Origin IGS: taatatctttttgataaacaattataaagggatagaccaactgtctatccctttatttgttatataccgaagaagaaaatagcaagatagtatatcgtttacacaaaaaaagaatactgaaaacattgtttcagtaatataaaacactgataattaaacaattaaagtactatatagatattttcaattgctcgatagatattatctgttgtgcaatattgtatatatgtctacctttgcattgtcaaacaaaacaacagacaatagaattgaaaatttaaactaacaataataattatcgatgagccgacggtgccaaaccgaaagccattgaaaacaaaacaacagaaaa .........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 ttttctgttgttttgttttcaatggctttcggtttggcaccgtcggctcatcgataattattattgttagtttaaattttcaattctattgtctgttgttttgtttgacaatgcaaaggtagacatatatacaatattgcacaacagataatatctatcgagcaattgaaaatatctatatagtactttaattgtttaattatcagtgttttatattactgaaacaatgttttcagtattctttttttgtgtaaacgatatactatcttgctattttcttcttcggtatataacaaataaagggatagacagttggtctatccctttataattgtttatcaaaaagatatta Mask Tandem Repeat Region ================================================ taatatctttttgataaacaattataaagggatagaccaactgtctatccctttatttgttatataccgaagaagaaaatagcaagatagtatatcgtttacacaaaaaaagaatactgaaaacattgtttcagtaatataaaacactgataattaaacaattaaagtactatatagatattttcaattgctcgatagatattatctgttgtgcaatattgtatatatgtctacctttgcattgtcaaacaaaacaacagacaatagaattgaaaatttaaactaacaataataattatcgatgagccgacggtgccaaaccgaaagccattgaaaacaaaacaacagaaaa Find is-nt database================================================ Query_seq: PI1368:PI1369|PI1368:PI1369:enolase (phosphopyruvate hydratase):alkyl hydroperoxide reductase, subunit C:->->:1289568..1289919 352 taatatctttttgataaacaattataaagggatagaccaactgtctatccctttatttgttatataccgaagaagaaaatagcaagatagtatatcgtttacacaaaaaaagaatactgaaaacattgtttcagtaatataaaacactgataattaaacaattaaagtactatatagatattttcaattgctcgatagatattatctgttgtgcaatattgtatatatgtctacctttgcattgtcaaacaaaacaacagacaatagaattgaaaatttaaactaacaataataattatcgatgagccgacggtgccaaaccgaaagccattgaaaacaaaacaacagaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1368:PI1369|PI1368:PI1369:enolase (phosphopyruvate hydratase):alkyl hydroperoxide reductase, subunit C:->->:1289568..1289919 352 taatatctttttgataaacaattataaagggatagaccaactgtctatccctttatttgttatataccgaagaagaaaatagcaagatagtatatcgtttacacaaaaaaagaatactgaaaacattgtttcagtaatataaaacactgataattaaacaattaaagtactatatagatattttcaattgctcgatagatattatctgttgtgcaatattgtatatatgtctacctttgcattgtcaaacaaaacaacagacaatagaattgaaaatttaaactaacaataataattatcgatgagccgacggtgccaaaccgaaagccattgaaaacaaaacaacagaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1368:PI1369|PI1368:PI1369:enolase (phosphopyruvate hydratase):alkyl hydroperoxide reductase, subunit C:->->:1289568..1289919 352 taatatctttttgataaacaattataaagggatagaccaactgtctatccctttatttgttatataccgaagaagaaaatagcaagatagtatatcgtttacacaaaaaaagaatactgaaaacattgtttcagtaatataaaacactgataattaaacaattaaagtactatatagatattttcaattgctcgatagatattatctgttgtgcaatattgtatatatgtctacctttgcattgtcaaacaaaacaacagacaatagaattgaaaatttaaactaacaataataattatcgatgagccgacggtgccaaaccgaaagccattgaaaacaaaacaacagaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatatctttttgataaacaattataaagggatagaccaactgtctatccctttatttgttatataccgaagaagaaaatagcaagatagtatatcgtttacacaaaaaaagaatactgaaaacattgtttcagtaatataaaacactgataattaaacaattaaagtactatatagatattttcaattgctcgatagatattatctgttgtgcaatattgtatatatgtctacctttgcattgtcaaacaaaacaacagacaatagaattgaaaatttaaactaacaataataattatcgatgagccgacggtgccaaaccgaaagccattgaaaacaaaacaacagaaaa Predict ORF larger than 30AA ================================================ Protein_Len: 44 Strand: + Start: 147 End: 278 .................................................................................................................................................. M I I K Q L K Y Y I D I F N C S I D I I C C A I L Y I C L P L H C Q T K Q Q T I E L K I .......................................................................... Protein_Len: 41 Strand: + Start: 161 End: 283 ................................................................................................................................................................ M K V L Y R Y F Q L L D R Y Y L L C N I V Y M S T F A L S N K T T D N R I E N L N ..................................................................... Protein_Len: 41 Strand: - Start: 25 End: 147 ........................ L P I S W S D I G K N T I Y R L L F Y C S L I D N V C F F F V S F M T E T I Y F M ............................................................................................................................................................................................................. taatatctttttgataaacaattataaagggatagaccaactgtctatccctttatttgttatataccgaagaagaaaatagcaagatagtatatcgtttacacaaaaaaagaatactgaaaacattgtttcagtaatataaaacactgataattaaacaattaaagtactatatagatattttcaattgctcgatagatattatctgttgtgcaatattgtatatatgtctacctttgcattgtcaaacaaaacaacagacaatagaattgaaaatttaaactaacaataataattatcgatgagccgacggtgccaaaccgaaagccattgaaaacaaaacaacagaaaa Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: + Score: 84 Start: 241 End: 270 ................................................................................................................................................................................................................................................ATTGTCAAACAAAACAACAGACAATAGAAT.................................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ taatatctttttgataaacaattataaagggatagaccaactgtctatccctttatttgttatataccgaagaagaaaatagcaagatagtatatcgtttacacaaaaaaagaatactgaaaacattgtttcagtaatataaaacactgataattaaacaattaaagtactatatagatattttcaattgctcgatagatattatctgttgtgcaatattgtatatatgtctacctttgcattgtcaaacaaaacaacagacaatagaattgaaaatttaaactaacaataataattatcgatgagccgacggtgccaaaccgaaagccattgaaaacaaaacaacagaaaa Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -15.7 Tail_Score: -3.07135 Start: 25 End: 55 Full_Region: tcggtatataacaaa taaagggatagac agttg gtctatcccttta taattgtttatcaaa ........................taaagggatagacagttggtctatcccttta......................................................................................................................................................................................................................................................................................................... TransTerm Strand: - Conf: 100 HP_score: -12.1 Tail_Score: -4.18441 Start: 29 End: 51 Full_Region: tatataacaaataaa gggatagac agttg gtctatccc tttataattgtttat ............................gggatagacagttggtctatccc............................................................................................................................................................................................................................................................................................................. TransTerm Strand: - Conf: 78 HP_score: -6.0 Tail_Score: -4.92669 Start: 115 End: 136 Full_Region: atcagtgttttatat tactgaaa caatgt tttcagta ttctttttttgtgta ..................................................................................................................tactgaaacaatgttttcagta........................................................................................................................................................................................................................ TransTerm Strand: + Conf: 45 HP_score: -4.2 Tail_Score: -2.62396 Start: 117 End: 134 Full_Region: CACAAAAAAAGAATA CTGAAA ACATTG TTTCAG TAATATAAAACACTG ....................................................................................................................CTGAAAACATTGTTTCAG.......................................................................................................................................................................................................................... TransTerm Strand: + Conf: 70 HP_score: -7.5 Tail_Score: -3.40967 Start: 188 End: 216 Full_Region: TATAGATATTTTCAA TTGCTCGATAGAT ATT ATCTGTTGTGCAA TATTGTATATATGTC ...........................................................................................................................................................................................TTGCTCGATAGATATTATCTGTTGTGCAA........................................................................................................................................ Find igs database================================================ Query_seq: PI1368:PI1369|PI1368:PI1369:enolase (phosphopyruvate hydratase):alkyl hydroperoxide reductase, subunit C:->->:1289568..1289919 352 taatatctttttgataaacaattataaagggatagaccaactgtctatccctttatttgttatataccgaagaagaaaatagcaagatagtatatcgtttacacaaaaaaagaatactgaaaacattgtttcagtaatataaaacactgataattaaacaattaaagtactatatagatattttcaattgctcgatagatattatctgttgtgcaatattgtatatatgtctacctttgcattgtcaaacaaaacaacagacaatagaattgaaaatttaaactaacaataataattatcgatgagccgacggtgccaaaccgaaagccattgaaaacaaaacaacagaaaa Intra-Species Hit: Count: 1 Min: 1 Max: 352 Len: 352 Subject: pint_PI1368_PI1369|enolase (phosphopyruvate hydratase):alkyl hydroperoxide reductase, subunit C|POSITIVE:POSITIVE|[1289568,1289919]|352 HSP 1 e-value: 0.0 bit: 656.0 Len: 352 Query Start:1 Query End:352 Subject Strand: POSITIVE Subject Start: 1 Subject End: 352 taatatctttttgataaacaattataaagggatagaccaactgtctatccctttatttgttatataccgaagaagaaaatagcaagatagtatatcgtttacacnnnnnnngaatactgaaaacattgtttcagtaatataaaacactgataattaaacaattaaagtactatatagatattttcaattgctcgatagatattatctgttgtgcaatattgtatatatgtctacctttgcattgtcaaacaaaacaacagacaatagaattgaaaatttaaactaacaataataattatcgatgagccgacggtgccaaaccgaaagccattgaaaacaaaacaacagaaaa taatatctttttgataaacaattataaagggatagaccaactgtctatccctttatttgttatataccgaagaagaaaatagcaagatagtatatcgtttacacaaaaaaagaatactgaaaacattgtttcagtaatataaaacactgataattaaacaattaaagtactatatagatattttcaattgctcgatagatattatctgttgtgcaatattgtatatatgtctacctttgcattgtcaaacaaaacaacagacaatagaattgaaaatttaaactaacaataataattatcgatgagccgacggtgccaaaccgaaagccattgaaaacaaaacaacagaaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUAUCUUUUUGAUAAACAAUUAUAAAGGGAUAGACCAACUGUCUAUCCCUUUAUUUGUUAUAUACCGAAGAAGAAAAUAGCAAGAUAGUAUAUCGUUUACACAAAAAAAGAAUACUGAAAACAUUGUUUCAGUAAUAUAAAACACUGAUAAUUAAACAAUUAAAGUACUAUAUAGAUAUUUUCAAUUGCUCGAUAGAUAUUAUCUGUUGUGCAAUAUUGUAUAUAUGUCUACCUUUGCAUUGUCAAACAAAACAACAGACAAUAGAAUUGAAAAUUUAAACUAACAAUAAUAAUUAUCGAUGAGCCGACGGUGCCAAACCGAAAGCCAUUGAAAACAAAACAACAGAAAA ((((((((..((((..(((((..((((((((((((((.....))))))))))))))))))).............(((((((.....(((((((.....................((((((((......))))))))..............(((((....)))))..))))))).....)))))))......)))).))))))))((((((((....((((((.....(((((....(((..(((.....)))..))).)))))...((((.....))))......)))))).......((((((.((...((((.....))))...)))))))).......))))))))... (-81.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUCUGUUGUUUUGUUUUCAAUGGCUUUCGGUUUGGCACCGUCGGCUCAUCGAUAAUUAUUAUUGUUAGUUUAAAUUUUCAAUUCUAUUGUCUGUUGUUUUGUUUGACAAUGCAAAGGUAGACAUAUAUACAAUAUUGCACAACAGAUAAUAUCUAUCGAGCAAUUGAAAAUAUCUAUAUAGUACUUUAAUUGUUUAAUUAUCAGUGUUUUAUAUUACUGAAACAAUGUUUUCAGUAUUCUUUUUUUGUGUAAACGAUAUACUAUCUUGCUAUUUUCUUCUUCGGUAUAUAACAAAUAAAGGGAUAGACAGUUGGUCUAUCCCUUUAUAAUUGUUUAUCAAAAAGAUAUUA ....((((.....((((((((((.(((..((((.....))))..)))...((((((......((((..(((....)))..))))..((((((((((((..(((.....))).((((..(((........)))....)))).))))))))))))..))))))...)))))))))).....))))((((...((((((......((((((........))))))))))))......))))...((((((((.((((((.(((((((....................))))))).....((((((((((((((.....))))))))))))))....))))))))))))))..... (-82.65) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 303 251 215 94 49 pint:PI0761|5end_hypothetical_protein_696173..696403_POSITIVE 295 348 304 66 17 pint:PI0182|5end_hypothetical_protein_174093..174323_POSITIVE 294 344 306 109 72 pint:PI0005|5end_hypothetical_protein_6984..7214_POSITIVE 292 348 301 154 94 pint:PI1382|5end_hypothetical_protein_1303608..1303838_POSITIVE 286 324 296 215 188 pint:PI0854|5end_MiaB-like_tRNA_modifying_enzyme_786513..786743_POSITIVE 284 256 212 81 25 pint:PI2043|5end_hypothetical_protein_1996058..1996288_POSITIVE 283 240 193 180 132 pint:PI1592|5end_conserved_hypothetical_protein;_possible_permease_1519897..1520127_POSITIVE 282 333 304 64 31 pint:PI0815|5end_hypothetical_protein_754475..754705_POSITIVE 280 340 300 207 167 pint:PI2115|5end_hypothetical_protein_2064966..2065196_POSITIVE 276 329 287 46 10 pint:PI1834|5end_anaerobic_C4-dicarboxylate_membrane_transporter_1774861..1775091_POSITIVE 273 330 286 87 32 pint:PI1642|5end_conserved_hypothetical_protein_1558800..1559030_POSITIVE 270 338 300 61 28 pint:PI1586|5end_possible_HesA/MoeB/ThiF_family_protein_1514372..1514602_POSITIVE 269 342 302 71 35 pint:PI0626|5end_penicillin-binding_protein,_D-alanyl-D-alanine_carboxypeptidase_574305..574535_POSITIVE 269 330 300 204 175 pint:PI0496|5end_heat_shock_protein_hsp70_(chaperone_protein_dnaK)_456632..456862_POSITIVE 266 337 298 87 48 pint:PI1898|5end_S-adenosyl-methyltransferase_1841288..1841518_POSITIVE 264 350 304 86 42 pint:PI1199|5end_possible_acetyltransferase_1115139..1115369_POSITIVE 263 53 18 213 179 pint:PI0846|5end_transcription_regulator,_CRP_family_780435..780665_POSITIVE 262 317 301 176 158 pint:PI1185|5end_hypothetical_protein_1106076..1106306_POSITIVE 261 329 296 100 64 pint:PI0932|5end_conserved_hypothetical_protein;_possible_hemin_receptor_863854..864084_POSITIVE 261 67 28 160 121 pint:PI0511|5end_hypothetical_protein_470434..470664_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 406 60 17 73 30 pint:PI1368|3end_enolase_(phosphopyruvate_hydratase)_1289507..1289657_POSITIVE 297 238 195 89 49 pint:PI0713|3end_hypothetical_protein_650529..650679_POSITIVE 292 348 301 142 82 pint:PI1381|3end_conserved_hypothetical_protein_1303676..1303826_POSITIVE 284 256 212 81 25 pint:PI2042|3end_cation-transporting_ATPase_1996138..1996288_POSITIVE 276 330 286 62 4 pint:PI0821|3end_conserved_hypothetical_protein_761213..761363_POSITIVE 273 330 286 90 35 pint:PI1641|3end_hypothetical_protein_1558883..1559033_POSITIVE 272 324 284 51 8 pint:PI1848|3end_hypothetical_protein_1795015..1795165_POSITIVE 269 342 302 39 3 pint:PI0625|3end_possible_membrane_transport_protein_574353..574503_POSITIVE 264 350 304 86 42 pint:PI1198|3end_acetyltransferase_1115219..1115369_POSITIVE 263 53 18 137 103 pint:PI0845|3end_peptidyl-dipeptidase_780439..780589_POSITIVE 260 348 303 150 103 pint:PI0945|3end_sodium:solute_symporter_family_protein_877624..877774_POSITIVE 253 247 212 109 69 pint:PI0203|3end_conserved_hypothetical_protein_196064..196214_POSITIVE 252 333 300 142 98 pint:PI0822|3end_tRNA_delta(2)-isopentenylpyrophosphate_transferase_762025..762175_POSITIVE 251 318 299 130 109 pint:PI2132|3end_hypothetical_protein_2081139..2081289_POSITIVE 249 349 305 89 48 pint:PI1066|3end_dihydrofolate_reductase_983932..984082_POSITIVE 242 330 286 90 35 pint:PI0347|3end_hypothetical_protein_321655..321805_POSITIVE 240 322 300 145 117 pint:PI0624|3end_hypothetical_protein_574471..574621_POSITIVE 239 340 295 83 44 pint:PI1723|3end_conserved_hypothetical_protein_1642133..1642283_POSITIVE 239 323 285 139 94 pint:PI0046|3end_thiamine_monophosphate_synthase_(thiamine-phosphate_pyrophosphorylase)_46044..46194_POSITIVE 238 349 304 84 30 pint:PI2027|3end_arginine_decarboxylase_1982130..1982280_POSITIVE