Origin IGS: tagagtcctatgccgaattctgcataggacctgatgaaaatcaagacggaggcgttcatgccccccttcctctttaccgacaaaacaaacaaaatataatttatgtaaaaacaacggacatccatacaaaaacagctatatttgccgcatcagtcaacggatactcaaaaagaactattttctgtcaaaattaagaagagggcaagtactc .........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 gagtacttgccctcttcttaattttgacagaaaatagttctttttgagtatccgttgactgatgcggcaaatatagctgtttttgtatggatgtccgttgtttttacataaattatattttgtttgttttgtcggtaaagaggaaggggggcatgaacgcctccgtcttgattttcatcaggtcctatgcagaattcggcataggactcta Mask Tandem Repeat Region ================================================ tagagtcctatgccgaattctgcataggacctgatgaaaatcaagacggaggcgttcatgccccccttcctctttaccgacaaaacaaacaaaatataatttatgtaaaaacaacggacatccatacaaaaacagctatatttgccgcatcagtcaacggatactcaaaaagaactattttctgtcaaaattaagaagagggcaagtactc Find is-nt database================================================ Query_seq: TF1350:TF1351|TF1350:TF1351:possible transcriptional regulator:conserved hypothetical protein:->->:1430697..1430907 211 tagagtcctatgccgaattctgcataggacctgatgaaaatcaagacggaggcgttcatgccccccttcctctttaccgacaaaacaaacaaaatataatttatgtaaaaacaacggacatccatacaaaaacagctatatttgccgcatcagtcaacggatactcaaaaagaactattttctgtcaaaattaagaagagggcaagtactc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1350:TF1351|TF1350:TF1351:possible transcriptional regulator:conserved hypothetical protein:->->:1430697..1430907 211 tagagtcctatgccgaattctgcataggacctgatgaaaatcaagacggaggcgttcatgccccccttcctctttaccgacaaaacaaacaaaatataatttatgtaaaaacaacggacatccatacaaaaacagctatatttgccgcatcagtcaacggatactcaaaaagaactattttctgtcaaaattaagaagagggcaagtactc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1350:TF1351|TF1350:TF1351:possible transcriptional regulator:conserved hypothetical protein:->->:1430697..1430907 211 tagagtcctatgccgaattctgcataggacctgatgaaaatcaagacggaggcgttcatgccccccttcctctttaccgacaaaacaaacaaaatataatttatgtaaaaacaacggacatccatacaaaaacagctatatttgccgcatcagtcaacggatactcaaaaagaactattttctgtcaaaattaagaagagggcaagtactc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagagtcctatgccgaattctgcataggacctgatgaaaatcaagacggaggcgttcatgccccccttcctctttaccgacaaaacaaacaaaatataatttatgtaaaaacaacggacatccatacaaaaacagctatatttgccgcatcagtcaacggatactcaaaaagaactattttctgtcaaaattaagaagagggcaagtactc Predict ORF larger than 30AA ================================================ Protein_Len: 56 Strand: + Start: 24 End: 191 ....................... M G P D E N Q D G G V H A P L P L Y R Q N K Q N I I Y V K T T D I H T K T A I F A A S V N G Y S K R T I F C Q N .................... Protein_Len: 41 Strand: - Start: 3 End: 125 .. L G I G F E A Y S R I F I L V S A N M G G K R K V S L V F L I Y N I Y F C R V D M ...................................................................................... Protein_Len: 45 Strand: - Start: 1 End: 135 L T R H R I R C L V Q H F D L R L R E H G G E E K G V F C V F Y L K H L F L P C G Y L F M ............................................................................ tagagtcctatgccgaattctgcataggacctgatgaaaatcaagacggaggcgttcatgccccccttcctctttaccgacaaaacaaacaaaatataatttatgtaaaaacaacggacatccatacaaaaacagctatatttgccgcatcagtcaacggatactcaaaaagaactattttctgtcaaaattaagaagagggcaagtactc 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================================================ tagagtcctatgccgaattctgcataggacctgatgaaaatcaagacggaggcgttcatgccccccttcctctttaccgacaaaacaaacaaaatataatttatgtaaaaacaacggacatccatacaaaaacagctatatttgccgcatcagtcaacggatactcaaaaagaactattttctgtcaaaattaagaagagggcaagtactc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1350:TF1351|TF1350:TF1351:possible transcriptional regulator:conserved hypothetical protein:->->:1430697..1430907 211 tagagtcctatgccgaattctgcataggacctgatgaaaatcaagacggaggcgttcatgccccccttcctctttaccgacaaaacaaacaaaatataatttatgtaaaaacaacggacatccatacaaaaacagctatatttgccgcatcagtcaacggatactcaaaaagaactattttctgtcaaaattaagaagagggcaagtactc Intra-Species Hit: Count: 1 Min: 1 Max: 211 Len: 211 Subject: tfor_TF1350_TF1351|possible transcriptional regulator:conserved hypothetical protein|POSITIVE:POSITIVE|[1430697,1430907]|211 HSP 1 e-value: 1.0E-116 bit: 418.0 Len: 211 Query Start:1 Query End:211 Subject Strand: POSITIVE Subject Start: 1 Subject End: 211 tagagtcctatgccgaattctgcataggacctgatgaaaatcaagacggaggcgttcatgccccccttcctctttaccgacaaaacaaacaaaatataatttatgtaaaaacaacggacatccatacaaaaacagctatatttgccgcatcagtcaacggatactcaaaaagaactattttctgtcaaaattaagaagagggcaagtactc tagagtcctatgccgaattctgcataggacctgatgaaaatcaagacggaggcgttcatgccccccttcctctttaccgacaaaacaaacaaaatataatttatgtaaaaacaacggacatccatacaaaaacagctatatttgccgcatcagtcaacggatactcaaaaagaactattttctgtcaaaattaagaagagggcaagtactc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGAGUCCUAUGCCGAAUUCUGCAUAGGACCUGAUGAAAAUCAAGACGGAGGCGUUCAUGCCCCCCUUCCUCUUUACCGACAAAACAAACAAAAUAUAAUUUAUGUAAAAACAACGGACAUCCAUACAAAAACAGCUAUAUUUGCCGCAUCAGUCAACGGAUACUCAAAAAGAACUAUUUUCUGUCAAAAUUAAGAAGAGGGCAAGUACUC ....(((((((((.(....).))))))))).((((....))))....((.((((....)))).))..((((((((...(((..........(((((((.....(((....)))..((....)).............))))))).........))).(((((...................))))).........))))))))......... (-43.72) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAGUACUUGCCCUCUUCUUAAUUUUGACAGAAAAUAGUUCUUUUUGAGUAUCCGUUGACUGAUGCGGCAAAUAUAGCUGUUUUUGUAUGGAUGUCCGUUGUUUUUACAUAAAUUAUAUUUUGUUUGUUUUGUCGGUAAAGAGGAAGGGGGGCAUGAACGCCUCCGUCUUGAUUUUCAUCAGGUCCUAUGCAGAAUUCGGCAUAGGACUCUA ..((.(.((((((((((((....(((((((((.............(..(((((((..((.((.(((((.......))))).)).)))))))))..)..(((....)))..................))))))))).....))))).))))))).).)).....................(((((((((((.(....).))))))))).)). (-57.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 376 59 11 82 36 tfor:TF0076|5end_probable_carbohydrate_kinase,_PfkB_family_83279..83509_POSITIVE 359 79 38 61 6 tfor:TF0190|5end_cell_division_protein_FtsH_204029..204259_POSITIVE 341 70 22 106 55 tfor:TF1067|5end_conserved_hypothetical_protein_1136867..1137097_POSITIVE 341 48 2 54 2 tfor:TF0536|5end_conserved_hypothetical_protein_561917..562147_POSITIVE 336 54 12 226 176 tfor:TF0786|5end_pyridoxal_phosphate_biosynthetic_protein_838563..838793_POSITIVE 336 70 22 198 148 tfor:TF0554|5end_Bacteroides_aerotolerance_protein,_BatC_586303..586533_POSITIVE 332 60 11 197 144 tfor:TF2874|5end_conserved_hypothetical_protein_3064920..3065150_POSITIVE 328 82 42 146 101 tfor:TF2712|5end_glycosyltransferase_2885918..2886148_POSITIVE 327 60 14 188 136 tfor:TF2835|5end_stationary-phase_survival_protein_SurE_3025113..3025343_POSITIVE 322 67 29 143 89 tfor:TF2583|5end_possible_ABC_transporter,__permease_component_2750206..2750436_POSITIVE 321 80 34 49 6 tfor:TF2724|5end_anti-sigma_factor_2898193..2898423_POSITIVE 320 65 21 199 154 tfor:TF2647|5end_transcriptional_regulator,_possible_arylsulfatase_regulator_2816796..2817026_POSITIVE 316 54 12 86 35 tfor:TF2108|5end_hypothetical_protein_2277385..2277615_POSITIVE 313 60 12 205 142 tfor:TF2986|5end_conserved_hypothetical_protein;_possible_glycosyltransferase_3201818..3202048_POSITIVE 311 167 121 213 179 tfor:TF3022|5end_chorismate_synthase_3246136..3246366_POSITIVE 311 87 45 221 168 tfor:TF2832|5end_possible_proton/sodium:glutamate_symporter_protein_3022660..3022890_POSITIVE 310 54 12 56 5 tfor:TF2165|5end_hypothetical_protein_2341654..2341884_POSITIVE 309 65 27 189 153 tfor:TF2368|5end_uridine_phosphorylase_2533666..2533896_POSITIVE 307 80 32 174 124 tfor:TF1543|5end_conserved_hypothetical_protein_1649429..1649659_POSITIVE 304 54 11 74 16 tfor:TF3132|5end_conserved_hypothetical_protein_3365175..3365405_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 335 87 42 52 1 tfor:TF0189|3end_phosphatidate_cytidylytransferase_(CDP-diglyceride_synthetase)_204090..204240_POSITIVE 333 79 43 101 52 tfor:TF2556|3end_conserved_hypothetical_protein_2737095..2737245_POSITIVE 329 32 5 89 61 tfor:TF1350|3end_possible_transcriptional_regulator_1430636..1430786_POSITIVE 329 76 47 31 1 tfor:TF1169|3end_lipoprotein_ABC_transporter,_permease_component_1251573..1251723_POSITIVE 322 67 29 140 86 tfor:TF2582|3end_ABC_transporter,_ATP-binding_protein_2750283..2750433_POSITIVE 316 54 12 57 6 tfor:TF2107|3end_hypothetical_protein_2277436..2277586_POSITIVE 304 54 11 67 9 tfor:TF3131|3end_uracil-DNA_glycosylase_3365248..3365398_POSITIVE 301 70 30 85 47 tfor:TF2119|3end_conserved_hypothetical_protein_2292188..2292338_POSITIVE 301 57 14 139 99 tfor:TF1890|3end_hypothetical_protein_2043093..2043243_POSITIVE 296 79 31 104 56 tfor:TF2845|3end_hypothetical_protein_3034757..3034907_POSITIVE 294 86 45 151 99 tfor:TF2831|3end_ABC_transporter,_permease_component_3022671..3022821_POSITIVE 293 167 123 56 15 tfor:TF0731|3end_conserved_hypothetical_protein_784796..784946_POSITIVE 293 68 26 84 46 tfor:TF0242|3end_conserved_hypothetical_protein_274069..274219_POSITIVE 290 79 35 121 72 tfor:TF2953|3end_possible_TonB-dependent_outer_membrane_receptor_3161501..3161651_POSITIVE 290 80 54 129 103 tfor:TF1702|3end_conserved_hypothetical_protein_1822075..1822225_POSITIVE 287 54 13 51 15 tfor:TF2039|3end_possible_cell-cycle_regulation_histidine_triad_(HIT)_protein_2199835..2199985_POSITIVE 286 81 41 111 78 tfor:TF0350|3end_hypothetical_protein_371101..371251_POSITIVE 285 80 42 151 108 tfor:TF2711|3end_hemolysis_secretion_protein_2886005..2886155_POSITIVE 284 90 48 83 29 tfor:TF2657|3end_conserved_hypothetical_protein_2830873..2831023_POSITIVE 281 67 22 67 18 tfor:TF2240|3end__tetracycline_resistance_element_mobilization_regulatory_protein_2415417..2415567_POSITIVE