Origin IGS: agggagagaccggacgagacatagaggttaaaatttatcatttacttagatgtttaagagcaaaattttcacttatcacaattttaggaaaacctgtttccaacattacttttgcttgtatggaatcatttaatttccattcggacaataaatgtcccgatttaactatcaaaggaaatcttttttcctctgctattgcaaggttctgagagcagttaaaaagaagaattaatccaattattaatcttacgttcatctaatccgttttaaatatatacgacatacttgtgtataacgcacaaagtccatgtttatggtgctgcataggtatggtgttttatatttgttcatagacgatgtttttta .........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 taaaaaacatcgtctatgaacaaatataaaacaccatacctatgcagcaccataaacatggactttgtgcgttatacacaagtatgtcgtatatatttaaaacggattagatgaacgtaagattaataattggattaattcttctttttaactgctctcagaaccttgcaatagcagaggaaaaaagatttcctttgatagttaaatcgggacatttattgtccgaatggaaattaaatgattccatacaagcaaaagtaatgttggaaacaggttttcctaaaattgtgataagtgaaaattttgctcttaaacatctaagtaaatgataaattttaacctctatgtctcgtccggtctctccct Mask Tandem Repeat Region ================================================ agggagagaccggacgagacatagaggttaaaatttatcatttacttagatgtttaagagcaaaattttcacttatcacaattttaggaaaacctgtttccaacattacttttgcttgtatggaatcatttaatttccattcggacaataaatgtcccgatttaactatcaaaggaaatcttttttcctctgctattgcaaggttctgagagcagttaaaaagaagaattaatccaattattaatcttacgttcatctaatccgttttaaatatatacgacatacttgtgtataacgcacaaagtccatgtttatggtgctgcataggtatggtgttttatatttgttcatagacgatgtttttta Find is-nt database================================================ Query_seq: TF2893:TF2894|TF2893:TF2894:conserved hypothetical protein; possible phosphoesterase:conserved hypothetical protein; possible Fic family protein:->->:3082100..3082465 366 agggagagaccggacgagacatagaggttaaaatttatcatttacttagatgtttaagagcaaaattttcacttatcacaattttaggaaaacctgtttccaacattacttttgcttgtatggaatcatttaatttccattcggacaataaatgtcccgatttaactatcaaaggaaatcttttttcctctgctattgcaaggttctgagagcagttaaaaagaagaattaatccaattattaatcttacgttcatctaatccgttttaaatatatacgacatacttgtgtataacgcacaaagtccatgtttatggtgctgcataggtatggtgttttatatttgttcatagacgatgtttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2893:TF2894|TF2893:TF2894:conserved hypothetical protein; possible phosphoesterase:conserved hypothetical protein; possible Fic family protein:->->:3082100..3082465 366 agggagagaccggacgagacatagaggttaaaatttatcatttacttagatgtttaagagcaaaattttcacttatcacaattttaggaaaacctgtttccaacattacttttgcttgtatggaatcatttaatttccattcggacaataaatgtcccgatttaactatcaaaggaaatcttttttcctctgctattgcaaggttctgagagcagttaaaaagaagaattaatccaattattaatcttacgttcatctaatccgttttaaatatatacgacatacttgtgtataacgcacaaagtccatgtttatggtgctgcataggtatggtgttttatatttgttcatagacgatgtttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2893:TF2894|TF2893:TF2894:conserved hypothetical protein; possible phosphoesterase:conserved hypothetical protein; possible Fic family protein:->->:3082100..3082465 366 agggagagaccggacgagacatagaggttaaaatttatcatttacttagatgtttaagagcaaaattttcacttatcacaattttaggaaaacctgtttccaacattacttttgcttgtatggaatcatttaatttccattcggacaataaatgtcccgatttaactatcaaaggaaatcttttttcctctgctattgcaaggttctgagagcagttaaaaagaagaattaatccaattattaatcttacgttcatctaatccgttttaaatatatacgacatacttgtgtataacgcacaaagtccatgtttatggtgctgcataggtatggtgttttatatttgttcatagacgatgtttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agggagagaccggacgagacatagaggttaaaatttatcatttacttagatgtttaagagcaaaattttcacttatcacaattttaggaaaacctgtttccaacattacttttgcttgtatggaatcatttaatttccattcggacaataaatgtcccgatttaactatcaaaggaaatcttttttcctctgctattgcaaggttctgagagcagttaaaaagaagaattaatccaattattaatcttacgttcatctaatccgttttaaatatatacgacatacttgtgtataacgcacaaagtccatgtttatggtgctgcataggtatggtgttttatatttgttcatagacgatgtttttta Predict ORF larger than 30AA ================================================ Protein_Len: 60 Strand: + Start: 21 End: 206 .................... M E V K I Y H L L R C L R A K F S L I T I L G K P V S N I T F A C M E S F N F H S D N K C P D L T I K G N L F S S A I A ................................................................................................................................................................ Protein_Len: 32 Strand: - Start: 256 End: 351 ............................................................................................................................................................................................................................................................... R I R K L Y I R C V Q T Y R V F D M N I T S C L Y P T K Y K N M ............... Protein_Len: 60 Strand: - Start: 41 End: 256 ........................................ V I K P F G T E L M V K A Q I S D N L K W E S L L H G S K V I L P F R K E E A I A L N Q S C N F L L I L G I I L R V N M .............................................................................................................. agggagagaccggacgagacatagaggttaaaatttatcatttacttagatgtttaagagcaaaattttcacttatcacaattttaggaaaacctgtttccaacattacttttgcttgtatggaatcatttaatttccattcggacaataaatgtcccgatttaactatcaaaggaaatcttttttcctctgctattgcaaggttctgagagcagttaaaaagaagaattaatccaattattaatcttacgttcatctaatccgttttaaatatatacgacatacttgtgtataacgcacaaagtccatgtttatggtgctgcataggtatggtgttttatatttgttcatagacgatgtttttta 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================================================ agggagagaccggacgagacatagaggttaaaatttatcatttacttagatgtttaagagcaaaattttcacttatcacaattttaggaaaacctgtttccaacattacttttgcttgtatggaatcatttaatttccattcggacaataaatgtcccgatttaactatcaaaggaaatcttttttcctctgctattgcaaggttctgagagcagttaaaaagaagaattaatccaattattaatcttacgttcatctaatccgttttaaatatatacgacatacttgtgtataacgcacaaagtccatgtttatggtgctgcataggtatggtgttttatatttgttcatagacgatgtttttta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 50 HP_score: -2.9 Tail_Score: -3.70902 Start: 141 End: 160 Full_Region: TCATTTAATTTCCAT TCGGACA ATAAA TGTCCCGA TTTAACTATCAAAGG ............................................................................................................................................TCGGACAATAAATGTCCCGA.............................................................................................................................................................................................................. TransTerm Strand: + Conf: 49 HP_score: -4.3 Tail_Score: -2.9155 Start: 174 End: 188 Full_Region: GATTTAACTATCAAA GGAAA TCTTT TTTCC TCTGCTATTGCAAGG .............................................................................................................................................................................GGAAATCTTTTTTCC.................................................................................................................................................................................. TransTerm Strand: - Conf: 58 HP_score: -4.3 Tail_Score: -3.84961 Start: 174 End: 188 Full_Region: ccttgcaatagcaga ggaaa aaaga tttcc tttgatagttaaatc .............................................................................................................................................................................ggaaaaaagatttcc.................................................................................................................................................................................. TransTerm Strand: + Conf: 56 HP_score: -3.5 Tail_Score: -4.04608 Start: 306 End: 333 Full_Region: TATAACGCACAAAGT CCATGTTTATG GTGCTG CATAGGTATGG TGTTTTATATTTGTT .................................................................................................................................................................................................................................................................................................................CCATGTTTATGGTGCTGCATAGGTATGG................................. Find igs database================================================ Query_seq: TF2893:TF2894|TF2893:TF2894:conserved hypothetical protein; possible phosphoesterase:conserved hypothetical protein; possible Fic family protein:->->:3082100..3082465 366 agggagagaccggacgagacatagaggttaaaatttatcatttacttagatgtttaagagcaaaattttcacttatcacaattttaggaaaacctgtttccaacattacttttgcttgtatggaatcatttaatttccattcggacaataaatgtcccgatttaactatcaaaggaaatcttttttcctctgctattgcaaggttctgagagcagttaaaaagaagaattaatccaattattaatcttacgttcatctaatccgttttaaatatatacgacatacttgtgtataacgcacaaagtccatgtttatggtgctgcataggtatggtgttttatatttgttcatagacgatgtttttta Intra-Species Hit: Count: 1 Min: 1 Max: 366 Len: 366 Subject: tfor_TF2893_TF2894|conserved hypothetical protein; possible phosphoesterase:conserved hypothetical protein; possible Fic family protein|POSITIVE:POSITIVE|[3082100,3082465]|366 HSP 1 e-value: 0.0 bit: 726.0 Len: 366 Query Start:1 Query End:366 Subject Strand: POSITIVE Subject Start: 1 Subject End: 366 agggagagaccggacgagacatagaggttaaaatttatcatttacttagatgtttaagagcaaaattttcacttatcacaattttaggaaaacctgtttccaacattacttttgcttgtatggaatcatttaatttccattcggacaataaatgtcccgatttaactatcaaaggaaatcttttttcctctgctattgcaaggttctgagagcagttaaaaagaagaattaatccaattattaatcttacgttcatctaatccgttttaaatatatacgacatacttgtgtataacgcacaaagtccatgtttatggtgctgcataggtatggtgttttatatttgttcatagacgatgtttttta agggagagaccggacgagacatagaggttaaaatttatcatttacttagatgtttaagagcaaaattttcacttatcacaattttaggaaaacctgtttccaacattacttttgcttgtatggaatcatttaatttccattcggacaataaatgtcccgatttaactatcaaaggaaatcttttttcctctgctattgcaaggttctgagagcagttaaaaagaagaattaatccaattattaatcttacgttcatctaatccgttttaaatatatacgacatacttgtgtataacgcacaaagtccatgtttatggtgctgcataggtatggtgttttatatttgttcatagacgatgtttttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGGGAGAGACCGGACGAGACAUAGAGGUUAAAAUUUAUCAUUUACUUAGAUGUUUAAGAGCAAAAUUUUCACUUAUCACAAUUUUAGGAAAACCUGUUUCCAACAUUACUUUUGCUUGUAUGGAAUCAUUUAAUUUCCAUUCGGACAAUAAAUGUCCCGAUUUAACUAUCAAAGGAAAUCUUUUUUCCUCUGCUAUUGCAAGGUUCUGAGAGCAGUUAAAAAGAAGAAUUAAUCCAAUUAUUAAUCUUACGUUCAUCUAAUCCGUUUUAAAUAUAUACGACAUACUUGUGUAUAACGCACAAAGUCCAUGUUUAUGGUGCUGCAUAGGUAUGGUGUUUUAUAUUUGUUCAUAGACGAUGUUUUUUA ...(((((((.(((((((((((..((((.(((........)))))))..))))))..((((((((.......((.....)).....(((((.....)))))........))))))))...((((.........(((((....(((((.....))))).(((......)))...)))))((((((((...(((((....((......))..)))))....)))))))).....)))).............)))))........(((((((((((((.(((.((((((((((((....((((...((........)).)))))))))))))))).)))..)))))))).....)))))..))))))). (-75.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAAACAUCGUCUAUGAACAAAUAUAAAACACCAUACCUAUGCAGCACCAUAAACAUGGACUUUGUGCGUUAUACACAAGUAUGUCGUAUAUAUUUAAAACGGAUUAGAUGAACGUAAGAUUAAUAAUUGGAUUAAUUCUUCUUUUUAACUGCUCUCAGAACCUUGCAAUAGCAGAGGAAAAAAGAUUUCCUUUGAUAGUUAAAUCGGGACAUUUAUUGUCCGAAUGGAAAUUAAAUGAUUCCAUACAAGCAAAAGUAAUGUUGGAAACAGGUUUUCCUAAAAUUGUGAUAAGUGAAAAUUUUGCUCUUAAACAUCUAAGUAAAUGAUAAAUUUUAACCUCUAUGUCUCGUCCGGUCUCUCCCU ...........(((((((......(((........)))..((((......))))..)))))))..((((((.(((((....))))).)))))).........(((((.((((....(((((.....(((..(((........)))..))).(((....)))...))))).....(((((((((.....)))))))))...((((((..((((((((((...(((....)))...)))))).)))).....(((((((......(((....)))..((((((............)).)))).)))))))..........................))))))......)))).))))).......... (-68.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 328 360 315 51 3 tfor:TF3086|5end_conserved_hypothetical_protein_3319015..3319245_POSITIVE 322 350 304 90 32 tfor:TF1832|5end_3-isopropylmalate_dehydratase,_small_subunit_1980832..1981062_POSITIVE 308 360 318 75 35 tfor:TF3082|5end_conserved_hypothetical_protein_3316431..3316661_POSITIVE 304 317 278 229 195 tfor:TF2345|5end_dGTP_triphosphohydrolase_2508372..2508602_POSITIVE 299 226 183 152 93 tfor:TF1297|5end_hypothetical_protein_1379024..1379254_POSITIVE 299 227 183 81 45 tfor:TF0512|5end_2-oxoglutarate_oxidoreductase,_alpha_subunit_537111..537341_POSITIVE 281 330 281 152 96 tfor:TF2640|5end_hypothetical_protein_2809106..2809336_POSITIVE 281 330 281 66 10 tfor:TF2639|5end_hypothetical_protein_2809020..2809250_POSITIVE 277 337 295 43 2 tfor:TF1835|5end_possible_dihydroxy-acid_dehydratase_1984201..1984431_POSITIVE 277 336 291 136 82 tfor:TF0183|5end_conserved_hypothetical_protein_195954..196184_POSITIVE 276 333 296 153 105 tfor:TF0517|5end_TPR-repeat-containing_protein_540621..540851_POSITIVE 274 129 92 146 110 tfor:TF0859|5end_conserved_hypothetical_protein_911753..911983_POSITIVE 273 329 286 219 175 tfor:TF1639|5end_conserved_hypothetical_protein_1747652..1747882_POSITIVE 273 330 281 218 167 tfor:TF1274|5end_hypothetical_protein_1357621..1357851_POSITIVE 271 335 295 185 145 tfor:TF2628|5end_conserved_hypothetical_protein_2800724..2800954_POSITIVE 270 48 8 210 171 tfor:TF2342|5end_glutathione_peroxidase_2505963..2506193_POSITIVE 270 217 171 197 142 tfor:TF1836|5end_hypothetical_protein_1984534..1984764_POSITIVE 269 328 285 228 184 tfor:TF3134|5end_HD_superfamily_hydrolase_3367990..3368220_POSITIVE 268 357 312 137 89 tfor:TF0398|5end_Fe-S_oxidoreductase_418984..419214_POSITIVE 267 217 179 68 23 tfor:TF2287|5end_hypothetical_protein_2441194..2441424_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 322 350 304 81 23 tfor:TF1831|3end_conserved_hypothetical_protein_1980903..1981053_POSITIVE 299 227 183 69 33 tfor:TF0511|3end_hypothetical_protein_537179..537329_POSITIVE 298 216 173 142 101 tfor:TF1924|3end_prenyltransferase,_UbiA_family_2073827..2073977_POSITIVE 277 337 295 73 32 tfor:TF1834|3end_3-isopropylmalate_dehydrogenase_1984311..1984461_POSITIVE 276 333 296 145 97 tfor:TF0516|3end_conserved_hypothetical_protein;_possible_membrane_protein_540693..540843_POSITIVE 274 129 92 146 110 tfor:TF0858|3end_conserved_hypothetical_protein_911833..911983_POSITIVE 273 330 281 81 30 tfor:TF2047|3end_hypothetical_protein_2210298..2210448_POSITIVE 271 335 295 135 95 tfor:TF2627|3end_SAM-dependent_methyltransferase_2800754..2800904_POSITIVE 271 217 178 141 85 tfor:TF2607|3end_conserved_hypothetical_protein_2784645..2784795_POSITIVE 270 329 284 49 12 tfor:TF1993|3end_hypothetical_protein_2144522..2144672_POSITIVE 270 329 284 76 39 tfor:TF1992|3end_hypothetical_protein_2144549..2144699_POSITIVE 268 357 312 137 89 tfor:TF0397|3end_ferredoxin-like_protein_419064..419214_POSITIVE 266 360 318 84 38 tfor:TF1237|3end_possible_L-fuculose_kinase_1323599..1323749_POSITIVE 265 322 281 44 2 tfor:TF0467|3end_acetyltransferase-related_protein_486543..486693_POSITIVE 264 357 316 73 28 tfor:TF0726|3end_ABC_transporter,_permease_component_779258..779408_POSITIVE 261 213 171 76 41 tfor:TF1762|3end_hypothetical_protein_1899648..1899798_POSITIVE 255 333 303 146 114 tfor:TF0006|3end_3-oxyacyl_[acyl-carrier_protein]_reductase_2580..2730_POSITIVE 255 333 303 137 105 tfor:TF0004|3end_conserved_hypothetical_protein_2571..2721_POSITIVE 253 332 295 151 117 tfor:TF2780|3end_hypothetical_protein_2966526..2966676_POSITIVE 252 50 2 101 59 tfor:TF2860|3end_hypothetical_protein_3051680..3051830_POSITIVE