Origin IGS: cccacccttttgcaacacttcaaccgcctttctaatatcttcttgttgtatcattttcttataaccaatagagaaatacaaaagtaggaaaaaaaaaggaaaccgacaaatctataagacaaaaataaagttgatagtattcagtacctatcaaaagaggagaaaagctgtcatctttttcgttttctttcatcgttaaaagtatatgtacaaagctattttcagagtaagcaatatttactatggcgaagtacattgctttatttttccgaacagacaaacttctttaggtgcaactttatttcgcctccattattcgttttctaaataaaaacgaggcataaaagtgtaaatgtttttcgcaaacacatctatcgtataactgtttaattatcagggtt .........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 aaccctgataattaaacagttatacgatagatgtgtttgcgaaaaacatttacacttttatgcctcgtttttatttagaaaacgaataatggaggcgaaataaagttgcacctaaagaagtttgtctgttcggaaaaataaagcaatgtacttcgccatagtaaatattgcttactctgaaaatagctttgtacatatacttttaacgatgaaagaaaacgaaaaagatgacagcttttctcctcttttgataggtactgaatactatcaactttatttttgtcttatagatttgtcggtttcctttttttttcctacttttgtatttctctattggttataagaaaatgatacaacaagaagatattagaaaggcggttgaagtgttgcaaaagggtggg Mask Tandem Repeat Region ================================================ cccacccttttgcaacacttcaaccgcctttctaatatcttcttgttgtatcattttcttataaccaatagagaaatacaaaagtaggaaaaaaaaaggaaaccgacaaatctataagacaaaaataaagttgatagtattcagtacctatcaaaagaggagaaaagctgtcatctttttcgttttctttcatcgttaaaagtatatgtacaaagctattttcagagtaagcaatatttactatggcgaagtacattgctttatttttccgaacagacaaacttctttaggtgcaactttatttcgcctccattattcgttttctaaataaaaacgaggcataaaagtgtaaatgtttttcgcaaacacatctatcgtataactgtttaattatcagggtt Find is-nt database================================================ Query_seq: PI1128:PI1129|PI1128:PI1129:probable yrdC domain protein, translation factor (SUA5):hypothetical protein:->->:1055116..1055516 401 cccacccttttgcaacacttcaaccgcctttctaatatcttcttgttgtatcattttcttataaccaatagagaaatacaaaagtaggaaaaaaaaaggaaaccgacaaatctataagacaaaaataaagttgatagtattcagtacctatcaaaagaggagaaaagctgtcatctttttcgttttctttcatcgttaaaagtatatgtacaaagctattttcagagtaagcaatatttactatggcgaagtacattgctttatttttccgaacagacaaacttctttaggtgcaactttatttcgcctccattattcgttttctaaataaaaacgaggcataaaagtgtaaatgtttttcgcaaacacatctatcgtataactgtttaattatcagggtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1128:PI1129|PI1128:PI1129:probable yrdC domain protein, translation factor (SUA5):hypothetical protein:->->:1055116..1055516 401 cccacccttttgcaacacttcaaccgcctttctaatatcttcttgttgtatcattttcttataaccaatagagaaatacaaaagtaggaaaaaaaaaggaaaccgacaaatctataagacaaaaataaagttgatagtattcagtacctatcaaaagaggagaaaagctgtcatctttttcgttttctttcatcgttaaaagtatatgtacaaagctattttcagagtaagcaatatttactatggcgaagtacattgctttatttttccgaacagacaaacttctttaggtgcaactttatttcgcctccattattcgttttctaaataaaaacgaggcataaaagtgtaaatgtttttcgcaaacacatctatcgtataactgtttaattatcagggtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1128:PI1129|PI1128:PI1129:probable yrdC domain protein, translation factor (SUA5):hypothetical protein:->->:1055116..1055516 401 cccacccttttgcaacacttcaaccgcctttctaatatcttcttgttgtatcattttcttataaccaatagagaaatacaaaagtaggaaaaaaaaaggaaaccgacaaatctataagacaaaaataaagttgatagtattcagtacctatcaaaagaggagaaaagctgtcatctttttcgttttctttcatcgttaaaagtatatgtacaaagctattttcagagtaagcaatatttactatggcgaagtacattgctttatttttccgaacagacaaacttctttaggtgcaactttatttcgcctccattattcgttttctaaataaaaacgaggcataaaagtgtaaatgtttttcgcaaacacatctatcgtataactgtttaattatcagggtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cccacccttttgcaacacttcaaccgcctttctaatatcttcttgttgtatcattttcttataaccaatagagaaatacaaaagtaggaaaaaaaaaggaaaccgacaaatctataagacaaaaataaagttgatagtattcagtacctatcaaaagaggagaaaagctgtcatctttttcgttttctttcatcgttaaaagtatatgtacaaagctattttcagagtaagcaatatttactatggcgaagtacattgctttatttttccgaacagacaaacttctttaggtgcaactttatttcgcctccattattcgttttctaaataaaaacgaggcataaaagtgtaaatgtttttcgcaaacacatctatcgtataactgtttaattatcagggtt Predict ORF larger than 30AA ================================================ Protein_Len: 43 Strand: + Start: 68 End: 196 ................................................................... M E K Y K S R K K K G N R Q I Y K T K I K L I V F S T Y Q K R R K A V I F F V F F H R ............................................................................................................................................................................................................. Protein_Len: 60 Strand: + Start: 139 End: 324 .......................................................................................................................................... M Q Y L S K E E K S C H L F R F L S S L K V Y V Q S Y F Q S K Q Y L L W R S T L L Y F S E Q T N F F R C N F I S P P L F ............................................................................. Protein_Len: 41 Strand: + Start: 206 End: 328 ............................................................................................................................................................................................................. M Y K A I F R V S N I Y Y G E V H C F I F P N R Q T S L G A T L F R L H Y S F S K ......................................................................... Protein_Len: 32 Strand: - Start: 302 End: 397 ............................................................................................................................................................................................................................................................................................................. K A E M I R K R F L F S A Y F H L H K E C V C R D Y L Q K I I M .... Protein_Len: 60 Strand: - Start: 62 End: 280 ............................................................. V S L D I L C F Y L Q Y Y E T G I L L P S F S D D K E N E K M T L L I H V F S N E S Y A I N V I A F Y M A K N K R V S M ......................................................................................................................... Protein_Len: 37 Strand: - Start: 1 End: 111 G G K Q L V E V A K R I D E Q Q I M K K Y G I S F Y L L L F F F P F R C M .................................................................................................................................................................................................................................................................................................. cccacccttttgcaacacttcaaccgcctttctaatatcttcttgttgtatcattttcttataaccaatagagaaatacaaaagtaggaaaaaaaaaggaaaccgacaaatctataagacaaaaataaagttgatagtattcagtacctatcaaaagaggagaaaagctgtcatctttttcgttttctttcatcgttaaaagtatatgtacaaagctattttcagagtaagcaatatttactatggcgaagtacattgctttatttttccgaacagacaaacttctttaggtgcaactttatttcgcctccattattcgttttctaaataaaaacgaggcataaaagtgtaaatgtttttcgcaaacacatctatcgtataactgtttaattatcagggtt 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================================================ cccacccttttgcaacacttcaaccgcctttctaatatcttcttgttgtatcattttcttataaccaatagagaaatacaaaagtaggaaaaaaaaaggaaaccgacaaatctataagacaaaaataaagttgatagtattcagtacctatcaaaagaggagaaaagctgtcatctttttcgttttctttcatcgttaaaagtatatgtacaaagctattttcagagtaagcaatatttactatggcgaagtacattgctttatttttccgaacagacaaacttctttaggtgcaactttatttcgcctccattattcgttttctaaataaaaacgaggcataaaagtgtaaatgtttttcgcaaacacatctatcgtataactgtttaattatcagggtt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1128:PI1129|PI1128:PI1129:probable yrdC domain protein, translation factor (SUA5):hypothetical protein:->->:1055116..1055516 401 cccacccttttgcaacacttcaaccgcctttctaatatcttcttgttgtatcattttcttataaccaatagagaaatacaaaagtaggaaaaaaaaaggaaaccgacaaatctataagacaaaaataaagttgatagtattcagtacctatcaaaagaggagaaaagctgtcatctttttcgttttctttcatcgttaaaagtatatgtacaaagctattttcagagtaagcaatatttactatggcgaagtacattgctttatttttccgaacagacaaacttctttaggtgcaactttatttcgcctccattattcgttttctaaataaaaacgaggcataaaagtgtaaatgtttttcgcaaacacatctatcgtataactgtttaattatcagggtt Intra-Species Hit: Count: 1 Min: 1 Max: 401 Len: 401 Subject: pint_PI1128_PI1129|probable yrdC domain protein, translation factor (SUA5):hypothetical protein|POSITIVE:POSITIVE|[1055116,1055516]|401 HSP 1 e-value: 0.0 bit: 741.0 Len: 401 Query Start:1 Query End:401 Subject Strand: POSITIVE Subject Start: 1 Subject End: 401 cccacccttttgcaacacttcaaccgcctttctaatatcttcttgttgtatcattttcttataaccaatagagaaatacaaaagtaggnnnnnnnnnggaaaccgacaaatctataagacaaaaataaagttgatagtattcagtacctatcaaaagaggagaaaagctgtcatctttttcgttttctttcatcgttaaaagtatatgtacaaagctattttcagagtaagcaatatttactatggcgaagtacattgctttatttttccgaacagacaaacttctttaggtgcaactttatttcgcctccattattcgttttctaaataaaaacgaggcataaaagtgtaaatgtttttcgcaaacacatctatcgtataactgtttaattatcagggtt cccacccttttgcaacacttcaaccgcctttctaatatcttcttgttgtatcattttcttataaccaatagagaaatacaaaagtaggaaaaaaaaaggaaaccgacaaatctataagacaaaaataaagttgatagtattcagtacctatcaaaagaggagaaaagctgtcatctttttcgttttctttcatcgttaaaagtatatgtacaaagctattttcagagtaagcaatatttactatggcgaagtacattgctttatttttccgaacagacaaacttctttaggtgcaactttatttcgcctccattattcgttttctaaataaaaacgaggcataaaagtgtaaatgtttttcgcaaacacatctatcgtataactgtttaattatcagggtt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CCCACCCUUUUGCAACACUUCAACCGCCUUUCUAAUAUCUUCUUGUUGUAUCAUUUUCUUAUAACCAAUAGAGAAAUACAAAAGUAGGAAAAAAAAAGGAAACCGACAAAUCUAUAAGACAAAAAUAAAGUUGAUAGUAUUCAGUACCUAUCAAAAGAGGAGAAAAGCUGUCAUCUUUUUCGUUUUCUUUCAUCGUUAAAAGUAUAUGUACAAAGCUAUUUUCAGAGUAAGCAAUAUUUACUAUGGCGAAGUACAUUGCUUUAUUUUUCCGAACAGACAAACUUCUUUAGGUGCAACUUUAUUUCGCCUCCAUUAUUCGUUUUCUAAAUAAAAACGAGGCAUAAAAGUGUAAAUGUUUUUCGCAAACACAUCUAUCGUAUAACUGUUUAAUUAUCAGGGUU ...(((((......((((((.....(((((.......(((((((.((((((..((((((..........))))))))))))))).))))........(((((.(((........................((((((((((...))).)))))))..((((.((((((.((.(((((.....((((((((((.......((((((.((((((...(((((......((((((.....)))))))))))...))))))))))))........))).))).))))......))))))).))...)))).))))......))).)))))..........)))))....))))))...(((((.....)))))...........................))))). (-73.76) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AACCCUGAUAAUUAAACAGUUAUACGAUAGAUGUGUUUGCGAAAAACAUUUACACUUUUAUGCCUCGUUUUUAUUUAGAAAACGAAUAAUGGAGGCGAAAUAAAGUUGCACCUAAAGAAGUUUGUCUGUUCGGAAAAAUAAAGCAAUGUACUUCGCCAUAGUAAAUAUUGCUUACUCUGAAAAUAGCUUUGUACAUAUACUUUUAACGAUGAAAGAAAACGAAAAAGAUGACAGCUUUUCUCCUCUUUUGAUAGGUACUGAAUACUAUCAACUUUAUUUUUGUCUUAUAGAUUUGUCGGUUUCCUUUUUUUUUCCUACUUUUGUAUUUCUCUAUUGGUUAUAAGAAAAUGAUACAACAAGAAGAUAUUAGAAAGGCGGUUGAAGUGUUGCAAAAGGGUGGG .(((((........((((.((...((((((((.(((..(((((((...................((((((((.....)))))))).....(((((.((((...(((((((.((...((((((......((((((......((((((((((((.......)))..)))))))))..))))))...)))))).........((((((....))))))..........)).)).))))))))).))))).(((((((..........))))))).....)))))))...))).))))))))....(((((((..(..((.((((((((((......(((....)))......))))))).))).))..)..)))))))......)).)))).....)))))... (-84.92) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 421 388 344 110 65 pint:PI1437|5end_hypothetical_protein_1356088..1356318_POSITIVE 410 388 341 180 133 pint:PI0096|5end_glycerol-3-phosphate_cytidylyltransferase_91885..92115_POSITIVE 351 373 332 156 108 pint:PI0695|5end_xanthine/uracil_permease_family_protein_631413..631643_POSITIVE 346 378 331 133 73 pint:PI0653|5end_hypothetical_protein_596046..596276_POSITIVE 319 387 345 185 141 pint:PI1272|5end_possible_transcriptional_regulator_1191702..1191932_POSITIVE 317 386 341 118 69 pint:PI0024|5end_hypothetical_protein_28378..28608_POSITIVE 312 365 325 206 165 pint:PI2030|5end_hypothetical_protein_1985601..1985831_POSITIVE 310 373 335 194 148 pint:PI0038|5end_transcriptional_regulator,_LysR_family_39578..39808_POSITIVE 305 48 2 83 21 pint:PI1496|5end_nucleoside_phosphorylase_1417116..1417346_POSITIVE 305 388 348 218 178 pint:PI1309|5end_excinuclease_ABC,_A_subunit_1223751..1223981_POSITIVE 303 366 333 230 194 pint:PI1787|5end_conserved_hypothetical_protein_1718414..1718644_POSITIVE 298 48 4 207 150 pint:PI0117|5end_ribonuclease_HI_110731..110961_POSITIVE 292 380 332 231 184 pint:PI1456|5end_conserved_hypothetical_protein_1378864..1379094_POSITIVE 292 400 351 57 8 pint:PI1371|5end_hypothetical_protein_1292359..1292589_POSITIVE 291 321 290 45 11 pint:PI1050|5end_conserved_hypothetical_protein_967246..967476_POSITIVE 287 379 331 174 124 pint:PI0090|5end_amidophosphoribosyltransferase_88379..88609_POSITIVE 281 379 332 131 81 pint:PI0561|5end_hypothetical_protein_508952..509182_POSITIVE 280 368 335 123 88 pint:PI1333|5end_conserved_hypothetical_protein_1250777..1251007_POSITIVE 278 365 331 187 152 pint:PI0324|5end_conserved_hypothetical_protein_303735..303965_POSITIVE 275 376 331 151 108 pint:PI1890|5end_cell_division_protein_FtsW_1832886..1833116_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 410 388 341 65 18 pint:PI0095|3end_hypothetical_protein_91850..92000_POSITIVE 383 380 335 69 17 pint:PI0866|3end_hypothetical_protein_803993..804143_POSITIVE 363 386 341 130 79 pint:PI0926|3end_hypothetical_protein_857047..857197_POSITIVE 361 380 335 82 35 pint:PI1072|3end_hypothetical_protein_990503..990653_POSITIVE 359 388 344 77 32 pint:PI1005|3end_hypothetical_protein_926481..926631_POSITIVE 350 379 333 131 80 pint:PI1786|3end_hypothetical_protein_1718380..1718530_POSITIVE 305 388 348 104 64 pint:PI1308|3end_hypothetical_protein_1223717..1223867_POSITIVE 301 368 335 145 106 pint:PI0037|3end_hypothetical_protein_39616..39766_POSITIVE 291 321 290 60 26 pint:PI1049|3end_hypothetical_protein_967341..967491_POSITIVE 290 380 331 57 8 pint:PI0815|3end_hypothetical_protein_754677..754827_POSITIVE 287 379 331 70 20 pint:PI0089|3end_hypothetical_protein_88355..88505_POSITIVE 284 388 348 93 53 pint:PI0902|3end_hypothetical_protein_832580..832730_POSITIVE 284 375 331 91 47 pint:PI0069|3end_hypothetical_protein_67379..67529_POSITIVE 278 400 351 116 67 pint:PI1064|3end_hypothetical_protein_983324..983474_POSITIVE 277 388 344 77 30 pint:PI0820|3end_hypothetical_protein_759980..760130_POSITIVE 275 270 222 111 63 pint:PI1108|3end_conserved_hypothetical_protein_1032693..1032843_POSITIVE 264 288 246 141 93 pint:PI0653|3end_hypothetical_protein_596236..596386_POSITIVE 263 59 12 151 100 pint:PI1550|3end_conserved_hypothetical_protein_1467703..1467853_POSITIVE 257 365 327 151 112 pint:PI1436|3end_hypothetical_protein_1356232..1356382_POSITIVE 253 386 348 150 112 pint:PI1371|3end_hypothetical_protein_1292546..1292696_POSITIVE