Origin IGS: aaatatatcctaatgttctcatatcccaaaactataggaacaattataacactattttagttattttaatagtaccttataatggttaaaaggccgccgctgaatggccgcagtgttttttagtttcggggatgtttcaaaagtttgttacttttttaccatctattgcataaactgcactttaagtaatatactggtaaaaaataggagttgct .........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 agcaactcctattttttaccagtatattacttaaagtgcagtttatgcaatagatggtaaaaaagtaacaaacttttgaaacatccccgaaactaaaaaacactgcggccattcagcggcggccttttaaccattataaggtactattaaaataactaaaatagtgttataattgttcctatagttttgggatatgagaacattaggatatattt Mask Tandem Repeat Region ================================================ aaatatatcctaatgttctcatatcccaaaactataggaacaattataacactattttagttattttaatagtaccttataatggttaaaaggccgccgctgaatggccgcagtgttttttagtttcggggatgtttcaaaagtttgttacttttttaccatctattgcataaactgcactttaagtaatatactggtaaaaaataggagttgct Find is-nt database================================================ Query_seq: TDE2747:TDE2748|TDE2747:TDE2748:type I restriction-modification system, R subunit:acetyltransferase, GNAT family:<-->:2805033..2805247 215 aaatatatcctaatgttctcatatcccaaaactataggaacaattataacactattttagttattttaatagtaccttataatggttaaaaggccgccgctgaatggccgcagtgttttttagtttcggggatgtttcaaaagtttgttacttttttaccatctattgcataaactgcactttaagtaatatactggtaaaaaataggagttgct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE2747:TDE2748|TDE2747:TDE2748:type I restriction-modification system, R subunit:acetyltransferase, GNAT family:<-->:2805033..2805247 215 aaatatatcctaatgttctcatatcccaaaactataggaacaattataacactattttagttattttaatagtaccttataatggttaaaaggccgccgctgaatggccgcagtgttttttagtttcggggatgtttcaaaagtttgttacttttttaccatctattgcataaactgcactttaagtaatatactggtaaaaaataggagttgct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE2747:TDE2748|TDE2747:TDE2748:type I restriction-modification system, R subunit:acetyltransferase, GNAT family:<-->:2805033..2805247 215 aaatatatcctaatgttctcatatcccaaaactataggaacaattataacactattttagttattttaatagtaccttataatggttaaaaggccgccgctgaatggccgcagtgttttttagtttcggggatgtttcaaaagtttgttacttttttaccatctattgcataaactgcactttaagtaatatactggtaaaaaataggagttgct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaatatatcctaatgttctcatatcccaaaactataggaacaattataacactattttagttattttaatagtaccttataatggttaaaaggccgccgctgaatggccgcagtgttttttagtttcggggatgtttcaaaagtttgttacttttttaccatctattgcataaactgcactttaagtaatatactggtaaaaaataggagttgct Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: + Start: 104 End: 214 ....................................................................................................... M A A V F F S F G D V S K V C Y F F T I Y C I N C T L S N I L V K N R S C . aaatatatcctaatgttctcatatcccaaaactataggaacaattataacactattttagttattttaatagtaccttataatggttaaaaggccgccgctgaatggccgcagtgttttttagtttcggggatgtttcaaaagtttgttacttttttaccatctattgcataaactgcactttaagtaatatactggtaaaaaataggagttgct 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================================================ aaatatatcctaatgttctcatatcccaaaactataggaacaattataacactattttagttattttaatagtaccttataatggttaaaaggccgccgctgaatggccgcagtgttttttagtttcggggatgtttcaaaagtttgttacttttttaccatctattgcataaactgcactttaagtaatatactggtaaaaaataggagttgct Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE2747:TDE2748|TDE2747:TDE2748:type I restriction-modification system, R subunit:acetyltransferase, GNAT family:<-->:2805033..2805247 215 aaatatatcctaatgttctcatatcccaaaactataggaacaattataacactattttagttattttaatagtaccttataatggttaaaaggccgccgctgaatggccgcagtgttttttagtttcggggatgtttcaaaagtttgttacttttttaccatctattgcataaactgcactttaagtaatatactggtaaaaaataggagttgct Intra-Species Hit: Count: 1 Min: 1 Max: 215 Len: 215 Subject: NC_002967_TDE2747_TDE2748|type I restriction-modification system, R subunit:acetyltransferase, GNAT family|NEGATIVE:POSITIVE|[2805033,2805247]|215 HSP 1 e-value: 1.0E-118 bit: 426.0 Len: 215 Query Start:1 Query End:215 Subject Strand: POSITIVE Subject Start: 1 Subject End: 215 aaatatatcctaatgttctcatatcccaaaactataggaacaattataacactattttagttattttaatagtaccttataatggttaaaaggccgccgctgaatggccgcagtgttttttagtttcggggatgtttcaaaagtttgttacttttttaccatctattgcataaactgcactttaagtaatatactggtaaaaaataggagttgct aaatatatcctaatgttctcatatcccaaaactataggaacaattataacactattttagttattttaatagtaccttataatggttaaaaggccgccgctgaatggccgcagtgttttttagtttcggggatgtttcaaaagtttgttacttttttaccatctattgcataaactgcactttaagtaatatactggtaaaaaataggagttgct Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAUAUAUCCUAAUGUUCUCAUAUCCCAAAACUAUAGGAACAAUUAUAACACUAUUUUAGUUAUUUUAAUAGUACCUUAUAAUGGUUAAAAGGCCGCCGCUGAAUGGCCGCAGUGUUUUUUAGUUUCGGGGAUGUUUCAAAAGUUUGUUACUUUUUUACCAUCUAUUGCAUAAACUGCACUUUAAGUAAUAUACUGGUAAAAAAUAGGAGUUGCU .......(((((........(((((((.((((((.(((((((........((((((..((.((((.....)))).))...)))))).....(((((........)))))....)))))))))))))..))))))).................(((((((((..((((((.((((......)))).))))))...))))))))).)))))...... (-48.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGCAACUCCUAUUUUUUACCAGUAUAUUACUUAAAGUGCAGUUUAUGCAAUAGAUGGUAAAAAAGUAACAAACUUUUGAAACAUCCCCGAAACUAAAAAACACUGCGGCCAUUCAGCGGCGGCCUUUUAACCAUUAUAAGGUACUAUUAAAAUAACUAAAAUAGUGUUAUAAUUGUUCCUAUAGUUUUGGGAUAUGAGAACAUUAGGAUAUAUUU ......(((((.((((((...(((((..(((........))).)))))....((((....((((((.....))))))....))))((((((((((.......((((.((......)).))))......(((.(((((((..(((((((...........)))))))))))))).)))....))))))))))...))))))...)))))....... (-46.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1010 140 91 231 182 NC_002967:TDE2747|5end_type_I_restriction-modification_system,_R_subunit_2804942..2805172_NEGATIVE 371 134 94 202 162 NC_002967:TDE0056|5end_DNA-directed_RNA_polymerase,_omega_subunit,_putative_65706..65936_POSITIVE 356 140 91 72 24 NC_002967:TDE1050|5end_hypothetical_protein_1077387..1077617_POSITIVE 341 131 91 204 164 NC_002967:TDE2268|5end_hypothetical_protein_2304959..2305189_NEGATIVE 337 138 91 88 28 NC_002967:TDE2464|5end_hypothetical_protein_2489143..2489373_POSITIVE 329 117 71 106 59 NC_002967:TDE2516|5end_hypothetical_protein_2542021..2542251_POSITIVE 322 111 90 52 20 NC_002967:TDE2010|5end_hypothetical_protein_2031318..2031548_POSITIVE 321 140 93 224 184 NC_002967:TDE0545|5end_hypothetical_protein_584774..585004_POSITIVE 314 114 81 62 20 NC_002967:TDE1515|5end_permease_domain_protein_1561978..1562208_POSITIVE 314 116 75 141 99 NC_002967:TDE1432|5end_hypothetical_protein_1475878..1476108_POSITIVE 309 125 86 148 108 NC_002967:TDE0860|5end_ribosomal_small_subunit_pseudouridine_synthase_A_881023..881253_POSITIVE 308 120 72 100 46 NC_002967:TDE1912|5end_redox-sensing_transcriptional_repressor_Rex_1929176..1929406_POSITIVE 304 115 92 42 14 NC_002967:TDE2766|5end_motility_protein_A_2820874..2821104_NEGATIVE 303 140 96 220 169 NC_002967:TDE0379|5end_hypothetical_protein_432458..432688_POSITIVE 301 134 91 165 120 NC_002967:TDE0782|5end_50S_ribosomal_protein_L6_812970..813200_POSITIVE 300 136 91 217 164 NC_002967:TDE2605|5end_phosphoglycerate_mutase_family_protein_2645818..2646048_POSITIVE 299 137 91 76 16 NC_002967:TDE2636|5end_hypothetical_protein_2676070..2676300_POSITIVE 299 127 94 89 45 NC_002967:TDE1605|5end_hypothetical_protein_1656111..1656341_NEGATIVE 299 118 91 61 21 NC_002967:TDE0740|5end_hypothetical_protein_775987..776217_POSITIVE 299 116 74 65 18 NC_002967:TDE0629|5end_chaperone_protein_DnaJ_662587..662817_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 366 111 78 149 126 NC_002967:TDE0451|3end_arginine_deiminase_509965..510115_POSITIVE 356 140 91 59 11 NC_002967:TDE1049|3end_elongation_factor_EF-2_1077454..1077604_POSITIVE 327 133 92 79 22 NC_002967:TDE2162|3end_NOL1/NOP2/sun_family_protein_2195560..2195710_POSITIVE 319 140 91 82 29 NC_002967:TDE0823|3end_(3R)-hydroxymyristoyl-(acyl-carrier-protein)_dehydratase,_putative_845252..845402_POSITIVE 311 136 91 142 93 NC_002967:TDE0912|3end_hypothetical_protein_931528..931678_POSITIVE 310 130 82 88 47 NC_002967:TDE0353|3end_lipase/acylhydrolase,_GDSL_family_396743..396893_NEGATIVE 309 125 86 151 111 NC_002967:TDE0859|3end_hypothetical_protein_881106..881256_POSITIVE 301 135 91 128 67 NC_002967:TDE0352|3end_ribose_5-phosphate_isomerase_B_396739..396889_POSITIVE 301 139 91 121 58 NC_002967:TDE0320|3end_CBS_domain_protein_352480..352630_NEGATIVE 295 133 94 149 103 NC_002967:TDE2007|3end_ABC_transporter,_ATP-binding/permease_protein_2028641..2028791_POSITIVE 294 138 91 145 100 NC_002967:TDE2310|3end_hypothetical_protein_2348256..2348406_POSITIVE 294 137 91 85 30 NC_002967:TDE0824|3end_lipoprotein,_putative_845226..845376_NEGATIVE 293 138 94 58 4 NC_002967:TDE2463|3end_hypothetical_protein_2489193..2489343_POSITIVE 293 118 72 86 42 NC_002967:TDE2204|3end_Na+/H+_antiporter_family_protein_2242550..2242700_POSITIVE 292 129 91 149 109 NC_002967:TDE0781|3end_30S_ribosomal_protein_S8_813039..813189_POSITIVE 291 137 91 62 16 NC_002967:TDE0940|3end_hypothetical_protein_963635..963785_POSITIVE 289 139 93 87 25 NC_002967:TDE1796|3end_hypothetical_protein_1834766..1834916_NEGATIVE 288 118 75 78 28 NC_002967:TDE0143|3end_thiamine_ABC_transporter,_thiamine-binding_protein_165103..165253_POSITIVE 287 136 92 147 95 NC_002967:TDE0833|3end_lipoprotein,_putative_854097..854247_POSITIVE 285 116 75 151 111 NC_002967:TDE1431|3end_glycosyl_transferase,_group_1_family_protein_1475970..1476120_POSITIVE