Origin IGS: taagattcttttcttacagactttgccgcaacgatttaaatccgattatcaaagacatacggagccgaatagaaacattgctgcccgataaaagccattctcgaaacaaaaaagagagtcttttttatcgggcagcgagaatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taattctcgctgcccgataaaaaagactctcttttttgtttcgagaatggcttttatcgggcagcaatgtttctattcggctccgtatgtctttgataatcggatttaaatcgttgcggcaaagtctgtaagaaaagaatctta Mask Tandem Repeat Region ================================================ taagattcttttcttacagactttgccgcaacgatttaaatccgattatcaaagacatacggagccgaatagaaacattgctgcccgataaaagccattctcgaaacaaaaaagagagtcttttttatcgggcagcgagaatta Find is-nt database================================================ Query_seq: TF1396:TF1397|TF1396:TF1397:conserved hypothetical protein:glucosyltransferase:->->:1470461..1470604 144 taagattcttttcttacagactttgccgcaacgatttaaatccgattatcaaagacatacggagccgaatagaaacattgctgcccgataaaagccattctcgaaacaaaaaagagagtcttttttatcgggcagcgagaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1396:TF1397|TF1396:TF1397:conserved hypothetical protein:glucosyltransferase:->->:1470461..1470604 144 taagattcttttcttacagactttgccgcaacgatttaaatccgattatcaaagacatacggagccgaatagaaacattgctgcccgataaaagccattctcgaaacaaaaaagagagtcttttttatcgggcagcgagaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1396:TF1397|TF1396:TF1397:conserved hypothetical protein:glucosyltransferase:->->:1470461..1470604 144 taagattcttttcttacagactttgccgcaacgatttaaatccgattatcaaagacatacggagccgaatagaaacattgctgcccgataaaagccattctcgaaacaaaaaagagagtcttttttatcgggcagcgagaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taagattcttttcttacagactttgccgcaacgatttaaatccgattatcaaagacatacggagccgaatagaaacattgctgcccgataaaagccattctcgaaacaaaaaagagagtcttttttatcgggcagcgagaatta Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 45 End: 143 ............................................ M I K D I R S R I E T L L P D K S H S R N K K E S L F Y R A A R I . Protein_Len: 30 Strand: - Start: 39 End: 128 ...................................... I R N D F V Y P A S Y F C Q Q G I F A M R S V F F L T K K M ................ Protein_Len: 31 Strand: - Start: 17 End: 109 ................ L S Q R L S K F G I I L S M R L R I S V N S G S L L W E R F M ................................... taagattcttttcttacagactttgccgcaacgatttaaatccgattatcaaagacatacggagccgaatagaaacattgctgcccgataaaagccattctcgaaacaaaaaagagagtcttttttatcgggcagcgagaatta 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================================================ taagattcttttcttacagactttgccgcaacgatttaaatccgattatcaaagacatacggagccgaatagaaacattgctgcccgataaaagccattctcgaaacaaaaaagagagtcttttttatcgggcagcgagaatta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 44 HP_score: -3.2 Tail_Score: -2.81182 Start: 79 End: 137 Full_Region: taattct cgctgcccgataaaaaagactctc ttttttgtttc gagaatggcttttatcgggcagca atgtttctattcggc ..............................................................................cgctgcccgataaaaaagactctcttttttgtttcgagaatggcttttatcgggcagca....... Find igs database================================================ Query_seq: TF1396:TF1397|TF1396:TF1397:conserved hypothetical protein:glucosyltransferase:->->:1470461..1470604 144 taagattcttttcttacagactttgccgcaacgatttaaatccgattatcaaagacatacggagccgaatagaaacattgctgcccgataaaagccattctcgaaacaaaaaagagagtcttttttatcgggcagcgagaatta Intra-Species Hit: Count: 1 Min: 1 Max: 144 Len: 144 Subject: tfor_TF1396_TF1397|conserved hypothetical protein:glucosyltransferase|POSITIVE:POSITIVE|[1470461, 1470604]|144 HSP 1 e-value: 2.0E-76 bit: 285.0 Len: 144 Query Start:1 Query End:144 Subject Strand: POSITIVE Subject Start: 1 Subject End: 144 taagattcttttcttacagactttgccgcaacgatttaaatccgattatcaaagacatacggagccgaatagaaacattgctgcccgataaaagccattctcgaaacaaaaaagagagtcttttttatcgggcagcgagaatta taagattcttttcttacagactttgccgcaacgatttaaatccgattatcaaagacatacggagccgaatagaaacattgctgcccgataaaagccattctcgaaacaaaaaagagagtcttttttatcgggcagcgagaatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGAUUCUUUUCUUACAGACUUUGCCGCAACGAUUUAAAUCCGAUUAUCAAAGACAUACGGAGCCGAAUAGAAACAUUGCUGCCCGAUAAAAGCCAUUCUCGAAACAAAAAAGAGAGUCUUUUUUAUCGGGCAGCGAGAAUUA ...(((((.(((((......(((((.......(((....))).......))))).....((....))...)))))..(((((((((((((((((..((((((...........))))))..)))))))))))))))))))))). (-41.14) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUCUCGCUGCCCGAUAAAAAAGACUCUCUUUUUUGUUUCGAGAAUGGCUUUUAUCGGGCAGCAAUGUUUCUAUUCGGCUCCGUAUGUCUUUGAUAAUCGGAUUUAAAUCGUUGCGGCAAAGUCUGUAAGAAAAGAAUCUUA ........((((((((((((((.....((((...........)))).....)))))))))))))).....((((.(((...((((..((((...))))..)))).........((((((......))))))))).))))..... (-39.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 477 140 97 165 126 tfor:TF3081|5end_ISPg7,_transposase_3314517..3314747_POSITIVE 403 102 62 214 178 tfor:TF0487|5end_xylulose_kinase_508601..508831_POSITIVE 327 90 41 79 37 tfor:TF3026|5end_conserved_hypothetical_protein_3249137..3249367_POSITIVE 323 140 94 204 157 tfor:TF2583|5end_possible_ABC_transporter,__permease_component_2750206..2750436_POSITIVE 321 98 53 110 56 tfor:TF1143|5end_ABC_transporter,_ATP-binding/permease_component_1221704..1221934_POSITIVE 316 67 21 176 124 tfor:TF0194|5end_hypothetical_protein_215193..215423_POSITIVE 311 100 54 147 109 tfor:TF1623|5end_5-formyltetrahydrofolate_cyclo-ligase_1736698..1736928_POSITIVE 299 68 21 200 165 tfor:TF1061|5end_glycosyltransferase_1130264..1130494_POSITIVE 295 86 41 80 21 tfor:TF1257|5end_hypothetical_protein_1338118..1338348_POSITIVE 291 108 62 197 148 tfor:TF2530|5end_conserved_hypothetical_protein_2711416..2711646_POSITIVE 291 102 65 49 9 tfor:TF2501|5end_DNA_mismatch_repair_protein_2676280..2676510_POSITIVE 288 140 94 190 148 tfor:TF1929|5end_conserved_hypothetical_protein_2076049..2076279_POSITIVE 285 87 54 86 41 tfor:TF0005|5end_possible_beta-lactamase_600..830_POSITIVE 283 88 53 36 2 tfor:TF0693|5end_sigma-54_dependent_transcriptional_regulator_736902..737132_POSITIVE 282 106 62 91 41 tfor:TF3068|5end_flavodoxin_A_3292812..3293042_POSITIVE 282 109 61 69 22 tfor:TF2021|5end_hypothetical_protein_2177702..2177932_POSITIVE 282 140 96 201 154 tfor:TF0890|5end_transfer_region-related_protein,_TraQ_940014..940244_POSITIVE 281 70 27 98 44 tfor:TF1953|5end_methlytransferase,_possible_UbiE/COQ5_family_2103806..2104036_POSITIVE 280 103 63 34 2 tfor:TF2704|5end_ribonuclease_HII_2876242..2876472_POSITIVE 280 66 27 85 44 tfor:TF2041|5end_conserved_hypothetical_protein_2200395..2200625_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 316 67 21 143 91 tfor:TF0193|3end_conserved_hypothetical_protein;_possible_internalin-like_protein_(LPXTG_motif)_215240..215390_POSITIVE 311 100 54 132 94 tfor:TF1622|3end_conserved_hypothetical_protein_1736763..1736913_POSITIVE 293 99 57 111 78 tfor:TF3003|3end_hypothetical_protein_3220629..3220779_POSITIVE 292 96 62 151 121 tfor:TF0486|3end_conserved_hypothetical_protein;_possible_ADP-ribose_pyrophosphatase_508624..508774_POSITIVE 285 87 54 53 8 tfor:TF0002|3end_hypothetical_protein_647..797_POSITIVE 283 88 53 46 12 tfor:TF0692|3end_conserved_hypothetical_protein_736992..737142_POSITIVE 282 106 62 76 26 tfor:TF3067|3end_conserved_hypothetical_protein_3292877..3293027_POSITIVE 277 87 42 50 13 tfor:TF1952|3end_immunoreactive_84kD_antigen_PG93_2103829..2103979_POSITIVE 276 87 42 130 85 tfor:TF3021|3end_FKBP-type_peptidyl-prolyl_cis-trans_isomerase_3246194..3246344_POSITIVE 269 66 28 128 91 tfor:TF2694|3end_hypothetical_protein_2870863..2871013_POSITIVE 267 87 43 69 23 tfor:TF1554|3end_UDP-glucose_dehydrogenase_1661013..1661163_POSITIVE 262 87 41 106 54 tfor:TF0001|3end_hypothetical_protein_158..308_POSITIVE 259 106 61 138 73 tfor:TF2953|3end_possible_TonB-dependent_outer_membrane_receptor_3161501..3161651_POSITIVE 259 106 63 97 52 tfor:TF2696|3end_oxidoreductase,_short_chain_dehydrogenase/reductase_family_2871611..2871761_POSITIVE 258 108 61 55 10 tfor:TF2214|3end_peptidyl-prolyl_cis-trans_isomerase_2387564..2387714_POSITIVE 257 109 61 71 10 tfor:TF1236|3end_L-rhamnose_isomerase_1322106..1322256_POSITIVE 256 98 54 123 69 tfor:TF3154|3end_conserved_hypothetical_protein_3390489..3390639_POSITIVE 255 91 53 80 27 tfor:TF2527|3end_RNA_polymerase_ECF-type_sigma_factor_2710749..2710899_POSITIVE 254 102 64 50 13 tfor:TF1899|3end_anti-sigma_factor_2053815..2053965_POSITIVE 254 100 56 86 33 tfor:TF0333|3end_hypothetical_protein_359444..359594_POSITIVE