))))).))))).... (-54.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CACAUCGGUUCGGUCGGGCGCAGGCUAUAUAUGCCUGACCAACCGACCAACCAUAAAUAAAGAAUGGUCGGACGGAAGGAGUGCCUAUAGUAAACGUCCGACCGACCAAAGAAGAACCGCCAAAGAAAAAACAGC .....((((((((((((...(((((.......))))).....))))))................(((((((.((((.(...(((.....)))..).)))).))))))).....))))))................ (-49.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1086 130 81 221 172 NC_002950:PG0841|5end_mobilizable_transposon,_excision_protein,_putative_903674..903904_NEGATIVE 426 130 83 181 140 NC_002950:PG1979|5end_hypothetical_protein_2067272..2067502_POSITIVE 402 130 86 207 154 NC_002950:PG0351|5end_hypothetical_protein_386774..387004_POSITIVE 380 124 84 213 171 NC_002950:PG0646|5end_iron_compound_ABC_transporter,_ATP-binding_protein_699071..699301_NEGATIVE 375 96 51 225 178 NC_002950:PG0267|5end_arginyl-tRNA_synthetase_299100..299330_POSITIVE 369 46 1 228 161 NC_002950:PG0165|5end_heat_shock_protein_15_187807..188037_NEGATIVE 367 59 15 183 134 NC_002950:PG1274|5end_elongation_factor_P_1351843..1352073_POSITIVE 363 68 21 227 176 NC_002950:PG1562|5end_dTDP-4-dehydrorhamnose_3,5-epimerase_1641582..1641812_NEGATIVE 362 88 51 183 141 NC_002950:PG0446|5end_thiF_protein_486599..486829_POSITIVE 359 124 83 65 19 NC_002950:PG1992|5end_glucose-inhibited_division_protein_A_2081410..2081640_POSITIVE 358 80 32 218 153 NC_002950:PG0399|5end_lipoprotein,_putative_436237..436467_NEGATIVE 356 130 84 188 133 NC_002950:PG0951|5end_phosphoribosylaminoimidazole_carboxylase,_PurE_protein_1010242..1010472_POSITIVE 354 130 84 62 4 NC_002950:PG1134|5end_thioredoxin_reductase_1214350..1214580_POSITIVE 353 67 23 108 59 NC_002950:PG1728|5end_cytidine/deoxycytidylate_deaminase_family_protein_1817644..1817874_POSITIVE 353 130 86 59 22 NC_002950:PG1434|5end_2-C-methyl-D-erythritol_4-phosphate_cytidylyltransferase_1519022..1519252_POSITIVE 350 72 33 177 128 NC_002950:PG0329|5end_formiminotransferase-cyclodeaminase-related_protein_364429..364659_NEGATIVE 349 68 21 183 132 NC_002950:PG0987|5end_hypothetical_protein_1048002..1048232_POSITIVE 347 67 28 153 121 NC_002950:PG1495|5end_DNA_topoisomerase_III_1571243..1571473_POSITIVE 347 39 1 143 103 NC_002950:PG1115|5end_signal_recognition_particle_protein_1187470..1187700_POSITIVE 347 68 29 156 115 NC_002950:PG0767|5end_4-alpha-glucanotransferase_820533..820763_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 417 119 72 57 13 NC_002950:PG1330|3end_large_conductance_mechanosensitive_channel_protein_1410165..1410315_POSITIVE 376 41 13 139 103 NC_002950:PG1956|3end_4-hydroxybutyrate_CoA-transferase_2046215..2046365_NEGATIVE 363 67 23 129 82 NC_002950:PG2205|3end_2-dehydropantoate_2-reductase_2317145..2317295_POSITIVE 362 88 51 53 11 NC_002950:PG0445|3end_peptidase_T_486549..486699_POSITIVE 361 44 1 137 83 NC_002950:PG0754|3end_DNA_topoisomerase_I_803389..803539_POSITIVE 354 68 23 135 95 NC_002950:PG0198|3end_hypothetical_protein_237501..237651_POSITIVE 353 130 86 83 46 NC_002950:PG1433|3end_hydrolase_1519126..1519276_POSITIVE 350 72 33 128 79 NC_002950:PG0330|3end_DNA-binding_protein,_histone-like_family_364478..364628_NEGATIVE 349 55 11 143 102 NC_002950:PG1942|3end_30S_ribosomal_protein_S12_2027946..2028096_NEGATIVE 347 67 28 64 32 NC_002950:PG1494|3end_hypothetical_protein_1571234..1571384_POSITIVE 347 39 1 66 26 NC_002950:PG1114|3end_aspartate_1-decarboxylase_precursor_1187473..1187623_POSITIVE 345 124 82 143 86 NC_002950:PG2145|3end_polysaccharide_deacetylase_2253938..2254088_POSITIVE 344 126 85 62 8 NC_002950:PG0605|3end_hypothetical_protein_661165..661315_NEGATIVE 344 130 82 115 70 NC_002950:PG0443|3end_hemagglutinin-related_protein_483147..483297_POSITIVE 341 130 85 106 56 NC_002950:PG1975|3end_hemagglutinin_protein_HagC_2064350..2064500_POSITIVE 340 59 15 51 2 NC_002950:PG0569|3end_hypothetical_protein_624697..624847_NEGATIVE 338 57 11 103 47 NC_002950:PG1170|3end_SerB_family_protein_1250115..1250265_POSITIVE 337 103 62 49 8 NC_002950:PG1837|3end_hemagglutinin_protein_HagA_1936734..1936884_POSITIVE 335 68 25 88 50 NC_002950:PG0134|3end_magnesium_transporter_155783..155933_NEGATIVE 333 130 92 39 2 NC_002950:PG0735|3end_aminotransferase,_class_V_785677..785827_POSITIVE