Origin IGS: tagaagtacctttatatttatcccaaagagggggtgccaaaacgcaatgttgggtacaccctcctttttcttttttagcctatgaaaatactctcggatatcattgccacactcttgaagtgcccggaccaaaaagaatcttttgtgatctgctttcgctta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taagcgaaagcagatcacaaaagattctttttggtccgggcacttcaagagtgtggcaatgatatccgagagtattttcataggctaaaaaagaaaaaggagggtgtacccaacattgcgttttggcaccccctctttgggataaatataaaggtacttcta Mask Tandem Repeat Region ================================================ tagaagtacctttatatttatcccaaagagggggtgccaaaacgcaatgttgggtacaccctcctttttcttttttagcctatgaaaatactctcggatatcattgccacactcttgaagtgcccggaccaaaaagaatcttttgtgatctgctttcgctta Find is-nt database================================================ Query_seq: TF1997:TF1999|TF1997:TF1999:ROK family transcriptional regulator:ArgK protein with ATPase and kinase domains:->->:2152747..2152908 162 tagaagtacctttatatttatcccaaagagggggtgccaaaacgcaatgttgggtacaccctcctttttcttttttagcctatgaaaatactctcggatatcattgccacactcttgaagtgcccggaccaaaaagaatcttttgtgatctgctttcgctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1997:TF1999|TF1997:TF1999:ROK family transcriptional regulator:ArgK protein with ATPase and kinase domains:->->:2152747..2152908 162 tagaagtacctttatatttatcccaaagagggggtgccaaaacgcaatgttgggtacaccctcctttttcttttttagcctatgaaaatactctcggatatcattgccacactcttgaagtgcccggaccaaaaagaatcttttgtgatctgctttcgctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1997:TF1999|TF1997:TF1999:ROK family transcriptional regulator:ArgK protein with ATPase and kinase domains:->->:2152747..2152908 162 tagaagtacctttatatttatcccaaagagggggtgccaaaacgcaatgttgggtacaccctcctttttcttttttagcctatgaaaatactctcggatatcattgccacactcttgaagtgcccggaccaaaaagaatcttttgtgatctgctttcgctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagaagtacctttatatttatcccaaagagggggtgccaaaacgcaatgttgggtacaccctcctttttcttttttagcctatgaaaatactctcggatatcattgccacactcttgaagtgcccggaccaaaaagaatcttttgtgatctgctttcgctta Predict ORF larger than 30AA ================================================ Protein_Len: 44 Strand: - Start: 1 End: 132 L L V K I N I G F L P H W F A I N P V G E K K K K L R H F Y E R I D N G C E Q L A R V M .............................. tagaagtacctttatatttatcccaaagagggggtgccaaaacgcaatgttgggtacaccctcctttttcttttttagcctatgaaaatactctcggatatcattgccacactcttgaagtgcccggaccaaaaagaatcttttgtgatctgctttcgctta 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================================================ tagaagtacctttatatttatcccaaagagggggtgccaaaacgcaatgttgggtacaccctcctttttcttttttagcctatgaaaatactctcggatatcattgccacactcttgaagtgcccggaccaaaaagaatcttttgtgatctgctttcgctta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1997:TF1999|TF1997:TF1999:ROK family transcriptional regulator:ArgK protein with ATPase and kinase domains:->->:2152747..2152908 162 tagaagtacctttatatttatcccaaagagggggtgccaaaacgcaatgttgggtacaccctcctttttcttttttagcctatgaaaatactctcggatatcattgccacactcttgaagtgcccggaccaaaaagaatcttttgtgatctgctttcgctta Intra-Species Hit: Count: 1 Min: 1 Max: 162 Len: 162 Subject: tfor_TF1997_TF1999|ROK family transcriptional regulator:ArgK protein with ATPase and kinase domains|POSITIVE:POSITIVE|[2152747,2152908]|162 HSP 1 e-value: 1.0E-65 bit: 250.0 Len: 162 Query Start:1 Query End:162 Subject Strand: POSITIVE Subject Start: 1 Subject End: 162 tagaagtacctttatatttatcccaaagagggggtgccaaaacgcaatgttgggtacaccctccnnnnnnnnnnnnagcctatgaaaatactctcggatatcattgccacactcttgaagtgcccggaccaaaaagaatcttttgtgatctgctttcgctta tagaagtacctttatatttatcccaaagagggggtgccaaaacgcaatgttgggtacaccctcctttttcttttttagcctatgaaaatactctcggatatcattgccacactcttgaagtgcccggaccaaaaagaatcttttgtgatctgctttcgctta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGAAGUACCUUUAUAUUUAUCCCAAAGAGGGGGUGCCAAAACGCAAUGUUGGGUACACCCUCCUUUUUCUUUUUUAGCCUAUGAAAAUACUCUCGGAUAUCAUUGCCACACUCUUGAAGUGCCCGGACCAAAAAGAAUCUUUUGUGAUCUGCUUUCGCUUA ..((((((...(((((...........(((((.(((((..(((.....))).))))).)))))....((((((((...((...............((.((....)))).((((.....))))...))...)))))))).....)))))..))))))...... (-31.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGCGAAAGCAGAUCACAAAAGAUUCUUUUUGGUCCGGGCACUUCAAGAGUGUGGCAAUGAUAUCCGAGAGUAUUUUCAUAGGCUAAAAAAGAAAAAGGAGGGUGUACCCAACAUUGCGUUUUGGCACCCCCUCUUUGGGAUAAAUAUAAAGGUACUUCUA ...((....))..(((.((((...((((((((((((...((((((...))))))....((((.((.(....).))..)))).)))).))))))))..(((.((((((....(((.....)))...))))))))).)))).)))................... (-38.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 588 63 26 160 119 tfor:TF0476|5end_conserved_hypothetical_protein_494944..495174_POSITIVE 514 63 27 163 122 tfor:TF0792|5end_pyruvate_ferredoxin;_flavodoxin_oxidoreductase_846454..846684_POSITIVE 497 63 26 225 185 tfor:TF0184|5end_dihydroneopterin_aldolase_195629..195859_POSITIVE 486 68 21 172 119 tfor:TF2536|5end_subtilisin-like_serine_protease_2719286..2719516_POSITIVE 484 70 23 204 154 tfor:TF0662|5end_hypothetical_protein_708316..708546_POSITIVE 448 60 25 151 115 tfor:TF1024|5end_50S_ribosomal_protein_L19_1081948..1082178_POSITIVE 448 60 25 159 123 tfor:TF0702|5end_possible_peptidyl-prolyl_isomerase_744977..745207_POSITIVE 420 63 23 201 158 tfor:TF2593|5end_amino_acid_transport_protein_2762882..2763112_POSITIVE 420 69 23 164 111 tfor:TF0187|5end_ferredoxin_202151..202381_POSITIVE 391 69 26 202 161 tfor:TF2320|5end_hypothetical_protein_2476654..2476884_POSITIVE 388 69 26 168 121 tfor:TF0811|5end_conserved_hypothetical_protein;_posible_sugar_phosphate_isomerase_869787..870017_POSITIVE 362 65 27 157 114 tfor:TF1284|5end_glyceraldehyde_3-phosphate_dehydrogenase_1367939..1368169_POSITIVE 353 63 26 159 130 tfor:TF2806|5end_conserved_hypothetical_protein_2994475..2994705_POSITIVE 341 80 31 217 180 tfor:TF0538|5end_hypothetical_protein_566891..567121_POSITIVE 341 80 31 210 173 tfor:TF0539|5end_hypothetical_protein_566884..567114_POSITIVE 340 69 27 170 133 tfor:TF2747|5end_heat_shock_protein,_HSP90_family_2928279..2928509_POSITIVE 339 70 22 217 169 tfor:TF1505|5end_conserved_hypothetical_protein_1610773..1611003_POSITIVE 332 70 21 148 95 tfor:TF2453|5end_glutamate_racemase_2630422..2630652_POSITIVE 332 79 37 229 188 tfor:TF2344|5end_ATP/GTP_binding_protein_2507422..2507652_POSITIVE 331 67 28 194 155 tfor:TF3007|5end_conserved_hypothetical_protein_3227256..3227486_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 497 63 26 44 4 tfor:TF0182|3end_DNA-binding_protein,_HU-related_195528..195678_POSITIVE 484 70 23 65 15 tfor:TF0661|3end_hypothetical_protein_708257..708407_POSITIVE 420 63 23 46 3 tfor:TF2592|3end_conserved_hypothetical_protein_2762807..2762957_POSITIVE 409 63 28 110 74 tfor:TF2413|3end_hypothetical_protein_2590680..2590830_POSITIVE 391 69 26 56 15 tfor:TF2319|3end_acyl_carrier_protein_2476588..2476738_POSITIVE 379 70 25 59 10 tfor:TF2765|3end_subtilisin-like_serine_protease_2951460..2951610_POSITIVE 353 63 26 53 24 tfor:TF2804|3end_conserved_hypothetical_protein_2994449..2994599_POSITIVE 342 69 25 59 15 tfor:TF1416|3end_outer_membrane_protein_1499413..1499563_POSITIVE 341 80 31 82 45 tfor:TF0537|3end_conserved_hypothetical_protein_566836..566986_POSITIVE 340 69 27 57 20 tfor:TF2746|3end_hypothetical_protein_2928246..2928396_POSITIVE 332 70 21 61 8 tfor:TF2452|3end_outer_membrane_protein,_OmpH_family_2630415..2630565_POSITIVE 330 65 27 60 22 tfor:TF1354|3end_TonB_protein_1435216..1435366_POSITIVE 330 68 21 65 13 tfor:TF1045|3end_conserved_hypothetical_protein_1108245..1108395_POSITIVE 322 69 25 66 22 tfor:TF1997|3end_ROK_family_transcriptional_regulator_2152686..2152836_POSITIVE 321 69 28 67 32 tfor:TF1532|3end_potassium_uptake_system_protein_1639415..1639565_POSITIVE 309 80 31 93 45 tfor:TF2133|3end_aspartate-semialdehyde_dehydrogenase_2311362..2311512_POSITIVE 301 64 23 51 3 tfor:TF1966|3end_conserved_hypothetical_protein_2115476..2115626_POSITIVE 298 153 113 54 12 tfor:TF2001|3end_conserved_hypothetical_protein_2155931..2156081_POSITIVE 297 70 23 86 30 tfor:TF1275|3end_transcription-repair_coupling_factor_1361290..1361440_POSITIVE 294 79 31 62 5 tfor:TF2410|3end_possible_endo-1,4-beta-xylanase_2585432..2585582_POSITIVE