Origin IGS: gatatgtttattttacatttacgacaaacgcaccagatgaaacatctgatcgttttatcacgaattctccctcttctgggttttgagggtcaaacactaccatattccctgatttatcatatcttttgattatcacggcatgacttgatgtaccattaccagaccatcctggagttgtattggggttaaatactagaatttgaccactacaataaccttcttctgagccactaaaaaagttagatgcaaattttttatgatcatgtccgttcccagagaaagcatagttgttttcatcaaaattatctccataatagccacttgctattgccatagcagcatcggcatcgtaatcaatcccacagctttttaagtatgcaatacacctccaccaacaatcgttagtatcataacctccaatataggtcatttgtaatgcttcacttaatattggcattctttttgccaattcgtccagacttgattttgttagtttctttcttgccatataaagttaaattttaaaattagtgaataattatcagtta .........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.........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 taactgataattattcactaattttaaaatttaactttatatggcaagaaagaaactaacaaaatcaagtctggacgaattggcaaaaagaatgccaatattaagtgaagcattacaaatgacctatattggaggttatgatactaacgattgttggtggaggtgtattgcatacttaaaaagctgtgggattgattacgatgccgatgctgctatggcaatagcaagtggctattatggagataattttgatgaaaacaactatgctttctctgggaacggacatgatcataaaaaatttgcatctaacttttttagtggctcagaagaaggttattgtagtggtcaaattctagtatttaaccccaatacaactccaggatggtctggtaatggtacatcaagtcatgccgtgataatcaaaagatatgataaatcagggaatatggtagtgtttgaccctcaaaacccagaagagggagaattcgtgataaaacgatcagatgtttcatctggtgcgtttgtcgtaaatgtaaaataaacatatc Mask Tandem Repeat Region ================================================ gatatgtttattttacatttacgacaaacgcaccagatgaaacatctgatcgttttatcacgaattctccctcttctgggttttgagggtcaaacactaccatattccctgatttatcatatcttttgattatcacggcatgacttgatgtaccattaccagaccatcctggagttgtattggggttaaatactagaatttgaccactacaataaccttcttctgagccactaaaaaagttagatgcaaattttttatgatcatgtccgttcccagagaaagcatagttgttttcatcaaaattatctccataatagccacttgctattgccatagcagcatcggcatcgtaatcaatcccacagctttttaagtatgcaatacacctccaccaacaatcgttagtatcataacctccaatataggtcatttgtaatgcttcacttaatattggcattctttttgccaattcgtccagacttgattttgttagtttctttcttgccatataaagttaaattttaaaattagtgaataattatcagtta Find is-nt database================================================ Query_seq: TF2714:TF2715|TF2714:TF2715:hypothetical protein:glycosyltransferase:->->:2888711..2889258 548 gatatgtttattttacatttacgacaaacgcaccagatgaaacatctgatcgttttatcacgaattctccctcttctgggttttgagggtcaaacactaccatattccctgatttatcatatcttttgattatcacggcatgacttgatgtaccattaccagaccatcctggagttgtattggggttaaatactagaatttgaccactacaataaccttcttctgagccactaaaaaagttagatgcaaattttttatgatcatgtccgttcccagagaaagcatagttgttttcatcaaaattatctccataatagccacttgctattgccatagcagcatcggcatcgtaatcaatcccacagctttttaagtatgcaatacacctccaccaacaatcgttagtatcataacctccaatataggtcatttgtaatgcttcacttaatattggcattctttttgccaattcgtccagacttgattttgttagtttctttcttgccatataaagttaaattttaaaattagtgaataattatcagtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2714:TF2715|TF2714:TF2715:hypothetical protein:glycosyltransferase:->->:2888711..2889258 548 gatatgtttattttacatttacgacaaacgcaccagatgaaacatctgatcgttttatcacgaattctccctcttctgggttttgagggtcaaacactaccatattccctgatttatcatatcttttgattatcacggcatgacttgatgtaccattaccagaccatcctggagttgtattggggttaaatactagaatttgaccactacaataaccttcttctgagccactaaaaaagttagatgcaaattttttatgatcatgtccgttcccagagaaagcatagttgttttcatcaaaattatctccataatagccacttgctattgccatagcagcatcggcatcgtaatcaatcccacagctttttaagtatgcaatacacctccaccaacaatcgttagtatcataacctccaatataggtcatttgtaatgcttcacttaatattggcattctttttgccaattcgtccagacttgattttgttagtttctttcttgccatataaagttaaattttaaaattagtgaataattatcagtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2714:TF2715|TF2714:TF2715:hypothetical protein:glycosyltransferase:->->:2888711..2889258 548 gatatgtttattttacatttacgacaaacgcaccagatgaaacatctgatcgttttatcacgaattctccctcttctgggttttgagggtcaaacactaccatattccctgatttatcatatcttttgattatcacggcatgacttgatgtaccattaccagaccatcctggagttgtattggggttaaatactagaatttgaccactacaataaccttcttctgagccactaaaaaagttagatgcaaattttttatgatcatgtccgttcccagagaaagcatagttgttttcatcaaaattatctccataatagccacttgctattgccatagcagcatcggcatcgtaatcaatcccacagctttttaagtatgcaatacacctccaccaacaatcgttagtatcataacctccaatataggtcatttgtaatgcttcacttaatattggcattctttttgccaattcgtccagacttgattttgttagtttctttcttgccatataaagttaaattttaaaattagtgaataattatcagtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gatatgtttattttacatttacgacaaacgcaccagatgaaacatctgatcgttttatcacgaattctccctcttctgggttttgagggtcaaacactaccatattccctgatttatcatatcttttgattatcacggcatgacttgatgtaccattaccagaccatcctggagttgtattggggttaaatactagaatttgaccactacaataaccttcttctgagccactaaaaaagttagatgcaaattttttatgatcatgtccgttcccagagaaagcatagttgttttcatcaaaattatctccataatagccacttgctattgccatagcagcatcggcatcgtaatcaatcccacagctttttaagtatgcaatacacctccaccaacaatcgttagtatcataacctccaatataggtcatttgtaatgcttcacttaatattggcattctttttgccaattcgtccagacttgattttgttagtttctttcttgccatataaagttaaattttaaaattagtgaataattatcagtta Predict ORF larger than 30AA ================================================ Protein_Len: 41 Strand: + Start: 4 End: 126 ... M F I L H L R Q T H Q M K H L I V L S R I L P L L G F E G Q T L P Y S L I Y H I F ...................................................................................................................................................................................................................................................................................................................................................................................................................................... Protein_Len: 30 Strand: + Start: 244 End: 333 ................................................................................................................................................................................................................................................... M Q I F Y D H V R S Q R K H S C F H Q N Y L H N S H L L L P ....................................................................................................................................................................................................................... Protein_Len: 38 Strand: + Start: 257 End: 370 ................................................................................................................................................................................................................................................................ M I M S V P R E S I V V F I K I I S I I A T C Y C H S S I G I V I N P T A F .................................................................................................................................................................................. Protein_Len: 42 Strand: - Start: 196 End: 321 ................................................................................................................................................................................................... F K V V V I V K K Q A V L F T L H L N K I I M D T G L S L M T T K M L I I E M I A M ................................................................................................................................................................................................................................... Protein_Len: 60 Strand: - Start: 11 End: 508 .......... A M A A D A D Y D I G C S K L Y A I C R W W C D N T D Y G G I Y T M Q L A E S L I P M R K A L E D L S S K T L K K R A M ........................................ gatatgtttattttacatttacgacaaacgcaccagatgaaacatctgatcgttttatcacgaattctccctcttctgggttttgagggtcaaacactaccatattccctgatttatcatatcttttgattatcacggcatgacttgatgtaccattaccagaccatcctggagttgtattggggttaaatactagaatttgaccactacaataaccttcttctgagccactaaaaaagttagatgcaaattttttatgatcatgtccgttcccagagaaagcatagttgttttcatcaaaattatctccataatagccacttgctattgccatagcagcatcggcatcgtaatcaatcccacagctttttaagtatgcaatacacctccaccaacaatcgttagtatcataacctccaatataggtcatttgtaatgcttcacttaatattggcattctttttgccaattcgtccagacttgattttgttagtttctttcttgccatataaagttaaattttaaaattagtgaataattatcagtta 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================================================ PromScan Matrix: RpoN Strand: + Score: 83 Start: 451 End: 467 ..................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTGGCATTCTTTTTGCC................................................................................. gatatgtttattttacatttacgacaaacgcaccagatgaaacatctgatcgttttatcacgaattctccctcttctgggttttgagggtcaaacactaccatattccctgatttatcatatcttttgattatcacggcatgacttgatgtaccattaccagaccatcctggagttgtattggggttaaatactagaatttgaccactacaataaccttcttctgagccactaaaaaagttagatgcaaattttttatgatcatgtccgttcccagagaaagcatagttgttttcatcaaaattatctccataatagccacttgctattgccatagcagcatcggcatcgtaatcaatcccacagctttttaagtatgcaatacacctccaccaacaatcgttagtatcataacctccaatataggtcatttgtaatgcttcacttaatattggcattctttttgccaattcgtccagacttgattttgttagtttctttcttgccatataaagttaaattttaaaattagtgaataattatcagtta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2714:TF2715|TF2714:TF2715:hypothetical protein:glycosyltransferase:->->:2888711..2889258 548 gatatgtttattttacatttacgacaaacgcaccagatgaaacatctgatcgttttatcacgaattctccctcttctgggttttgagggtcaaacactaccatattccctgatttatcatatcttttgattatcacggcatgacttgatgtaccattaccagaccatcctggagttgtattggggttaaatactagaatttgaccactacaataaccttcttctgagccactaaaaaagttagatgcaaattttttatgatcatgtccgttcccagagaaagcatagttgttttcatcaaaattatctccataatagccacttgctattgccatagcagcatcggcatcgtaatcaatcccacagctttttaagtatgcaatacacctccaccaacaatcgttagtatcataacctccaatataggtcatttgtaatgcttcacttaatattggcattctttttgccaattcgtccagacttgattttgttagtttctttcttgccatataaagttaaattttaaaattagtgaataattatcagtta Intra-Species Hit: Count: 1 Min: 1 Max: 548 Len: 548 Subject: tfor_TF2714_TF2715|hypothetical protein:glycosyltransferase|POSITIVE:POSITIVE|[2888711, 2889258]|548 HSP 1 e-value: 0.0 bit: 1086.0 Len: 548 Query Start:1 Query End:548 Subject Strand: POSITIVE Subject Start: 1 Subject End: 548 gatatgtttattttacatttacgacaaacgcaccagatgaaacatctgatcgttttatcacgaattctccctcttctgggttttgagggtcaaacactaccatattccctgatttatcatatcttttgattatcacggcatgacttgatgtaccattaccagaccatcctggagttgtattggggttaaatactagaatttgaccactacaataaccttcttctgagccactaaaaaagttagatgcaaattttttatgatcatgtccgttcccagagaaagcatagttgttttcatcaaaattatctccataatagccacttgctattgccatagcagcatcggcatcgtaatcaatcccacagctttttaagtatgcaatacacctccaccaacaatcgttagtatcataacctccaatataggtcatttgtaatgcttcacttaatattggcattctttttgccaattcgtccagacttgattttgttagtttctttcttgccatataaagttaaattttaaaattagtgaataattatcagtta gatatgtttattttacatttacgacaaacgcaccagatgaaacatctgatcgttttatcacgaattctccctcttctgggttttgagggtcaaacactaccatattccctgatttatcatatcttttgattatcacggcatgacttgatgtaccattaccagaccatcctggagttgtattggggttaaatactagaatttgaccactacaataaccttcttctgagccactaaaaaagttagatgcaaattttttatgatcatgtccgttcccagagaaagcatagttgttttcatcaaaattatctccataatagccacttgctattgccatagcagcatcggcatcgtaatcaatcccacagctttttaagtatgcaatacacctccaccaacaatcgttagtatcataacctccaatataggtcatttgtaatgcttcacttaatattggcattctttttgccaattcgtccagacttgattttgttagtttctttcttgccatataaagttaaattttaaaattagtgaataattatcagtta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUAUGUUUAUUUUACAUUUACGACAAACGCACCAGAUGAAACAUCUGAUCGUUUUAUCACGAAUUCUCCCUCUUCUGGGUUUUGAGGGUCAAACACUACCAUAUUCCCUGAUUUAUCAUAUCUUUUGAUUAUCACGGCAUGACUUGAUGUACCAUUACCAGACCAUCCUGGAGUUGUAUUGGGGUUAAAUACUAGAAUUUGACCACUACAAUAACCUUCUUCUGAGCCACUAAAAAAGUUAGAUGCAAAUUUUUUAUGAUCAUGUCCGUUCCCAGAGAAAGCAUAGUUGUUUUCAUCAAAAUUAUCUCCAUAAUAGCCACUUGCUAUUGCCAUAGCAGCAUCGGCAUCGUAAUCAAUCCCACAGCUUUUUAAGUAUGCAAUACACCUCCACCAACAAUCGUUAGUAUCAUAACCUCCAAUAUAGGUCAUUUGUAAUGCUUCACUUAAUAUUGGCAUUCUUUUUGCCAAUUCGUCCAGACUUGAUUUUGUUAGUUUCUUUCUUGCCAUAUAAAGUUAAAUUUUAAAAUUAGUGAAUAAUUAUCAGUUA ((((((...........................((((((...))))))...((((.(((.((((....(((......))).))))..))).)))).....))))))((.((((..((((.......)))).)))).))..(((((.((((...((((((..((((....(((((.(((((((.((((((((......))))))))........................(((.((((((((.(.((...(((..((((((...............(((((((((....))))))).))..................(((..(((((((....)))))))....))).))))))..)))..))))))))))).)))...))))))).))))).........((((......))))..........))))....)))))).((((((....(((((((.......)))))))..........((((((((((..((.........))...))))))))))...........))))))....))))))))) (-110.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACUGAUAAUUAUUCACUAAUUUUAAAAUUUAACUUUAUAUGGCAAGAAAGAAACUAACAAAAUCAAGUCUGGACGAAUUGGCAAAAAGAAUGCCAAUAUUAAGUGAAGCAUUACAAAUGACCUAUAUUGGAGGUUAUGAUACUAACGAUUGUUGGUGGAGGUGUAUUGCAUACUUAAAAAGCUGUGGGAUUGAUUACGAUGCCGAUGCUGCUAUGGCAAUAGCAAGUGGCUAUUAUGGAGAUAAUUUUGAUGAAAACAACUAUGCUUUCUCUGGGAACGGACAUGAUCAUAAAAAAUUUGCAUCUAACUUUUUUAGUGGCUCAGAAGAAGGUUAUUGUAGUGGUCAAAUUCUAGUAUUUAACCCCAAUACAACUCCAGGAUGGUCUGGUAAUGGUACAUCAAGUCAUGCCGUGAUAAUCAAAAGAUAUGAUAAAUCAGGGAAUAUGGUAGUGUUUGACCCUCAAAACCCAGAAGAGGGAGAAUUCGUGAUAAAACGAUCAGAUGUUUCAUCUGGUGCGUUUGUCGUAAAUGUAAAAUAAACAUAUC ...(((((...............................(((((((.((.............((((((.(((.(....(((((((.......))))))).(((((((..(((.((((.(((((((.......)))))))..(((((((....)))))))....)))).))).))))))).......).)))))))))..(((((((.(((((((((....)))))....(((((((.(((((.....((((((.(..((((....((((((((((((.((.((.....)).(((((((.(((....))).)))))))))..))))).)))))))..))))..).)))))).....(((((.......)))))..))))).))))))).)))).)))..))))...)).)))))))...((((.......))))..)))))...........(((((((.(((((...........)))))...(((..(((((((.((((((((((...)))))))).)))))))))..)))......)))))))... (-135.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 343 370 324 156 112 tfor:TF1001|5end_penicillin-binding_protein_1A_1054097..1054327_POSITIVE 337 350 306 92 46 tfor:TF2296|5end_hypothetical_protein_2448892..2449122_POSITIVE 336 349 307 210 159 tfor:TF2291|5end_outer_membrane_protein_2446098..2446328_POSITIVE 332 366 321 64 26 tfor:TF1527|5end_hypothetical_protein_1632599..1632829_POSITIVE 329 350 308 146 113 tfor:TF3022|5end_chorismate_synthase_3246136..3246366_POSITIVE 326 359 314 71 12 tfor:TF3076|5end_outer_membrane_protein,_TonB_dependent_receptor_3302785..3303015_POSITIVE 324 369 321 79 28 tfor:TF2797|5end_cytochrome_d_oxidase,_subunit_I_2982450..2982680_POSITIVE 323 348 308 137 84 tfor:TF2829|5end_conserved_hypothetical_protein_3019562..3019792_POSITIVE 318 380 336 124 80 tfor:TF2657|5end_conserved_hypothetical_protein_2829729..2829959_POSITIVE 317 349 304 194 142 tfor:TF3033|5end_S1_RNA_binding_domain_protein,_S1_ribosomal_protein_3256786..3257016_POSITIVE 315 68 21 153 99 tfor:TF1911|5end_conserved_hypothetical_protein_2065143..2065373_POSITIVE 314 360 316 77 13 tfor:TF2583|5end_possible_ABC_transporter,__permease_component_2750206..2750436_POSITIVE 305 352 317 52 9 tfor:TF2257|5end_transfer_region-related_protein,_TraJ_2428541..2428771_POSITIVE 304 349 308 214 165 tfor:TF2183|5end_hypothetical_protein_2355362..2355592_POSITIVE 302 96 58 45 4 tfor:TF1320|5end_beta-galactosidase_1398414..1398644_POSITIVE 302 366 322 179 138 tfor:TF0558|5end_conserved_hypothetical_protein_590116..590346_POSITIVE 301 174 132 58 3 tfor:TF0640|5end_outer_membrane_protein,_TonB_dependent_receptor_678087..678317_POSITIVE 299 360 317 63 3 tfor:TF2233|5end_conserved_hypothetical_protein_2406755..2406985_POSITIVE 297 86 47 195 156 tfor:TF2086|5end_transglutaminase-related_protein_2253931..2254161_POSITIVE 295 310 262 142 98 tfor:TF0095|5end_methyltransferase_105893..106123_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 343 370 324 148 104 tfor:TF1000|3end_sec-independent_protein_translocase_1054169..1054319_POSITIVE 335 353 317 45 18 tfor:TF1693|3end_conserved_hypothetical_protein;_possible_thiopurine_S-methyltransferase_(TPMT)_family_protein_1812372..1812522_POSITIVE 329 350 308 124 91 tfor:TF3021|3end_FKBP-type_peptidyl-prolyl_cis-trans_isomerase_3246194..3246344_POSITIVE 323 348 308 137 84 tfor:TF2827|3end_conserved_hypothetical_protein_3019642..3019792_POSITIVE 318 380 336 137 93 tfor:TF2656|3end_valyl-tRNA_synthetase_2829822..2829972_POSITIVE 314 360 316 74 10 tfor:TF2582|3end_ABC_transporter,_ATP-binding_protein_2750283..2750433_POSITIVE 305 352 317 45 2 tfor:TF2256|3end_transfer_region-related_protein,_TraI_2428614..2428764_POSITIVE 295 351 316 150 110 tfor:TF1974|3end_glyoxalase_I_related_protein_(lactoylglutathione_lyase)_2121428..2121578_POSITIVE 293 346 302 60 15 tfor:TF1110|3end_conserved_hypothetical_protein_1180837..1180987_POSITIVE 290 78 31 63 10 tfor:TF2110|3end_transposase_2280526..2280676_POSITIVE 287 68 22 61 15 tfor:TF2992|3end_hexapeptide_transferase_family_protein_3209691..3209841_POSITIVE 285 380 335 46 1 tfor:TF0278|3end_conserved_hypothetical_protein_307194..307344_POSITIVE 284 419 371 139 89 tfor:TF0128|3end_hypothetical_protein_140556..140706_POSITIVE 283 77 31 45 3 tfor:TF2999|3end_conserved_hypothetical_protein_3215891..3216041_POSITIVE 283 90 43 133 73 tfor:TF2726|3end_outer_membrane_protein,_possibly_involved_in_nutrient_binding_2903302..2903452_POSITIVE 283 68 30 48 6 tfor:TF1910|3end_nicotinate-nucleotide--dimethylbenzimidazole_phosphoribosyltransferase_2065118..2065268_POSITIVE 282 351 313 143 106 tfor:TF0960|3end_beta-galactosidase_1010506..1010656_POSITIVE 277 298 254 151 107 tfor:TF0758|3end_peptidyl-tRNA_hydrolase_805950..806100_POSITIVE 276 365 331 135 92 tfor:TF3099|3end_conserved_hypothetical_protein_3331107..3331257_POSITIVE 276 100 51 119 68 tfor:TF2556|3end_conserved_hypothetical_protein_2737095..2737245_POSITIVE