Origin IGS: accgtccagttcatcttatttttttataatggacacaaaagtaaggcaaaaaaagaagcccatcaaatatatcgaaagcattttggaccccatagaacagaatccgggtaaacgccggaaaaaagcgctacccggattcttcataaaagcaattcaatca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgattgaattgcttttatgaagaatccgggtagcgcttttttccggcgtttacccggattctgttctatggggtccaaaatgctttcgatatatttgatgggcttctttttttgccttacttttgtgtccattataaaaaaataagatgaactggacggt Mask Tandem Repeat Region ================================================ accgtccagttcatcttatttttttataatggacacaaaagtaaggcaaaaaaagaagcccatcaaatatatcgaaagcattttggaccccatagaacagaatccgggtaaacgccggaaaaaagcgctacccggattcttcataaaagcaattcaatca Find is-nt database================================================ Query_seq: TF2731:TF2732|TF2731:TF2732:Fe2+/Zn2+ uptake regulation protein:thioredoxin M:->->:2911747..2911906 160 accgtccagttcatcttatttttttataatggacacaaaagtaaggcaaaaaaagaagcccatcaaatatatcgaaagcattttggaccccatagaacagaatccgggtaaacgccggaaaaaagcgctacccggattcttcataaaagcaattcaatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2731:TF2732|TF2731:TF2732:Fe2+/Zn2+ uptake regulation protein:thioredoxin M:->->:2911747..2911906 160 accgtccagttcatcttatttttttataatggacacaaaagtaaggcaaaaaaagaagcccatcaaatatatcgaaagcattttggaccccatagaacagaatccgggtaaacgccggaaaaaagcgctacccggattcttcataaaagcaattcaatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2731:TF2732|TF2731:TF2732:Fe2+/Zn2+ uptake regulation protein:thioredoxin M:->->:2911747..2911906 160 accgtccagttcatcttatttttttataatggacacaaaagtaaggcaaaaaaagaagcccatcaaatatatcgaaagcattttggaccccatagaacagaatccgggtaaacgccggaaaaaagcgctacccggattcttcataaaagcaattcaatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 accgtccagttcatcttatttttttataatggacacaaaagtaaggcaaaaaaagaagcccatcaaatatatcgaaagcattttggaccccatagaacagaatccgggtaaacgccggaaaaaagcgctacccggattcttcataaaagcaattcaatca Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 13 End: 108 ............ M L F F Y N G H K S K A K K E A H Q I Y R K H F G P H R T E S G .................................................... Protein_Len: 45 Strand: + Start: 26 End: 160 ......................... M M D T K V R Q K K K P I K Y I E S I L D P I E Q N P G K R R K K A L P G F F I K A I Q S Protein_Len: 45 Strand: - Start: 19 End: 153 .................. K K I I S V F T L C F F F G M L Y I S L M K S G M S C F G P L R R F F A S G P N K M F A M ....... Protein_Len: 30 Strand: - Start: 14 End: 103 ............. R I K K Y H V C F Y P L F L L G D F I D F A N Q V G Y F L M ......................................................... accgtccagttcatcttatttttttataatggacacaaaagtaaggcaaaaaaagaagcccatcaaatatatcgaaagcattttggaccccatagaacagaatccgggtaaacgccggaaaaaagcgctacccggattcttcataaaagcaattcaatca 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================================================ accgtccagttcatcttatttttttataatggacacaaaagtaaggcaaaaaaagaagcccatcaaatatatcgaaagcattttggaccccatagaacagaatccgggtaaacgccggaaaaaagcgctacccggattcttcataaaagcaattcaatca Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 74 HP_score: -9.0 Tail_Score: -3.50393 Start: 98 End: 141 Full_Region: tgaattgcttttatg aagaatccgggtagcgct tttttcc ggcgtttacccggattctg ttctatggggtccaa .................................................................................................aagaatccgggtagcgcttttttccggcgtttacccggattctg................... TransTerm Strand: - Conf: 85 HP_score: -11.6 Tail_Score: -3.32698 Start: 100 End: 139 Full_Region: aattgcttttatgaa gaatccgggtagcgct tttttcc ggcgtttacccggattc tgttctatggggtcc ...................................................................................................gaatccgggtagcgcttttttccggcgtttacccggattc..................... Find igs database================================================ Query_seq: TF2731:TF2732|TF2731:TF2732:Fe2+/Zn2+ uptake regulation protein:thioredoxin M:->->:2911747..2911906 160 accgtccagttcatcttatttttttataatggacacaaaagtaaggcaaaaaaagaagcccatcaaatatatcgaaagcattttggaccccatagaacagaatccgggtaaacgccggaaaaaagcgctacccggattcttcataaaagcaattcaatca Intra-Species Hit: Count: 1 Min: 1 Max: 160 Len: 160 Subject: tfor_TF2731_TF2732|Fe2+/Zn2+ uptake regulation protein:thioredoxin M|POSITIVE:POSITIVE|[2911747,2911906]|160 HSP 1 e-value: 7.0E-61 bit: 234.0 Len: 160 Query Start:1 Query End:160 Subject Strand: POSITIVE Subject Start: 1 Subject End: 160 accgtccagttcatcttannnnnnnataatggacacaaaagtaaggcnnnnnnngaagcccatcaaatatatcgaaagcattttggaccccatagaacagaatccgggtaaacgccggaaaaaagcgctacccggattcttcataaaagcaattcaatca accgtccagttcatcttatttttttataatggacacaaaagtaaggcaaaaaaagaagcccatcaaatatatcgaaagcattttggaccccatagaacagaatccgggtaaacgccggaaaaaagcgctacccggattcttcataaaagcaattcaatca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACCGUCCAGUUCAUCUUAUUUUUUUAUAAUGGACACAAAAGUAAGGCAAAAAAAGAAGCCCAUCAAAUAUAUCGAAAGCAUUUUGGACCCCAUAGAACAGAAUCCGGGUAAACGCCGGAAAAAAGCGCUACCCGGAUUCUUCAUAAAAGCAAUUCAAUCA ...(((((((((((..((......))..))))))..........(((..........))).......................)))))......((..((((((((((((..(((.........))).)))))))))))))).................. (-37.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUUGAAUUGCUUUUAUGAAGAAUCCGGGUAGCGCUUUUUUCCGGCGUUUACCCGGAUUCUGUUCUAUGGGGUCCAAAAUGCUUUCGAUAUAUUUGAUGGGCUUCUUUUUUUGCCUUACUUUUGUGUCCAUUAUAAAAAAAUAAGAUGAACUGGACGGU ...........((.......(((((((((((((((((.......)))).))))))))))))).......)).(((((..........((((((......((((..........))))......))))))((((.((......)).))))...)))))... (-43.94) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 422 135 100 191 153 tfor:TF2368|5end_uridine_phosphorylase_2533666..2533896_POSITIVE 330 118 73 169 120 tfor:TF1336|5end_hypothetical_protein_1418626..1418856_POSITIVE 330 119 72 209 163 tfor:TF1207|5end_outer_membrane_receptor,_TonB-dependent_1290062..1290292_POSITIVE 328 150 102 59 14 tfor:TF1513|5end_hypothetical_protein_1624894..1625124_POSITIVE 326 159 113 75 30 tfor:TF0690|5end_preprotein_translocase_subunit_735243..735473_POSITIVE 325 144 104 203 165 tfor:TF2294|5end_hypothetical_protein_2448012..2448242_POSITIVE 318 150 103 187 139 tfor:TF0519|5end_thiamine_monophosphate_kinase_543700..543930_POSITIVE 315 127 81 80 26 tfor:TF0110|5end_unsaturated_glucuronyl_hydrolase_116832..117062_POSITIVE 314 146 102 215 163 tfor:TF0175|5end_hypothetical_protein_185585..185815_POSITIVE 311 140 92 160 117 tfor:TF0811|5end_conserved_hypothetical_protein;_posible_sugar_phosphate_isomerase_869787..870017_POSITIVE 303 142 103 203 160 tfor:TF2565|5end_50S_ribosomal_protein_L24_2739986..2740216_POSITIVE 302 85 45 211 172 tfor:TF2416|5end_conserved_hypothetical_protein_2592138..2592368_POSITIVE 302 150 104 199 153 tfor:TF0001|5end_hypothetical_protein_-116..114_POSITIVE 301 135 104 51 16 tfor:TF0248|5end_hypothetical_protein_278249..278479_POSITIVE 299 130 81 200 130 tfor:TF0763|5end_chromate_transport_protein_809675..809905_POSITIVE 298 127 85 73 27 tfor:TF0107|5end_ion_channel_protein_113913..114143_POSITIVE 297 137 97 126 75 tfor:TF1623|5end_5-formyltetrahydrofolate_cyclo-ligase_1736698..1736928_POSITIVE 295 143 104 59 17 tfor:TF3145|5end_conserved_hypothetical_protein;_possible_GTP_cyclohydrolase_I_family_3381254..3381484_POSITIVE 295 134 105 220 194 tfor:TF2820|5end_argininosuccinate_synthetase_3009876..3010106_POSITIVE 295 142 105 104 63 tfor:TF1067|5end_conserved_hypothetical_protein_1136867..1137097_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 368 133 100 151 117 tfor:TF2367|3end_delta-1-pyrroline-5-carboxylate_dehydrogenase_2533710..2533860_POSITIVE 330 118 73 140 91 tfor:TF1335|3end_conserved_hypothetical_protein;_possible_alpha-1,2-mannosidase_family_protein_1418677..1418827_POSITIVE 315 144 102 55 1 tfor:TF2246|3end_hypothetical_protein_2421550..2421700_POSITIVE 314 146 102 150 98 tfor:TF0174|3end_hypothetical_protein_185600..185750_POSITIVE 301 135 104 70 35 tfor:TF0247|3end_conserved_hypothetical_protein_278348..278498_POSITIVE 297 137 97 111 60 tfor:TF1622|3end_conserved_hypothetical_protein_1736763..1736913_POSITIVE 293 144 104 69 18 tfor:TF0281|3end_hypothetical_protein_309159..309309_POSITIVE 291 132 96 147 110 tfor:TF0688|3end_membrane-associated_protein,_possible_sulfatase_family_734360..734510_POSITIVE 291 149 102 133 85 tfor:TF0279|3end_conserved_hypothetical_protein_308679..308829_POSITIVE 288 150 105 82 39 tfor:TF1683|3end_conserved_hypothetical_protein_1796511..1796661_POSITIVE 287 142 102 36 3 tfor:TF2525|3end_conserved_hypothetical_protein_2705612..2705762_POSITIVE 287 136 93 129 89 tfor:TF2336|3end_conserved_hypothetical_protein_2498159..2498309_POSITIVE 287 150 103 58 12 tfor:TF2012|3end_conserved_hypothetical_protein_2168720..2168870_POSITIVE 282 141 105 115 79 tfor:TF1246|3end_protease,_with_chaperone_function_1330429..1330579_POSITIVE 280 150 103 81 31 tfor:TF0696|3end_3-oxoacyl-(acyl-carrier-protein)_reductase_740741..740891_POSITIVE 280 138 95 135 93 tfor:TF0200|3end_2-nitropropane_dioxygenase_226082..226232_POSITIVE 278 127 82 68 22 tfor:TF1032|3end_possible_internalin-related_protein_1092842..1092992_POSITIVE 276 136 103 49 23 tfor:TF2033|3end_conserved_hypothetical_protein_2193321..2193471_POSITIVE 276 129 87 115 72 tfor:TF1730|3end_diaminopimelate_decarboxylase_1855907..1856057_POSITIVE 276 150 105 66 27 tfor:TF1403|3end_hypothetical_protein_1478025..1478175_POSITIVE