Origin IGS: aaagatgaaagggatgcgaaaatcctaacatcgctataaagataacataaaaaagccggattggtttctccggaatcctgtttttatatttatttaactttctattttttttaatccggggaggaaatttgttgaccaatcggtgaatttacggatttgcttcagttttttcggtatggctttcattgctcgtattcttatacatagagagggcatgcccaaaccttgcgttcagacacaccctcctctgcgataaatcgaaaacgggtta .........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 taacccgttttcgatttatcgcagaggagggtgtgtctgaacgcaaggtttgggcatgccctctctatgtataagaatacgagcaatgaaagccataccgaaaaaactgaagcaaatccgtaaattcaccgattggtcaacaaatttcctccccggattaaaaaaaatagaaagttaaataaatataaaaacaggattccggagaaaccaatccggcttttttatgttatctttatagcgatgttaggattttcgcatccctttcatcttt Mask Tandem Repeat Region ================================================ aaagatgaaagggatgcgaaaatcctaacatcgctataaagataacataaaaaagccggattggtttctccggaatcctgtttttatatttatttaactttctattttttttaatccggggaggaaatttgttgaccaatcggtgaatttacggatttgcttcagttttttcggtatggctttcattgctcgtattcttatacatagagagggcatgcccaaaccttgcgttcagacacaccctcctctgcgataaatcgaaaacgggtta Find is-nt database================================================ Query_seq: TF1283:TF1284|TF1283:TF1284:hypothetical protein:glyceraldehyde 3-phosphate dehydrogenase:->->:1367808..1368078 271 aaagatgaaagggatgcgaaaatcctaacatcgctataaagataacataaaaaagccggattggtttctccggaatcctgtttttatatttatttaactttctattttttttaatccggggaggaaatttgttgaccaatcggtgaatttacggatttgcttcagttttttcggtatggctttcattgctcgtattcttatacatagagagggcatgcccaaaccttgcgttcagacacaccctcctctgcgataaatcgaaaacgggtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1283:TF1284|TF1283:TF1284:hypothetical protein:glyceraldehyde 3-phosphate dehydrogenase:->->:1367808..1368078 271 aaagatgaaagggatgcgaaaatcctaacatcgctataaagataacataaaaaagccggattggtttctccggaatcctgtttttatatttatttaactttctattttttttaatccggggaggaaatttgttgaccaatcggtgaatttacggatttgcttcagttttttcggtatggctttcattgctcgtattcttatacatagagagggcatgcccaaaccttgcgttcagacacaccctcctctgcgataaatcgaaaacgggtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1283:TF1284|TF1283:TF1284:hypothetical protein:glyceraldehyde 3-phosphate dehydrogenase:->->:1367808..1368078 271 aaagatgaaagggatgcgaaaatcctaacatcgctataaagataacataaaaaagccggattggtttctccggaatcctgtttttatatttatttaactttctattttttttaatccggggaggaaatttgttgaccaatcggtgaatttacggatttgcttcagttttttcggtatggctttcattgctcgtattcttatacatagagagggcatgcccaaaccttgcgttcagacacaccctcctctgcgataaatcgaaaacgggtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaagatgaaagggatgcgaaaatcctaacatcgctataaagataacataaaaaagccggattggtttctccggaatcctgtttttatatttatttaactttctattttttttaatccggggaggaaatttgttgaccaatcggtgaatttacggatttgcttcagttttttcggtatggctttcattgctcgtattcttatacatagagagggcatgcccaaaccttgcgttcagacacaccctcctctgcgataaatcgaaaacgggtta Predict ORF larger than 30AA ================================================ Protein_Len: 50 Strand: + Start: 104 End: 253 ....................................................................................................... M F F N P G R K F V D Q S V N L R I C F S F F G M A F I A R I L I H R E G M P K P C V Q T H P P L R .................. Protein_Len: 41 Strand: + Start: 147 End: 269 .................................................................................................................................................. M Y G F A S V F S V W L S L L V F L Y I E R A C P N L A F R H T L L C D K S K T G .. Protein_Len: 30 Strand: - Start: 152 End: 241 ....................................................................................................................................................... P N A E T K E T H S E N S T N K Y M S L A H G F R A N L C M .............................. Protein_Len: 42 Strand: - Start: 97 End: 222 ................................................................................................ S E I K K L G P L F N T S W D T F K R I Q K L K K P I A K M A R I R I C L S P M G M ................................................. Protein_Len: 49 Strand: - Start: 2 End: 148 . L H F P H S F G L M A I F I V Y F L R I P K E P I R N K Y K N L K R N K K I R P P F K N V L R H M ........................................................................................................................... aaagatgaaagggatgcgaaaatcctaacatcgctataaagataacataaaaaagccggattggtttctccggaatcctgtttttatatttatttaactttctattttttttaatccggggaggaaatttgttgaccaatcggtgaatttacggatttgcttcagttttttcggtatggctttcattgctcgtattcttatacatagagagggcatgcccaaaccttgcgttcagacacaccctcctctgcgataaatcgaaaacgggtta 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================================================ aaagatgaaagggatgcgaaaatcctaacatcgctataaagataacataaaaaagccggattggtttctccggaatcctgtttttatatttatttaactttctattttttttaatccggggaggaaatttgttgaccaatcggtgaatttacggatttgcttcagttttttcggtatggctttcattgctcgtattcttatacatagagagggcatgcccaaaccttgcgttcagacacaccctcctctgcgataaatcgaaaacgggtta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 72 HP_score: -2.4 Tail_Score: -5.30448 Start: 70 End: 80 Full_Region: GCCGGATTGGTTTCT CCGG AAT CCTG TTTTTATATTTATTT .....................................................................CCGGAATCCTG............................................................................................................................................................................................... TransTerm Strand: - Conf: 75 HP_score: -10.2 Tail_Score: -3.052 Start: 209 End: 245 Full_Region: cgatttatcgcagag gagggtgtgtctgaac gcaag gtttgggcatgccctc tctatgtataagaat ................................................................................................................................................................................................................gagggtgtgtctgaacgcaaggtttgggcatgccctc.......................... TransTerm Strand: - Conf: 62 HP_score: -7.0 Tail_Score: -3.08197 Start: 211 End: 243 Full_Region: atttatcgcagagga gggtgtgtctgaac gcaag gtttgggcatgccc tctctatgtataaga ..................................................................................................................................................................................................................gggtgtgtctgaacgcaaggtttgggcatgccc............................ Find igs database================================================ Query_seq: TF1283:TF1284|TF1283:TF1284:hypothetical protein:glyceraldehyde 3-phosphate dehydrogenase:->->:1367808..1368078 271 aaagatgaaagggatgcgaaaatcctaacatcgctataaagataacataaaaaagccggattggtttctccggaatcctgtttttatatttatttaactttctattttttttaatccggggaggaaatttgttgaccaatcggtgaatttacggatttgcttcagttttttcggtatggctttcattgctcgtattcttatacatagagagggcatgcccaaaccttgcgttcagacacaccctcctctgcgataaatcgaaaacgggtta Intra-Species Hit: Count: 1 Min: 1 Max: 271 Len: 271 Subject: tfor_TF1283_TF1284|hypothetical protein:glyceraldehyde 3-phosphate dehydrogenase|POSITIVE:POSITIVE|[1367808,1368078]|271 HSP 1 e-value: 1.0E-137 bit: 490.0 Len: 271 Query Start:1 Query End:271 Subject Strand: POSITIVE Subject Start: 1 Subject End: 271 aaagatgaaagggatgcgaaaatcctaacatcgctataaagataacataaaaaagccggattggtttctccggaatcctgtttttatatttatttaactttctannnnnnnnaatccggggaggaaatttgttgaccaatcggtgaatttacggatttgcttcagttttttcggtatggctttcattgctcgtattcttatacatagagagggcatgcccaaaccttgcgttcagacacaccctcctctgcgataaatcgaaaacgggtta aaagatgaaagggatgcgaaaatcctaacatcgctataaagataacataaaaaagccggattggtttctccggaatcctgtttttatatttatttaactttctattttttttaatccggggaggaaatttgttgaccaatcggtgaatttacggatttgcttcagttttttcggtatggctttcattgctcgtattcttatacatagagagggcatgcccaaaccttgcgttcagacacaccctcctctgcgataaatcgaaaacgggtta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAGAUGAAAGGGAUGCGAAAAUCCUAACAUCGCUAUAAAGAUAACAUAAAAAAGCCGGAUUGGUUUCUCCGGAAUCCUGUUUUUAUAUUUAUUUAACUUUCUAUUUUUUUUAAUCCGGGGAGGAAAUUUGUUGACCAAUCGGUGAAUUUACGGAUUUGCUUCAGUUUUUUCGGUAUGGCUUUCAUUGCUCGUAUUCUUAUACAUAGAGAGGGCAUGCCCAAACCUUGCGUUCAGACACACCCUCCUCUGCGAUAAAUCGAAAACGGGUUA ...((((((.(((((......)))))......((((((..((.(((.........(((((((((.......((((....(((..((....))...))).)))).......)))))))))((((.(((((((((.(((....))).)....)))))))).)))).)))...))..)))))).))))))((((((.(((((((.(.(((((((((..((.(..(((.....)))..).))..)))).))))).)))))...))).)))))).. (-64.84) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACCCGUUUUCGAUUUAUCGCAGAGGAGGGUGUGUCUGAACGCAAGGUUUGGGCAUGCCCUCUCUAUGUAUAAGAAUACGAGCAAUGAAAGCCAUACCGAAAAAACUGAAGCAAAUCCGUAAAUUCACCGAUUGGUCAACAAAUUUCCUCCCCGGAUUAAAAAAAAUAGAAAGUUAAAUAAAUAUAAAAACAGGAUUCCGGAGAAACCAAUCCGGCUUUUUUAUGUUAUCUUUAUAGCGAUGUUAGGAUUUUCGCAUCCCUUUCAUCUUU .....(((.(((...((((.(((.(((((((((((((..(((.....)))..))))))))))).)).)))))))))).)))....(((((((......((((((..((((.((.((((((............(((.....)))..........))))))......................((((((((((.((....(((((........))))))))))))))))).........))....))))..)))))).....))))))).... (-66.85) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 564 249 205 162 115 tfor:TF0187|5end_ferredoxin_202151..202381_POSITIVE 527 247 206 199 158 tfor:TF0662|5end_hypothetical_protein_708316..708546_POSITIVE 510 249 206 78 35 tfor:TF1046|5end_hypothetical_protein_1108178..1108408_POSITIVE 466 249 201 212 163 tfor:TF1505|5end_conserved_hypothetical_protein_1610773..1611003_POSITIVE 398 249 206 164 122 tfor:TF0811|5end_conserved_hypothetical_protein;_posible_sugar_phosphate_isomerase_869787..870017_POSITIVE 393 245 201 201 154 tfor:TF2593|5end_amino_acid_transport_protein_2762882..2763112_POSITIVE 392 249 205 148 107 tfor:TF2947|5end_isochorismate_synthase_3153633..3153863_POSITIVE 362 249 206 227 189 tfor:TF1999|5end_ArgK_protein_with_ATPase_and_kinase_domains_2152769..2152999_POSITIVE 355 247 209 192 155 tfor:TF3007|5end_conserved_hypothetical_protein_3227256..3227486_POSITIVE 355 252 211 165 126 tfor:TF2357|5end_collagenase_2522561..2522791_POSITIVE 352 190 141 152 89 tfor:TF1539|5end_conserved_hypothetical_protein_1644067..1644297_POSITIVE 345 246 209 218 181 tfor:TF2183|5end_hypothetical_protein_2355362..2355592_POSITIVE 330 244 202 231 189 tfor:TF2981|5end_conserved_hypothetical_protein_3195969..3196199_POSITIVE 328 228 185 135 83 tfor:TF0586|5end_conserved_hypothetical_protein_617313..617543_POSITIVE 320 192 152 173 128 tfor:TF0082|5end_transcriptional_regulator,_TetR_family_88516..88746_POSITIVE 319 255 212 225 180 tfor:TF2879|5end_tRNA_(guanine-N-1)-methyltransferase_3068254..3068484_POSITIVE 317 180 131 198 145 tfor:TF0115|5end_sulfatase_125144..125374_POSITIVE 313 192 151 188 155 tfor:TF1468|5end_beta-galactosidase_1557785..1558015_POSITIVE 312 252 221 32 1 tfor:TF2422|5end_hypothetical_protein_2601298..2601528_POSITIVE 312 252 214 185 158 tfor:TF1850|5end_Na+/H+-exchanging_protein_1998542..1998772_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 559 250 206 60 10 tfor:TF2765|3end_subtilisin-like_serine_protease_2951460..2951610_POSITIVE 527 247 206 60 19 tfor:TF0661|3end_hypothetical_protein_708257..708407_POSITIVE 510 249 206 65 22 tfor:TF1045|3end_conserved_hypothetical_protein_1108245..1108395_POSITIVE 388 245 206 46 6 tfor:TF2592|3end_conserved_hypothetical_protein_2762807..2762957_POSITIVE 371 250 201 61 13 tfor:TF1354|3end_TonB_protein_1435216..1435366_POSITIVE 362 249 206 64 26 tfor:TF1997|3end_ROK_family_transcriptional_regulator_2152686..2152836_POSITIVE 359 245 209 110 74 tfor:TF2413|3end_hypothetical_protein_2590680..2590830_POSITIVE 352 190 141 137 74 tfor:TF1538|3end_conserved_hypothetical_protein_1644132..1644282_POSITIVE 327 252 211 86 41 tfor:TF2366|3end_conserved_hypothetical_protein_2531892..2532042_POSITIVE 326 248 207 62 6 tfor:TF1585|3end_hypothetical_protein_1690610..1690760_POSITIVE 320 192 152 71 26 tfor:TF0081|3end_pantothenate_kinase_88494..88644_POSITIVE 317 199 151 137 82 tfor:TF2738|3end_30S_ribosomal_protein_S16_2920084..2920234_POSITIVE 317 252 211 59 3 tfor:TF1584|3end_hypothetical_protein_1690603..1690753_POSITIVE 308 180 131 57 20 tfor:TF2836|3end_methyltransferase_3028028..3028178_POSITIVE 300 254 211 83 34 tfor:TF2978|3end_conserved_hypothetical_protein_3190862..3191012_POSITIVE 300 246 204 66 10 tfor:TF0193|3end_conserved_hypothetical_protein;_possible_internalin-like_protein_(LPXTG_motif)_215240..215390_POSITIVE 299 79 33 63 12 tfor:TF1331|3end_outer_membrane_protein_1410934..1411084_POSITIVE 295 199 152 143 102 tfor:TF0975|3end_hypothetical_protein_1024361..1024511_POSITIVE 294 180 136 123 77 tfor:TF1785|3end_histidine_ammonia-lyase_1926070..1926220_POSITIVE 292 260 211 116 68 tfor:TF1799|3end_quinolinate_synthetase_1941294..1941444_POSITIVE