Origin IGS: taagcgacgagaagtatttctcgtgtgtttttttaatgtgattgaggaggaggactgtcgggaggaccatcctccttttttagttccggataggaggagctgaatcggaagcgagtgtca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgacactcgcttccgattcagctcctcctatccggaactaaaaaaggaggatggtcctcccgacagtcctcctcctcaatcacattaaaaaaacacacgagaaatacttctcgtcgctta Mask Tandem Repeat Region ================================================ taagcgacgagaagtatttctcgtgtgtttttttaatgtgattgaggaggaggactgtcgggaggaccatcctccttttttagttccggataggaggagctgaatcggaagcgagtgtca Find is-nt database================================================ Query_seq: TF1739:TF1740|TF1739:TF1740:possible sulfatase:hypothetical protein:->->:1868665..1868784 120 taagcgacgagaagtatttctcgtgtgtttttttaatgtgattgaggaggaggactgtcgggaggaccatcctccttttttagttccggataggaggagctgaatcggaagcgagtgtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1739:TF1740|TF1739:TF1740:possible sulfatase:hypothetical protein:->->:1868665..1868784 120 taagcgacgagaagtatttctcgtgtgtttttttaatgtgattgaggaggaggactgtcgggaggaccatcctccttttttagttccggataggaggagctgaatcggaagcgagtgtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1739:TF1740|TF1739:TF1740:possible sulfatase:hypothetical protein:->->:1868665..1868784 120 taagcgacgagaagtatttctcgtgtgtttttttaatgtgattgaggaggaggactgtcgggaggaccatcctccttttttagttccggataggaggagctgaatcggaagcgagtgtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taagcgacgagaagtatttctcgtgtgtttttttaatgtgattgaggaggaggactgtcgggaggaccatcctccttttttagttccggataggaggagctgaatcggaagcgagtgtca Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: - Start: 1 End: 105 L R R S T N R T H K K L T I S S S S Q R S S W G G K K T G S L L L Q M ............... taagcgacgagaagtatttctcgtgtgtttttttaatgtgattgaggaggaggactgtcgggaggaccatcctccttttttagttccggataggaggagctgaatcggaagcgagtgtca 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================================================ taagcgacgagaagtatttctcgtgtgtttttttaatgtgattgaggaggaggactgtcgggaggaccatcctccttttttagttccggataggaggagctgaatcggaagcgagtgtca Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -10.0 Tail_Score: -5.26875 Start: 61 End: 75 Full_Region: GGAGGAGGACTGTCG GGAGGA CCA TCCTCC TTTTTTAGTTCCGGA ............................................................GGAGGACCATCCTCC............................................. Find igs database================================================ Query_seq: TF1739:TF1740|TF1739:TF1740:possible sulfatase:hypothetical protein:->->:1868665..1868784 120 taagcgacgagaagtatttctcgtgtgtttttttaatgtgattgaggaggaggactgtcgggaggaccatcctccttttttagttccggataggaggagctgaatcggaagcgagtgtca Intra-Species Hit: Count: 1 Min: 1 Max: 120 Len: 120 Subject: tfor_TF1739_TF1740|possible sulfatase:hypothetical protein|POSITIVE:POSITIVE|[1868665,1868784]|120 HSP 1 e-value: 1.0E-49 bit: 196.0 Len: 120 Query Start:1 Query End:120 Subject Strand: POSITIVE Subject Start: 1 Subject End: 120 taagcgacgagaagtatttctcgtgtgnnnnnnnaatgtgattgaggaggaggactgtcgggaggaccatcctccttttttagttccggataggaggagctgaatcggaagcgagtgtca taagcgacgagaagtatttctcgtgtgtttttttaatgtgattgaggaggaggactgtcgggaggaccatcctccttttttagttccggataggaggagctgaatcggaagcgagtgtca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGCGACGAGAAGUAUUUCUCGUGUGUUUUUUUAAUGUGAUUGAGGAGGAGGACUGUCGGGAGGACCAUCCUCCUUUUUUAGUUCCGGAUAGGAGGAGCUGAAUCGGAAGCGAGUGUCA .((((((((((((....))))))).)))))........((((..((((((((((..(((.....)))..))))))))))((((((((........)))))))).(((....)))..)))) (-38.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGACACUCGCUUCCGAUUCAGCUCCUCCUAUCCGGAACUAAAAAAGGAGGAUGGUCCUCCCGACAGUCCUCCUCCUCAAUCACAUUAAAAAAACACACGAGAAAUACUUCUCGUCGCUUA ........((....((((.((....(((.....)))........((((((((.(((.....))).)))))))).)).))))...............(((((((....))))))).))... (-29.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 404 88 44 145 95 tfor:TF1251|5end_riboflavin_synthase,_alpha_subunit_1333744..1333974_POSITIVE 375 117 71 180 127 tfor:TF2712|5end_glycosyltransferase_2885918..2886148_POSITIVE 374 88 44 229 184 tfor:TF1741|5end_conserved_hypothetical_protein_1869304..1869534_POSITIVE 370 90 45 217 164 tfor:TF2165|5end_hypothetical_protein_2341654..2341884_POSITIVE 362 76 37 231 193 tfor:TF1407|5end_hypothetical_protein_1482185..1482415_POSITIVE 354 80 37 144 107 tfor:TF0986|5end_50S_ribosomal_protein_L31_1041426..1041656_POSITIVE 349 119 76 167 121 tfor:TF0089|5end_conserved_hypothetical_protein_95437..95667_POSITIVE 348 108 64 156 110 tfor:TF2172|5end_hypothetical_protein_2345822..2346052_POSITIVE 348 108 64 150 104 tfor:TF2173|5end_hypothetical_protein_2345816..2346046_POSITIVE 348 108 64 150 104 tfor:TF2171|5end_hypothetical_protein_2345485..2345715_POSITIVE 348 108 64 150 104 tfor:TF2166|5end_hypothetical_protein_2342115..2342345_POSITIVE 348 108 64 150 104 tfor:TF0366|5end_hypothetical_protein_383564..383794_POSITIVE 348 108 64 150 104 tfor:TF0362|5end_hypothetical_protein_379952..380182_POSITIVE 347 90 46 50 9 tfor:TF0423|5end_G:T/U_mismatch-specific_DNA_glycosylase_438620..438850_POSITIVE 342 108 68 150 107 tfor:TF0340|5end_hypothetical_protein_363893..364123_POSITIVE 341 100 51 158 98 tfor:TF2079|5end_permease_2245585..2245815_POSITIVE 338 114 71 199 135 tfor:TF2044|5end_excinuclease_ABC,_subunit_A_2203228..2203458_POSITIVE 338 119 72 90 47 tfor:TF1683|5end_conserved_hypothetical_protein_1795787..1796017_POSITIVE 337 119 74 89 37 tfor:TF2200|5end_outer_membrane_protein,_TonB_dependent_receptor_2376495..2376725_POSITIVE 336 61 21 84 45 tfor:TF0039|5end_conserved_hypothetical_protein_41407..41637_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 404 88 44 122 72 tfor:TF1250|3end_possible_cation_efflux_pump_1333801..1333951_POSITIVE 354 80 37 62 25 tfor:TF0984|3end_possible_mucin-desulfating_sulfatase_(MdsC_protein)_1041424..1041574_POSITIVE 351 89 43 124 72 tfor:TF3045|3end_two-component_system_response_regulator_3274633..3274783_POSITIVE 349 119 76 144 98 tfor:TF0088|3end_ABC_transporter,_permease_component_95494..95644_POSITIVE 347 90 46 45 4 tfor:TF0422|3end_proline_dehydrogenase_438695..438845_POSITIVE 342 108 68 46 3 tfor:TF2171|3end_hypothetical_protein_2345792..2345942_POSITIVE 340 90 41 109 62 tfor:TF0779|3end_possible_outer_membrane_protein_831874..832024_POSITIVE 338 119 72 67 24 tfor:TF1681|3end_dTDP-4-keto-L-rhamnose_reductase_1795844..1795994_POSITIVE 336 107 63 76 26 tfor:TF0350|3end_hypothetical_protein_371101..371251_POSITIVE 334 100 52 144 77 tfor:TF0885|3end_conjugative_transposon_protein_fragment_938055..938205_POSITIVE 333 115 71 111 61 tfor:TF2640|3end_hypothetical_protein_2809533..2809683_POSITIVE 329 115 72 132 94 tfor:TF0759|3end_heat_shock_protein_15,_RNA-binding_domain_S4_806366..806516_POSITIVE 326 88 41 132 83 tfor:TF2503|3end_conserved_hypothetical_protein_2680111..2680261_POSITIVE 326 88 41 76 27 tfor:TF2099|3end_D-tyrosyl-tRNA(Tyr)_deacylase_2273419..2273569_POSITIVE 325 88 47 123 93 tfor:TF1292|3end_sensor_histidine_protein_kinase_1374554..1374704_POSITIVE 315 108 62 126 95 tfor:TF2468|3end_hypothetical_protein_2646582..2646732_POSITIVE 313 81 46 114 78 tfor:TF2045|3end_aminoacyl-histidine_dipeptidase_2207816..2207966_POSITIVE 311 117 87 113 85 tfor:TF0468|3end_hypothetical_protein_487188..487338_POSITIVE 310 109 61 136 78 tfor:TF1581|3end_hypothetical_protein_1689467..1689617_POSITIVE 306 90 49 77 27 tfor:TF1897|3end_conserved_hypothetical_protein;_possible_aminopeptidase_2052107..2052257_POSITIVE