Origin IGS: tagtccggagatgccccctcaaaaaggatgggttttcgaaaaaaacgtcaagaaagagaacatgatgattcatggtcaaccgttataccgggtactcatagagggaataagataagatagcaaaaggagcagggaagatttggaaaacttcccgcttcttgcttctgattcgtggcgataaacctaaccctctcatttcccgtgccgatccccttatcttttaccacacgcacagaaatacctctaactccttagaaccatcggtattccgtattttccaaaggggcttcttttttagcttcttggggctttgtcgaccccaatgctca .........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 tgagcattggggtcgacaaagccccaagaagctaaaaaagaagcccctttggaaaatacggaataccgatggttctaaggagttagaggtatttctgtgcgtgtggtaaaagataaggggatcggcacgggaaatgagagggttaggtttatcgccacgaatcagaagcaagaagcgggaagttttccaaatcttccctgctccttttgctatcttatcttattccctctatgagtacccggtataacggttgaccatgaatcatcatgttctctttcttgacgtttttttcgaaaacccatcctttttgagggggcatctccggacta Mask Tandem Repeat Region ================================================ tagtccggagatgccccctcaaaaaggatgggttttcgaaaaaaacgtcaagaaagagaacatgatgattcatggtcaaccgttataccgggtactcatagagggaataagataagatagcaaaaggagcagggaagatttggaaaacttcccgcttcttgcttctgattcgtggcgataaacctaaccctctcatttcccgtgccgatccccttatcttttaccacacgcacagaaatacctctaactccttagaaccatcggtattccgtattttccaaaggggcttcttttttagcttcttggggctttgtcgaccccaatgctca Find is-nt database================================================ Query_seq: TF2730:TF2731|TF2730:TF2731:thiol:disulfide interchange protein:Fe2+/Zn2+ uptake regulation protein:->->:2911007..2911335 329 tagtccggagatgccccctcaaaaaggatgggttttcgaaaaaaacgtcaagaaagagaacatgatgattcatggtcaaccgttataccgggtactcatagagggaataagataagatagcaaaaggagcagggaagatttggaaaacttcccgcttcttgcttctgattcgtggcgataaacctaaccctctcatttcccgtgccgatccccttatcttttaccacacgcacagaaatacctctaactccttagaaccatcggtattccgtattttccaaaggggcttcttttttagcttcttggggctttgtcgaccccaatgctca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2730:TF2731|TF2730:TF2731:thiol:disulfide interchange protein:Fe2+/Zn2+ uptake regulation protein:->->:2911007..2911335 329 tagtccggagatgccccctcaaaaaggatgggttttcgaaaaaaacgtcaagaaagagaacatgatgattcatggtcaaccgttataccgggtactcatagagggaataagataagatagcaaaaggagcagggaagatttggaaaacttcccgcttcttgcttctgattcgtggcgataaacctaaccctctcatttcccgtgccgatccccttatcttttaccacacgcacagaaatacctctaactccttagaaccatcggtattccgtattttccaaaggggcttcttttttagcttcttggggctttgtcgaccccaatgctca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2730:TF2731|TF2730:TF2731:thiol:disulfide interchange protein:Fe2+/Zn2+ uptake regulation protein:->->:2911007..2911335 329 tagtccggagatgccccctcaaaaaggatgggttttcgaaaaaaacgtcaagaaagagaacatgatgattcatggtcaaccgttataccgggtactcatagagggaataagataagatagcaaaaggagcagggaagatttggaaaacttcccgcttcttgcttctgattcgtggcgataaacctaaccctctcatttcccgtgccgatccccttatcttttaccacacgcacagaaatacctctaactccttagaaccatcggtattccgtattttccaaaggggcttcttttttagcttcttggggctttgtcgaccccaatgctca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagtccggagatgccccctcaaaaaggatgggttttcgaaaaaaacgtcaagaaagagaacatgatgattcatggtcaaccgttataccgggtactcatagagggaataagataagatagcaaaaggagcagggaagatttggaaaacttcccgcttcttgcttctgattcgtggcgataaacctaaccctctcatttcccgtgccgatccccttatcttttaccacacgcacagaaatacctctaactccttagaaccatcggtattccgtattttccaaaggggcttcttttttagcttcttggggctttgtcgaccccaatgctca Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 11 End: 112 .......... M P P Q K G W V F E K N V K K E N M M I H G Q P L Y R V L I E G I R ......................................................................................................................................................................................................................... Protein_Len: 30 Strand: + Start: 28 End: 117 ........................... M G F R K K R Q E R E H D D S W S T V I P G T H R G N K I R .................................................................................................................................................................................................................... Protein_Len: 60 Strand: + Start: 117 End: 329 .................................................................................................................... M A K G A G K I W K T S R F L L L I R G D K P N P L I S R A D P L I F Y H T H R N T S N S L E P S V F R I F Q R G F F F Protein_Len: 47 Strand: - Start: 99 End: 239 .................................................................................................. L P F L I L Y C F S C P L N P F S G A E Q K Q N T A I F R V R E N G T G I G K D K V V R V S M .......................................................................................... Protein_Len: 44 Strand: - Start: 86 End: 217 ..................................................................................... V P Y E Y L S Y S L I A F P A P F I Q F V E R K K S R I R P S L G L G R M E R A S G R M ................................................................................................................ tagtccggagatgccccctcaaaaaggatgggttttcgaaaaaaacgtcaagaaagagaacatgatgattcatggtcaaccgttataccgggtactcatagagggaataagataagatagcaaaaggagcagggaagatttggaaaacttcccgcttcttgcttctgattcgtggcgataaacctaaccctctcatttcccgtgccgatccccttatcttttaccacacgcacagaaatacctctaactccttagaaccatcggtattccgtattttccaaaggggcttcttttttagcttcttggggctttgtcgaccccaatgctca 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================================================ tagtccggagatgccccctcaaaaaggatgggttttcgaaaaaaacgtcaagaaagagaacatgatgattcatggtcaaccgttataccgggtactcatagagggaataagataagatagcaaaaggagcagggaagatttggaaaacttcccgcttcttgcttctgattcgtggcgataaacctaaccctctcatttcccgtgccgatccccttatcttttaccacacgcacagaaatacctctaactccttagaaccatcggtattccgtattttccaaaggggcttcttttttagcttcttggggctttgtcgaccccaatgctca Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 72 HP_score: -5.6 Tail_Score: -4.44819 Start: 126 End: 158 Full_Region: acgaatcagaagcaa gaagcgggaagttt tcca aatcttccctgctcc ttttgctatcttatc .............................................................................................................................gaagcgggaagttttccaaatcttccctgctcc........................................................................................................................................................................... Find igs database================================================ Query_seq: TF2730:TF2731|TF2730:TF2731:thiol:disulfide interchange protein:Fe2+/Zn2+ uptake regulation protein:->->:2911007..2911335 329 tagtccggagatgccccctcaaaaaggatgggttttcgaaaaaaacgtcaagaaagagaacatgatgattcatggtcaaccgttataccgggtactcatagagggaataagataagatagcaaaaggagcagggaagatttggaaaacttcccgcttcttgcttctgattcgtggcgataaacctaaccctctcatttcccgtgccgatccccttatcttttaccacacgcacagaaatacctctaactccttagaaccatcggtattccgtattttccaaaggggcttcttttttagcttcttggggctttgtcgaccccaatgctca Intra-Species Hit: Count: 1 Min: 1 Max: 329 Len: 329 Subject: tfor_TF2730_TF2731|thiol:disulfide interchange protein:Fe2+/Zn2+ uptake regulation protein|POSITIVE:POSITIVE|[2911007,2911335]|329 HSP 1 e-value: 1.0E-174 bit: 611.0 Len: 329 Query Start:1 Query End:329 Subject Strand: POSITIVE Subject Start: 1 Subject End: 329 tagtccggagatgccccctcaaaaaggatgggttttcgnnnnnnncgtcaagaaagagaacatgatgattcatggtcaaccgttataccgggtactcatagagggaataagataagatagcaaaaggagcagggaagatttggaaaacttcccgcttcttgcttctgattcgtggcgataaacctaaccctctcatttcccgtgccgatccccttatcttttaccacacgcacagaaatacctctaactccttagaaccatcggtattccgtattttccaaaggggcttcttttttagcttcttggggctttgtcgaccccaatgctca tagtccggagatgccccctcaaaaaggatgggttttcgaaaaaaacgtcaagaaagagaacatgatgattcatggtcaaccgttataccgggtactcatagagggaataagataagatagcaaaaggagcagggaagatttggaaaacttcccgcttcttgcttctgattcgtggcgataaacctaaccctctcatttcccgtgccgatccccttatcttttaccacacgcacagaaatacctctaactccttagaaccatcggtattccgtattttccaaaggggcttcttttttagcttcttggggctttgtcgaccccaatgctca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUCCGGAGAUGCCCCCUCAAAAAGGAUGGGUUUUCGAAAAAAACGUCAAGAAAGAGAACAUGAUGAUUCAUGGUCAACCGUUAUACCGGGUACUCAUAGAGGGAAUAAGAUAAGAUAGCAAAAGGAGCAGGGAAGAUUUGGAAAACUUCCCGCUUCUUGCUUCUGAUUCGUGGCGAUAAACCUAACCCUCUCAUUUCCCGUGCCGAUCCCCUUAUCUUUUACCACACGCACAGAAAUACCUCUAACUCCUUAGAACCAUCGGUAUUCCGUAUUUUCCAAAGGGGCUUCUUUUUUAGCUUCUUGGGGCUUUGUCGACCCCAAUGCUCA ......(((((.(((((.........((((..(((.....)))..))))..(((((.((.(((((....))))).))...((..(((((((((.((...((((((.....((..(((.((((..((((((.((((((..((....)))))))))))))))))))))...))..((.......))...)))))).(((((..((((........................)))).)))))..............)).)))..))))))..))..)))))....))))).)))))...(((...(((((((......).)))))).))).. (-89.46) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAGCAUUGGGGUCGACAAAGCCCCAAGAAGCUAAAAAAGAAGCCCCUUUGGAAAAUACGGAAUACCGAUGGUUCUAAGGAGUUAGAGGUAUUUCUGUGCGUGUGGUAAAAGAUAAGGGGAUCGGCACGGGAAAUGAGAGGGUUAGGUUUAUCGCCACGAAUCAGAAGCAAGAAGCGGGAAGUUUUCCAAAUCUUCCCUGCUCCUUUUGCUAUCUUAUCUUAUUCCCUCUAUGAGUACCCGGUAUAACGGUUGACCAUGAAUCAUCAUGUUCUCUUUCUUGACGUUUUUUUCGAAAACCCAUCCUUUUUGAGGGGGCAUCUCCGGACUA ..(((.(((((((.......)))))))...))).....(((.(((((((..((((.(((((((((((..(..(((....)))..)..)))).))))))).(((.(((..((((.((((((((((...((((.....((((((...(((.....)))..((...(((((((((((((((((((..........)))))).)))..))))))).)))..)).....)))))).......))))......)))))...(((((....)))))..)))))))))..((.......))...))))))..))))..))))))).)))........ (-103.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 424 225 183 99 48 tfor:TF2979|5end_possible_outer_membrane__protein_3190778..3191008_POSITIVE 414 307 261 228 176 tfor:TF2344|5end_ATP/GTP_binding_protein_2507422..2507652_POSITIVE 388 210 161 145 93 tfor:TF1062|5end_glycosyltransferase_1131727..1131957_POSITIVE 371 309 262 138 78 tfor:TF2231|5end_DNA_methylase,_site-specific_DNA-methyltransferase_(adenine-specific)_2400307..2400537_POSITIVE 355 304 261 167 119 tfor:TF2950|5end_chloromuconate_cycloisomerase_3157399..3157629_POSITIVE 351 32 3 205 171 tfor:TF3082|5end_conserved_hypothetical_protein_3316431..3316661_POSITIVE 351 32 3 84 50 tfor:TF2202|5end_hypothetical_protein_2378682..2378912_POSITIVE 350 309 261 227 177 tfor:TF3104|5end_outer_membrane_protein,_TonB_dependent_receptor_3334185..3334415_POSITIVE 344 49 2 64 15 tfor:TF2547|5end_hypothetical_protein_2730664..2730894_POSITIVE 343 316 277 47 4 tfor:TF1899|5end_anti-sigma_factor_2052767..2052997_POSITIVE 332 212 172 50 2 tfor:TF1942|5end_conserved_hypothetical_protein_2090129..2090359_POSITIVE 330 208 163 54 1 tfor:TF2898|5end_conserved_hypothetical_protein_3087061..3087291_POSITIVE 328 208 161 66 29 tfor:TF1797|5end_SNF_family_transporter_1937136..1937366_POSITIVE 325 49 6 231 183 tfor:TF2647|5end_transcriptional_regulator,_possible_arylsulfatase_regulator_2816796..2817026_POSITIVE 323 189 148 219 171 tfor:TF3072|5end_conserved_hypothetical_protein_3295302..3295532_POSITIVE 323 309 262 143 95 tfor:TF2320|5end_hypothetical_protein_2476654..2476884_POSITIVE 323 164 121 137 84 tfor:TF0139|5end_4-diphosphocytidyl-2c-methyl-D-erythritol_synthase_(MEP_cytidylyltransferase)_(MCT)_147527..147757_POSITIVE 321 230 189 224 176 tfor:TF2573|5end_50S_ribosomal_protein_L15_2743310..2743540_POSITIVE 320 200 154 124 72 tfor:TF1317|5end_hypothetical_protein_1391378..1391608_POSITIVE 319 210 161 77 7 tfor:TF0890|5end_transfer_region-related_protein,_TraQ_940014..940244_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 424 225 183 103 52 tfor:TF2978|3end_conserved_hypothetical_protein_3190862..3191012_POSITIVE 388 210 161 145 93 tfor:TF1061|3end_glycosyltransferase_1131807..1131957_POSITIVE 371 309 262 145 85 tfor:TF2230|3end_CTn_excision_protein_2400394..2400544_POSITIVE 328 208 161 66 29 tfor:TF1796|3end_ABC_transporter,_ATP-binding_protein_1937216..1937366_POSITIVE 325 49 6 52 4 tfor:TF2646|3end_conserved_hypothetical_protein_2816697..2816847_POSITIVE 318 317 273 140 97 tfor:TF0311|3end_conserved_hypothetical_protein_336383..336533_POSITIVE 314 169 125 71 16 tfor:TF0624|3end_Xaa-Pro_dipeptidase_(aminopeptidase_P)_661015..661165_POSITIVE 313 178 131 52 7 tfor:TF2740|3end_conserved_hypothetical_protein_2921972..2922122_POSITIVE 312 244 203 78 28 tfor:TF3009|3end_RNA_polymerase_ECF-type_sigma_factor_3229709..3229859_POSITIVE 312 220 172 102 40 tfor:TF2311|3end_conserved_hypothetical_protein_2471612..2471762_POSITIVE 312 240 200 52 11 tfor:TF0189|3end_phosphatidate_cytidylytransferase_(CDP-diglyceride_synthetase)_204090..204240_POSITIVE 310 41 1 86 46 tfor:TF0656|3end_acetyltransferase,_possible_GNAT_family_702973..703123_POSITIVE 308 291 258 37 3 tfor:TF2296|3end_hypothetical_protein_2449286..2449436_POSITIVE 306 204 161 69 28 tfor:TF1342|3end_possible_lipoprotein_1424620..1424770_POSITIVE 306 169 122 46 3 tfor:TF1160|3end_MutT/nudix_family_protein_1241008..1241158_POSITIVE 305 177 132 148 102 tfor:TF1157|3end_glutamate_synthase,_small_subunit_1239588..1239738_POSITIVE 303 300 260 149 106 tfor:TF3095|3end_ABC_transporter,_ATP-binding_protein_3328033..3328183_POSITIVE 303 318 278 147 106 tfor:TF2873|3end_conserved_hypothetical_protein_3064966..3065116_POSITIVE 302 200 155 95 34 tfor:TF2184|3end_conserved_hypothetical_protein_2357043..2357193_POSITIVE 302 32 3 147 113 tfor:TF1274|3end_hypothetical_protein_1357895..1358045_POSITIVE