Origin IGS: taaagagtgtttaaaaataacttttactgtacgctctttactattaaaaaatgcataaaagtgtttctcgaaaaaagctaagctgaattgatgaaatagatttgtggaacaaagaaaaaggcgattattctgcgataaaaatatttttattttgccaaacctacgctttgagaatgcaaaacaatagcttttgtcgagtaaaaacgtaggtttggtgttgcaagacaatagcttttataaggcaatttagttttatacgttacatttattgttctttttacgaacactttccttgcatttcgttgcacaaaattaccatattcgaatacaatatattgatacacagaatgttattgctacacataaatgctgcgattatttacaaataattattctttcacgcaaaaaagccgccttcctgccattgtttcacgcttgttttttaacagataggggctttaattcatatattattaagattttataacattagtatttccaactgacaaatgttttataaatcagataataaaatagcaattacaattttaaaattatcagtcctcctttacta .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tagtaaaggaggactgataattttaaaattgtaattgctattttattatctgatttataaaacatttgtcagttggaaatactaatgttataaaatcttaataatatatgaattaaagcccctatctgttaaaaaacaagcgtgaaacaatggcaggaaggcggcttttttgcgtgaaagaataattatttgtaaataatcgcagcatttatgtgtagcaataacattctgtgtatcaatatattgtattcgaatatggtaattttgtgcaacgaaatgcaaggaaagtgttcgtaaaaagaacaataaatgtaacgtataaaactaaattgccttataaaagctattgtcttgcaacaccaaacctacgtttttactcgacaaaagctattgttttgcattctcaaagcgtaggtttggcaaaataaaaatatttttatcgcagaataatcgcctttttctttgttccacaaatctatttcatcaattcagcttagcttttttcgagaaacacttttatgcattttttaatagtaaagagcgtacagtaaaagttatttttaaacactcttta Mask Tandem Repeat Region ================================================ taaagagtgtttaaaaataacttttactgtacgctctttactattaaaaaatgcataaaagtgtttctcgaaaaaagctaagctgaattgatgaaatagatttgtggaacaaagaaaaaggcgattattctgcgataaaaatatttttattttgccaaacctacgctttgagaatgcaaaacaatagcttttgtcgagtaaaaacgtaggtttggtgttgcaagacaatagcttttataaggcaatttagttttatacgttacatttattgttctttttacgaacactttccttgcatttcgttgcacaaaattaccatattcgaatacaatatattgatacacagaatgttattgctacacataaatgctgcgattatttacaaataattattctttcacgcaaaaaagccgccttcctgccattgtttcacgcttgttttttaacagataggggctttaattcatatattattaagattttataacattagtatttccaactgacaaatgttttataaatcagataataaaatagcaattacaattttaaaattatcagtcctcctttacta Find is-nt database================================================ Query_seq: PI0014:PI0015|PI0014:PI0015:hypothetical protein:possible transport protein:->->:17978..18551 574 taaagagtgtttaaaaataacttttactgtacgctctttactattaaaaaatgcataaaagtgtttctcgaaaaaagctaagctgaattgatgaaatagatttgtggaacaaagaaaaaggcgattattctgcgataaaaatatttttattttgccaaacctacgctttgagaatgcaaaacaatagcttttgtcgagtaaaaacgtaggtttggtgttgcaagacaatagcttttataaggcaatttagttttatacgttacatttattgttctttttacgaacactttccttgcatttcgttgcacaaaattaccatattcgaatacaatatattgatacacagaatgttattgctacacataaatgctgcgattatttacaaataattattctttcacgcaaaaaagccgccttcctgccattgtttcacgcttgttttttaacagataggggctttaattcatatattattaagattttataacattagtatttccaactgacaaatgttttataaatcagataataaaatagcaattacaattttaaaattatcagtcctcctttacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0014:PI0015|PI0014:PI0015:hypothetical protein:possible transport protein:->->:17978..18551 574 taaagagtgtttaaaaataacttttactgtacgctctttactattaaaaaatgcataaaagtgtttctcgaaaaaagctaagctgaattgatgaaatagatttgtggaacaaagaaaaaggcgattattctgcgataaaaatatttttattttgccaaacctacgctttgagaatgcaaaacaatagcttttgtcgagtaaaaacgtaggtttggtgttgcaagacaatagcttttataaggcaatttagttttatacgttacatttattgttctttttacgaacactttccttgcatttcgttgcacaaaattaccatattcgaatacaatatattgatacacagaatgttattgctacacataaatgctgcgattatttacaaataattattctttcacgcaaaaaagccgccttcctgccattgtttcacgcttgttttttaacagataggggctttaattcatatattattaagattttataacattagtatttccaactgacaaatgttttataaatcagataataaaatagcaattacaattttaaaattatcagtcctcctttacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0014:PI0015|PI0014:PI0015:hypothetical protein:possible transport protein:->->:17978..18551 574 taaagagtgtttaaaaataacttttactgtacgctctttactattaaaaaatgcataaaagtgtttctcgaaaaaagctaagctgaattgatgaaatagatttgtggaacaaagaaaaaggcgattattctgcgataaaaatatttttattttgccaaacctacgctttgagaatgcaaaacaatagcttttgtcgagtaaaaacgtaggtttggtgttgcaagacaatagcttttataaggcaatttagttttatacgttacatttattgttctttttacgaacactttccttgcatttcgttgcacaaaattaccatattcgaatacaatatattgatacacagaatgttattgctacacataaatgctgcgattatttacaaataattattctttcacgcaaaaaagccgccttcctgccattgtttcacgcttgttttttaacagataggggctttaattcatatattattaagattttataacattagtatttccaactgacaaatgttttataaatcagataataaaatagcaattacaattttaaaattatcagtcctcctttacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaagagtgtttaaaaataacttttactgtacgctctttactattaaaaaatgcataaaagtgtttctcgaaaaaagctaagctgaattgatgaaatagatttgtggaacaaagaaaaaggcgattattctgcgataaaaatatttttattttgccaaacctacgctttgagaatgcaaaacaatagcttttgtcgagtaaaaacgtaggtttggtgttgcaagacaatagcttttataaggcaatttagttttatacgttacatttattgttctttttacgaacactttccttgcatttcgttgcacaaaattaccatattcgaatacaatatattgatacacagaatgttattgctacacataaatgctgcgattatttacaaataattattctttcacgcaaaaaagccgccttcctgccattgtttcacgcttgttttttaacagataggggctttaattcatatattattaagattttataacattagtatttccaactgacaaatgttttataaatcagataataaaatagcaattacaattttaaaattatcagtcctcctttacta Predict ORF larger than 30AA ================================================ Protein_Len: 40 Strand: + Start: 87 End: 206 ...................................................................................... M D E I D L W N K E K G D Y S A I K I F L F C Q T Y A L R M Q N N S F C R V K T ................................................................................................................................................................................................................................................................................................................................................................................ Protein_Len: 53 Strand: + Start: 228 End: 386 ................................................................................................................................................................................................................................... M A F I R Q F S F I R Y I Y C S F Y E H F P C I S L H K I T I F E Y N I L I H R M L L L H I N A A I I Y K ............................................................................................................................................................................................ Protein_Len: 60 Strand: + Start: 269 End: 484 ............................................................................................................................................................................................................................................................................ M F F L R T L S L H F V A Q N Y H I R I Q Y I D T Q N V I A T H K C C D Y L Q I I I L S R K K A A F L P L F H A C F L T .......................................................................................... Protein_Len: 33 Strand: - Start: 281 End: 379 ........................................................................................................................................................................................................................................................................................ S C K G Q M E N C L I V M N S Y L I N I C L I N N S C M F A A I M ................................................................................................................................................................................................... Protein_Len: 31 Strand: - Start: 164 End: 256 ................................................................................................................................................................... A K L I C F L L K Q R T F V Y T Q H Q L V I A K I L C N L K M .............................................................................................................................................................................................................................................................................................................................. Protein_Len: 60 Strand: - Start: 150 End: 344 ..................................................................................................................................................... S Q S H L V I A K T S Y F R L N P T A L C Y S K Y P L K T K Y T V N I T R K V F V K R A N R Q V F N G Y E F V I Y Q Y M ...................................................................................................................................................................................................................................... Protein_Len: 60 Strand: - Start: 1 End: 228 F A Y F H K E F F A L S F Q H F L N T S C L F L R N N Q S L F I K I K G F R R K S F A F C Y S K D L L F T P K T N C S M .......................................................................................................................................................................................................................................................................................................................................................... taaagagtgtttaaaaataacttttactgtacgctctttactattaaaaaatgcataaaagtgtttctcgaaaaaagctaagctgaattgatgaaatagatttgtggaacaaagaaaaaggcgattattctgcgataaaaatatttttattttgccaaacctacgctttgagaatgcaaaacaatagcttttgtcgagtaaaaacgtaggtttggtgttgcaagacaatagcttttataaggcaatttagttttatacgttacatttattgttctttttacgaacactttccttgcatttcgttgcacaaaattaccatattcgaatacaatatattgatacacagaatgttattgctacacataaatgctgcgattatttacaaataattattctttcacgcaaaaaagccgccttcctgccattgtttcacgcttgttttttaacagataggggctttaattcatatattattaagattttataacattagtatttccaactgacaaatgttttataaatcagataataaaatagcaattacaattttaaaattatcagtcctcctttacta 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: 481 End: 510 ................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTTGTCAGTTGGAAATACTAATGTTATAAA................................................................ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ taaagagtgtttaaaaataacttttactgtacgctctttactattaaaaaatgcataaaagtgtttctcgaaaaaagctaagctgaattgatgaaatagatttgtggaacaaagaaaaaggcgattattctgcgataaaaatatttttattttgccaaacctacgctttgagaatgcaaaacaatagcttttgtcgagtaaaaacgtaggtttggtgttgcaagacaatagcttttataaggcaatttagttttatacgttacatttattgttctttttacgaacactttccttgcatttcgttgcacaaaattaccatattcgaatacaatatattgatacacagaatgttattgctacacataaatgctgcgattatttacaaataattattctttcacgcaaaaaagccgccttcctgccattgtttcacgcttgttttttaacagataggggctttaattcatatattattaagattttataacattagtatttccaactgacaaatgttttataaatcagataataaaatagcaattacaattttaaaattatcagtcctcctttacta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0014:PI0015|PI0014:PI0015:hypothetical protein:possible transport protein:->->:17978..18551 574 taaagagtgtttaaaaataacttttactgtacgctctttactattaaaaaatgcataaaagtgtttctcgaaaaaagctaagctgaattgatgaaatagatttgtggaacaaagaaaaaggcgattattctgcgataaaaatatttttattttgccaaacctacgctttgagaatgcaaaacaatagcttttgtcgagtaaaaacgtaggtttggtgttgcaagacaatagcttttataaggcaatttagttttatacgttacatttattgttctttttacgaacactttccttgcatttcgttgcacaaaattaccatattcgaatacaatatattgatacacagaatgttattgctacacataaatgctgcgattatttacaaataattattctttcacgcaaaaaagccgccttcctgccattgtttcacgcttgttttttaacagataggggctttaattcatatattattaagattttataacattagtatttccaactgacaaatgttttataaatcagataataaaatagcaattacaattttaaaattatcagtcctcctttacta Intra-Species Hit: Count: 1 Min: 1 Max: 574 Len: 574 Subject: pint_PI0014_PI0015|hypothetical protein:possible transport protein|POSITIVE:POSITIVE|[17978,18551]|574 HSP 1 e-value: 0.0 bit: 1138.0 Len: 574 Query Start:1 Query End:574 Subject Strand: POSITIVE Subject Start: 1 Subject End: 574 taaagagtgtttaaaaataacttttactgtacgctctttactattaaaaaatgcataaaagtgtttctcgaaaaaagctaagctgaattgatgaaatagatttgtggaacaaagaaaaaggcgattattctgcgataaaaatatttttattttgccaaacctacgctttgagaatgcaaaacaatagcttttgtcgagtaaaaacgtaggtttggtgttgcaagacaatagcttttataaggcaatttagttttatacgttacatttattgttctttttacgaacactttccttgcatttcgttgcacaaaattaccatattcgaatacaatatattgatacacagaatgttattgctacacataaatgctgcgattatttacaaataattattctttcacgcaaaaaagccgccttcctgccattgtttcacgcttgttttttaacagataggggctttaattcatatattattaagattttataacattagtatttccaactgacaaatgttttataaatcagataataaaatagcaattacaattttaaaattatcagtcctcctttacta taaagagtgtttaaaaataacttttactgtacgctctttactattaaaaaatgcataaaagtgtttctcgaaaaaagctaagctgaattgatgaaatagatttgtggaacaaagaaaaaggcgattattctgcgataaaaatatttttattttgccaaacctacgctttgagaatgcaaaacaatagcttttgtcgagtaaaaacgtaggtttggtgttgcaagacaatagcttttataaggcaatttagttttatacgttacatttattgttctttttacgaacactttccttgcatttcgttgcacaaaattaccatattcgaatacaatatattgatacacagaatgttattgctacacataaatgctgcgattatttacaaataattattctttcacgcaaaaaagccgccttcctgccattgtttcacgcttgttttttaacagataggggctttaattcatatattattaagattttataacattagtatttccaactgacaaatgttttataaatcagataataaaatagcaattacaattttaaaattatcagtcctcctttacta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAGAGUGUUUAAAAAUAACUUUUACUGUACGCUCUUUACUAUUAAAAAAUGCAUAAAAGUGUUUCUCGAAAAAAGCUAAGCUGAAUUGAUGAAAUAGAUUUGUGGAACAAAGAAAAAGGCGAUUAUUCUGCGAUAAAAAUAUUUUUAUUUUGCCAAACCUACGCUUUGAGAAUGCAAAACAAUAGCUUUUGUCGAGUAAAAACGUAGGUUUGGUGUUGCAAGACAAUAGCUUUUAUAAGGCAAUUUAGUUUUAUACGUUACAUUUAUUGUUCUUUUUACGAACACUUUCCUUGCAUUUCGUUGCACAAAAUUACCAUAUUCGAAUACAAUAUAUUGAUACACAGAAUGUUAUUGCUACACAUAAAUGCUGCGAUUAUUUACAAAUAAUUAUUCUUUCACGCAAAAAAGCCGCCUUCCUGCCAUUGUUUCACGCUUGUUUUUUAACAGAUAGGGGCUUUAAUUCAUAUAUUAUUAAGAUUUUAUAACAUUAGUAUUUCCAACUGACAAAUGUUUUAUAAAUCAGAUAAUAAAAUAGCAAUUACAAUUUUAAAAUUAUCAGUCCUCCUUUACUA ((((((((((.(((((.....)))))....))))))))))........(((((((..(((((((...(((.((((((..(((((((((((..........((((.....))))...((((((.(((.(..((((((.((((((....))))))((((((((((((.(((......((((((.......))))))......))).))))))))))))))))))..).))).))))))......)))))))))))........(((.....))).)))))).))))))))))...)))))))..................................(((((((...(((((((.(((((((...........((((((((((....))))))..........))))..((((((.(((..(((.........((....))........)))..)))))))))........(((((((..(((((...((((((.((...........)).))))))....))))).)))))))...))))))).)).))))).....)))))))............ (-112.93) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUAAAGGAGGACUGAUAAUUUUAAAAUUGUAAUUGCUAUUUUAUUAUCUGAUUUAUAAAACAUUUGUCAGUUGGAAAUACUAAUGUUAUAAAAUCUUAAUAAUAUAUGAAUUAAAGCCCCUAUCUGUUAAAAAACAAGCGUGAAACAAUGGCAGGAAGGCGGCUUUUUUGCGUGAAAGAAUAAUUAUUUGUAAAUAAUCGCAGCAUUUAUGUGUAGCAAUAACAUUCUGUGUAUCAAUAUAUUGUAUUCGAAUAUGGUAAUUUUGUGCAACGAAAUGCAAGGAAAGUGUUCGUAAAAAGAACAAUAAAUGUAACGUAUAAAACUAAAUUGCCUUAUAAAAGCUAUUGUCUUGCAACACCAAACCUACGUUUUUACUCGACAAAAGCUAUUGUUUUGCAUUCUCAAAGCGUAGGUUUGGCAAAAUAAAAAUAUUUUUAUCGCAGAAUAAUCGCCUUUUUCUUUGUUCCACAAAUCUAUUUCAUCAAUUCAGCUUAGCUUUUUUCGAGAAACACUUUUAUGCAUUUUUUAAUAGUAAAGAGCGUACAGUAAAAGUUAUUUUUAAACACUCUUUA .....((((((....(((((((((...((((((...(((.((((((((((((((..((.....))..)))))...((.((((.((((((((...............((((....(((((((((.(((((((....((....)).......))))))).))).))))))....)))).........................((.((((....)))).)).))))))))..)))).))......((((((..((((......)))).)))))).((((((((..(((((((((((.((((((.........(((((.(((...........))).))))).(((((.((((..(((....(((((((((((((((.........(((((....)))))........)))))))))))))))....((((((....)))))).)))..))))...........((((.....))))................)))))..)))))).)))...)))))))).))))))))...)))))))))))).)))))).)))))))))........)))))). (-120.73) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 459 200 151 134 80 pint:PI0841|5end_hypothetical_protein_775406..775636_POSITIVE 459 200 151 79 25 pint:PI0200|5end_hypothetical_protein_191545..191775_POSITIVE 457 194 151 84 36 pint:PI0755|5end_hypothetical_protein_686691..686921_POSITIVE 439 196 151 79 25 pint:PI0182|5end_hypothetical_protein_174093..174323_POSITIVE 420 187 150 121 79 pint:PI0851|5end_hypothetical_protein_784310..784540_POSITIVE 414 197 157 229 190 pint:PI2111|5end_conserved_hypothetical_protein_2062771..2063001_POSITIVE 405 196 151 79 25 pint:PI1733|5end_hypothetical_protein_1652160..1652390_POSITIVE 392 187 150 231 189 pint:PI0159|5end_hypothetical_protein_151273..151503_POSITIVE 392 187 150 143 101 pint:PI0157|5end_hypothetical_protein_151185..151415_POSITIVE 386 197 151 75 25 pint:PI2131|5end_hypothetical_protein_2080678..2080908_POSITIVE 383 197 152 108 64 pint:PI1604|5end_hypothetical_protein_1534017..1534247_POSITIVE 382 199 153 82 38 pint:PI1346|5end_hypothetical_protein_1260814..1261044_POSITIVE 382 199 153 70 26 pint:PI1129|5end_hypothetical_protein_1055377..1055607_POSITIVE 381 200 151 85 31 pint:PI1829|5end_hypothetical_protein_1769255..1769485_POSITIVE 379 235 191 213 169 pint:PI0024|5end_hypothetical_protein_28378..28608_POSITIVE 377 199 151 208 157 pint:PI0788|5end_3-methyladenine_DNA_glycosylase_(DNA-3-methyladenine_glycosylase_I)_726152..726382_POSITIVE 377 199 151 213 162 pint:PI0771|5end_conserved_hypothetical_protein_706524..706754_POSITIVE 377 199 151 131 80 pint:PI0055|5end_hypothetical_protein_54815..55045_POSITIVE 367 196 151 107 53 pint:PI2002|5end_hypothetical_protein_1960662..1960892_POSITIVE 362 196 153 55 10 pint:PI0061|5end_hypothetical_protein_60500..60730_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 402 196 159 42 1 pint:PI1391|3end_hypothetical_protein_1311694..1311844_POSITIVE 382 199 153 65 21 pint:PI0996|3end_hypothetical_protein_920660..920810_POSITIVE 377 199 151 65 14 pint:PI0054|3end_hypothetical_protein_54829..54979_POSITIVE 376 457 414 74 31 pint:PI1399|3end_hypothetical_protein_1320844..1320994_POSITIVE 357 196 151 125 73 pint:PI1141|3end_hypothetical_protein_1069713..1069863_POSITIVE 347 200 151 62 8 pint:PI0688|3end_hypothetical_protein_625750..625900_POSITIVE 346 196 151 62 8 pint:PI0186|3end_hypothetical_protein_178003..178153_POSITIVE 340 197 151 52 2 pint:PI0669|3end_hypothetical_protein_611147..611297_POSITIVE 328 227 188 149 110 pint:PI0637|3end_hypothetical_protein_582397..582547_POSITIVE 327 200 151 58 4 pint:PI1051|3end_hypothetical_protein_970228..970378_POSITIVE 323 196 153 125 80 pint:PI0759|3end_hypothetical_protein_693998..694148_POSITIVE 318 237 198 138 99 pint:PI0551|3end_hypothetical_protein_502683..502833_POSITIVE 315 226 187 74 43 pint:PI0225|3end_conserved_hypothetical_protein_222759..222909_POSITIVE 314 223 182 150 104 pint:PI0095|3end_hypothetical_protein_91850..92000_POSITIVE 313 436 391 83 32 pint:PI0027|3end_aminopeptidase_C_31756..31906_POSITIVE 295 210 161 151 102 pint:PI1356|3end_hypothetical_protein_1273340..1273490_POSITIVE 291 197 164 38 6 pint:PI1813|3end_hypothetical_protein_1753086..1753236_POSITIVE 284 183 150 150 112 pint:PI1814|3end_hypothetical_protein_1753233..1753383_POSITIVE 284 183 150 150 112 pint:PI1340|3end_hypothetical_protein_1256872..1257022_POSITIVE 284 183 150 150 112 pint:PI0689|3end_hypothetical_protein_625877..626027_POSITIVE