Origin IGS: tgatccgctctataagtttttcggttcatccggagaaaatggagtgataaagttcatccaaaacagaaaggaagctgctgtttcttcgtataattgaaaattataccaataa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttattggtataattttcaattatacgaagaaacagcagcttcctttctgttttggatgaactttatcactccattttctccggatgaaccgaaaaacttatagagcggatca Mask Tandem Repeat Region ================================================ tgatccgctctataagtttttcggttcatccggagaaaatggagtgataaagttcatccaaaacagaaaggaagctgctgtttcttcgtataattgaaaattataccaataa Find is-nt database================================================ Query_seq: TF0386:TF0387|TF0386:TF0387:transcriptional regulator, possible LuxR family:hypothetical protein:->->:407640..407751 112 tgatccgctctataagtttttcggttcatccggagaaaatggagtgataaagttcatccaaaacagaaaggaagctgctgtttcttcgtataattgaaaattataccaataa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0386:TF0387|TF0386:TF0387:transcriptional regulator, possible LuxR family:hypothetical protein:->->:407640..407751 112 tgatccgctctataagtttttcggttcatccggagaaaatggagtgataaagttcatccaaaacagaaaggaagctgctgtttcttcgtataattgaaaattataccaataa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0386:TF0387|TF0386:TF0387:transcriptional regulator, possible LuxR family:hypothetical protein:->->:407640..407751 112 tgatccgctctataagtttttcggttcatccggagaaaatggagtgataaagttcatccaaaacagaaaggaagctgctgtttcttcgtataattgaaaattataccaataa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgatccgctctataagtttttcggttcatccggagaaaatggagtgataaagttcatccaaaacagaaaggaagctgctgtttcttcgtataattgaaaattataccaataa Predict ORF larger than 30AA ================================================ tgatccgctctataagtttttcggttcatccggagaaaatggagtgataaagttcatccaaaacagaaaggaagctgctgtttcttcgtataattgaaaattataccaataa 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================================================ tgatccgctctataagtttttcggttcatccggagaaaatggagtgataaagttcatccaaaacagaaaggaagctgctgtttcttcgtataattgaaaattataccaataa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0386:TF0387|TF0386:TF0387:transcriptional regulator, possible LuxR family:hypothetical protein:->->:407640..407751 112 tgatccgctctataagtttttcggttcatccggagaaaatggagtgataaagttcatccaaaacagaaaggaagctgctgtttcttcgtataattgaaaattataccaataa Intra-Species Hit: Count: 1 Min: 1 Max: 112 Len: 112 Subject: tfor_TF0386_TF0387|transcriptional regulator, possible LuxR family:hypothetical protein|POSITIVE:POSITIVE|[407640,407751]|112 HSP 1 e-value: 2.0E-57 bit: 222.0 Len: 112 Query Start:1 Query End:112 Subject Strand: POSITIVE Subject Start: 1 Subject End: 112 tgatccgctctataagtttttcggttcatccggagaaaatggagtgataaagttcatccaaaacagaaaggaagctgctgtttcttcgtataattgaaaattataccaataa tgatccgctctataagtttttcggttcatccggagaaaatggagtgataaagttcatccaaaacagaaaggaagctgctgtttcttcgtataattgaaaattataccaataa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUCCGCUCUAUAAGUUUUUCGGUUCAUCCGGAGAAAAUGGAGUGAUAAAGUUCAUCCAAAACAGAAAGGAAGCUGCUGUUUCUUCGUAUAAUUGAAAAUUAUACCAAUAA .....((((((((...((((((((.....)))))))).))))))))......................(((((((....))))))).(((((((.....)))))))...... (-27.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAUUGGUAUAAUUUUCAAUUAUACGAAGAAACAGCAGCUUCCUUUCUGUUUUGGAUGAACUUUAUCACUCCAUUUUCUCCGGAUGAACCGAAAAACUUAUAGAGCGGAUCA ...((.(((((((.....))))))).))............(((.((((((..(((((((......))).)))).......(((.....)))........)))))).)))... (-20.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 301 85 42 180 129 tfor:TF1447|5end_D-ribulose-phosphate-3_epimerase_1530977..1531207_POSITIVE 297 46 3 159 121 tfor:TF2079|5end_permease_2245585..2245815_POSITIVE 296 40 3 206 163 tfor:TF1048|5end_permease_1109241..1109471_POSITIVE 293 47 5 42 12 tfor:TF1757|5end_chromosome_partitioning_protein_1893846..1894076_POSITIVE 293 53 16 81 38 tfor:TF0376|5end_conserved_hypothetical_protein_394303..394533_POSITIVE 291 48 1 95 51 tfor:TF1933|5end_methionyl-tRNA_synthetase_2079675..2079905_POSITIVE 291 75 31 200 149 tfor:TF0461|5end_ATP:cob(I)alamin_adenosyltransferase_476990..477220_POSITIVE 287 48 6 72 29 tfor:TF0168|5end_hypothetical_protein_178160..178390_POSITIVE 280 59 12 189 135 tfor:TF2686|5end_ABC_transporter,_ATP-binding_protein_2862741..2862971_POSITIVE 279 100 51 78 33 tfor:TF1297|5end_hypothetical_protein_1379024..1379254_POSITIVE 274 66 21 157 109 tfor:TF1740|5end_hypothetical_protein_1868645..1868875_POSITIVE 272 88 55 212 173 tfor:TF3065|5end_enolase_3291055..3291285_POSITIVE 263 48 4 58 3 tfor:TF2528|5end_anti-sigma_factor_2708961..2709191_POSITIVE 263 86 53 35 4 tfor:TF2508|5end_ATP-dependent_Clp_protease,_ATP-binding_subunit_clpX_2686315..2686545_POSITIVE 263 50 4 213 153 tfor:TF1484|5end_penicillin_binding_protein_1579559..1579789_POSITIVE 259 90 41 122 76 tfor:TF2754|5end_hypothetical_protein_2940446..2940676_POSITIVE 257 42 5 76 41 tfor:TF2008|5end_DNA_polymerase_I_2159302..2159532_POSITIVE 257 94 62 48 15 tfor:TF0332|5end_conserved_hypothetical_protein_359333..359563_POSITIVE 256 46 3 199 156 tfor:TF2655|5end_DNA_topoisomerase_I_2824543..2824773_POSITIVE 255 80 31 68 8 tfor:TF1192|5end_alpha-amylase_1274007..1274237_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 301 85 42 124 73 tfor:TF1446|3end_hypothetical_protein_1531001..1531151_POSITIVE 293 47 5 35 5 tfor:TF1756|3end_chromosome_partitioning_ATPase,_ParA_family_1893919..1894069_POSITIVE 291 48 1 95 51 tfor:TF1932|3end_pigmentation_and_extracellular_proteinase_regulator_2079755..2079905_POSITIVE 287 48 6 66 23 tfor:TF0167|3end_conserved_hypothetical_protein_178234..178384_POSITIVE 283 46 6 85 45 tfor:TF0386|3end_transcriptional_regulator,_possible_LuxR_family_407579..407729_POSITIVE 280 59 12 93 39 tfor:TF2685|3end_iron-regulated_ABC-type_transporter_membrane_component_2862725..2862875_POSITIVE 272 88 55 61 22 tfor:TF3064|3end_oxidoreductase,_aldo/keto_reductase_family_3290984..3291134_POSITIVE 257 94 62 79 46 tfor:TF0333|3end_hypothetical_protein_359444..359594_POSITIVE 256 46 3 135 92 tfor:TF2654|3end_arginyl-tRNA_synthetase_2824559..2824709_POSITIVE 256 33 14 136 115 tfor:TF1875|3end_conserved_hypothetical_protein_2029593..2029743_POSITIVE 253 49 3 46 15 tfor:TF1740|3end_hypothetical_protein_1869192..1869342_POSITIVE 252 43 3 133 90 tfor:TF1186|3end_hypothetical_protein_1269815..1269965_POSITIVE 249 47 3 84 37 tfor:TF2134|3end_conserved_hypothetical_protein_2310187..2310337_POSITIVE 249 33 1 142 112 tfor:TF1468|3end_beta-galactosidase_1561251..1561401_POSITIVE 248 87 41 74 18 tfor:TF3165|3end_thiol:disulfide_interchange_protein,_thioredoxin_family_protein_3405343..3405493_POSITIVE 248 89 41 73 25 tfor:TF1325|3end_L-fucose_isomerase_1405870..1406020_POSITIVE 246 46 1 86 44 tfor:TF1575|3end_DNA-binding_response_regulator_1685895..1686045_POSITIVE 243 49 5 60 16 tfor:TF1070|3end_hydrolase_1141013..1141163_POSITIVE 243 46 3 79 18 tfor:TF0746|3end_possible_DNA_polymerase_III_792910..793060_POSITIVE 243 40 1 57 15 tfor:TF0310|3end_conserved_hypothetical_protein_335997..336147_POSITIVE