Origin IGS: taggttttgtaaagtgttgatagataatgagttatctaatagataatctttgaaaaaatatttacactttctttatctgttttcaacctataaaataaagaatacaagggcagcgataaagaagatagaaagatgctttctattcgggaaaatgaaacgatgtgtttgtttacattgagtttttacagtcttgcagagcagtctacacgaaacgatagagtaggctttatgttgtaaaataagacatattgtcatatttatgtgtcattatggcagaacgtttacattggtatgggtattgcaatatacttggtgtaaaaaatacaaacatataaattaataggaggaaaagatt .........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 aatcttttcctcctattaatttatatgtttgtattttttacaccaagtatattgcaatacccataccaatgtaaacgttctgccataatgacacataaatatgacaatatgtcttattttacaacataaagcctactctatcgtttcgtgtagactgctctgcaagactgtaaaaactcaatgtaaacaaacacatcgtttcattttcccgaatagaaagcatctttctatcttctttatcgctgcccttgtattctttattttataggttgaaaacagataaagaaagtgtaaatattttttcaaagattatctattagataactcattatctatcaacactttacaaaaccta Mask Tandem Repeat Region ================================================ taggttttgtaaagtgttgatagataatgagttatctaatagataatctttgaaaaaatatttacactttctttatctgttttcaacctataaaataaagaatacaagggcagcgataaagaagatagaaagatgctttctattcgggaaaatgaaacgatgtgtttgtttacattgagtttttacagtcttgcagagcagtctacacgaaacgatagagtaggctttatgttgtaaaataagacatattgtcatatttatgtgtcattatggcagaacgtttacattggtatgggtattgcaatatacttggtgtaaaaaatacaaacatataaattaataggaggaaaagatt Find is-nt database================================================ Query_seq: PI0638:PI0639|PI0638:PI0639:hypothetical protein:small heat shock protein:->->:582463..582817 355 taggttttgtaaagtgttgatagataatgagttatctaatagataatctttgaaaaaatatttacactttctttatctgttttcaacctataaaataaagaatacaagggcagcgataaagaagatagaaagatgctttctattcgggaaaatgaaacgatgtgtttgtttacattgagtttttacagtcttgcagagcagtctacacgaaacgatagagtaggctttatgttgtaaaataagacatattgtcatatttatgtgtcattatggcagaacgtttacattggtatgggtattgcaatatacttggtgtaaaaaatacaaacatataaattaataggaggaaaagatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0638:PI0639|PI0638:PI0639:hypothetical protein:small heat shock protein:->->:582463..582817 355 taggttttgtaaagtgttgatagataatgagttatctaatagataatctttgaaaaaatatttacactttctttatctgttttcaacctataaaataaagaatacaagggcagcgataaagaagatagaaagatgctttctattcgggaaaatgaaacgatgtgtttgtttacattgagtttttacagtcttgcagagcagtctacacgaaacgatagagtaggctttatgttgtaaaataagacatattgtcatatttatgtgtcattatggcagaacgtttacattggtatgggtattgcaatatacttggtgtaaaaaatacaaacatataaattaataggaggaaaagatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0638:PI0639|PI0638:PI0639:hypothetical protein:small heat shock protein:->->:582463..582817 355 taggttttgtaaagtgttgatagataatgagttatctaatagataatctttgaaaaaatatttacactttctttatctgttttcaacctataaaataaagaatacaagggcagcgataaagaagatagaaagatgctttctattcgggaaaatgaaacgatgtgtttgtttacattgagtttttacagtcttgcagagcagtctacacgaaacgatagagtaggctttatgttgtaaaataagacatattgtcatatttatgtgtcattatggcagaacgtttacattggtatgggtattgcaatatacttggtgtaaaaaatacaaacatataaattaataggaggaaaagatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taggttttgtaaagtgttgatagataatgagttatctaatagataatctttgaaaaaatatttacactttctttatctgttttcaacctataaaataaagaatacaagggcagcgataaagaagatagaaagatgctttctattcgggaaaatgaaacgatgtgtttgtttacattgagtttttacagtcttgcagagcagtctacacgaaacgatagagtaggctttatgttgtaaaataagacatattgtcatatttatgtgtcattatggcagaacgtttacattggtatgggtattgcaatatacttggtgtaaaaaatacaaacatataaattaataggaggaaaagatt Predict ORF larger than 30AA ================================================ Protein_Len: 42 Strand: + Start: 50 End: 175 ................................................. M K K Y L H F L Y L F S T Y K I K N T R A A I K K I E R C F L F G K M K R C V C L H .................................................................................................................................................................................... Protein_Len: 34 Strand: + Start: 133 End: 234 .................................................................................................................................... M L S I R E N E T M C L F T L S F Y S L A E Q S T R N D R V G F M L ......................................................................................................................... Protein_Len: 33 Strand: + Start: 239 End: 337 .............................................................................................................................................................................................................................................. M R H I V I F M C H Y G R T F T L V W V L Q Y T W C K K Y K H I N .................. Protein_Len: 36 Strand: - Start: 230 End: 337 ..................................................................................................................................................................................................................................... T T F Y S M N D Y K H T M I A S R K C Q Y P Y Q L I S P T F F V F M Y M .................. Protein_Len: 57 Strand: - Start: 91 End: 261 .......................................................................................... L I F F V L A A I F F I S L H K R N P F I F R H T Q K C Q T K V T K C L L R C S V I S Y A K H Q L I L C I T M N M .............................................................................................. Protein_Len: 41 Strand: - Start: 39 End: 161 ...................................... Y I I K S F I N V S E K D T K L R Y F L S Y L P L S L S S L F I S E I R S F S V M .................................................................................................................................................................................................. taggttttgtaaagtgttgatagataatgagttatctaatagataatctttgaaaaaatatttacactttctttatctgttttcaacctataaaataaagaatacaagggcagcgataaagaagatagaaagatgctttctattcgggaaaatgaaacgatgtgtttgtttacattgagtttttacagtcttgcagagcagtctacacgaaacgatagagtaggctttatgttgtaaaataagacatattgtcatatttatgtgtcattatggcagaacgtttacattggtatgggtattgcaatatacttggtgtaaaaaatacaaacatataaattaataggaggaaaagatt 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================================================ PromScan Matrix: RpoN Strand: + Score: 84 Start: 287 End: 303 ..............................................................................................................................................................................................................................................................................................TTGGTATGGGTATTGCA.................................................... taggttttgtaaagtgttgatagataatgagttatctaatagataatctttgaaaaaatatttacactttctttatctgttttcaacctataaaataaagaatacaagggcagcgataaagaagatagaaagatgctttctattcgggaaaatgaaacgatgtgtttgtttacattgagtttttacagtcttgcagagcagtctacacgaaacgatagagtaggctttatgttgtaaaataagacatattgtcatatttatgtgtcattatggcagaacgtttacattggtatgggtattgcaatatacttggtgtaaaaaatacaaacatataaattaataggaggaaaagatt Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 74 HP_score: -8.1 Tail_Score: -3.63766 Start: 126 End: 142 Full_Region: tttcattttcccgaa tagaaag cat ctttcta tcttctttatcgctg .............................................................................................................................tagaaagcatctttcta..................................................................................................................................................................................................................... Find igs database================================================ Query_seq: PI0638:PI0639|PI0638:PI0639:hypothetical protein:small heat shock protein:->->:582463..582817 355 taggttttgtaaagtgttgatagataatgagttatctaatagataatctttgaaaaaatatttacactttctttatctgttttcaacctataaaataaagaatacaagggcagcgataaagaagatagaaagatgctttctattcgggaaaatgaaacgatgtgtttgtttacattgagtttttacagtcttgcagagcagtctacacgaaacgatagagtaggctttatgttgtaaaataagacatattgtcatatttatgtgtcattatggcagaacgtttacattggtatgggtattgcaatatacttggtgtaaaaaatacaaacatataaattaataggaggaaaagatt Intra-Species Hit: Count: 1 Min: 1 Max: 355 Len: 355 Subject: pint_PI0638_PI0639|hypothetical protein:small heat shock protein|POSITIVE:POSITIVE|[582463,582817]|355 HSP 1 e-value: 0.0 bit: 704.0 Len: 355 Query Start:1 Query End:355 Subject Strand: POSITIVE Subject Start: 1 Subject End: 355 taggttttgtaaagtgttgatagataatgagttatctaatagataatctttgaaaaaatatttacactttctttatctgttttcaacctataaaataaagaatacaagggcagcgataaagaagatagaaagatgctttctattcgggaaaatgaaacgatgtgtttgtttacattgagtttttacagtcttgcagagcagtctacacgaaacgatagagtaggctttatgttgtaaaataagacatattgtcatatttatgtgtcattatggcagaacgtttacattggtatgggtattgcaatatacttggtgtaaaaaatacaaacatataaattaataggaggaaaagatt taggttttgtaaagtgttgatagataatgagttatctaatagataatctttgaaaaaatatttacactttctttatctgttttcaacctataaaataaagaatacaagggcagcgataaagaagatagaaagatgctttctattcgggaaaatgaaacgatgtgtttgtttacattgagtttttacagtcttgcagagcagtctacacgaaacgatagagtaggctttatgttgtaaaataagacatattgtcatatttatgtgtcattatggcagaacgtttacattggtatgggtattgcaatatacttggtgtaaaaaatacaaacatataaattaataggaggaaaagatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGGUUUUGUAAAGUGUUGAUAGAUAAUGAGUUAUCUAAUAGAUAAUCUUUGAAAAAAUAUUUACACUUUCUUUAUCUGUUUUCAACCUAUAAAAUAAAGAAUACAAGGGCAGCGAUAAAGAAGAUAGAAAGAUGCUUUCUAUUCGGGAAAAUGAAACGAUGUGUUUGUUUACAUUGAGUUUUUACAGUCUUGCAGAGCAGUCUACACGAAACGAUAGAGUAGGCUUUAUGUUGUAAAAUAAGACAUAUUGUCAUAUUUAUGUGUCAUUAUGGCAGAACGUUUACAUUGGUAUGGGUAUUGCAAUAUACUUGGUGUAAAAAAUACAAACAUAUAAAUUAAUAGGAGGAAAAGAUU (((((...(.(((((((.((((......((((((((.....))))).)))........)))).))))))))...)))))(((((..(((((........(((((..((((((.(.................).)))))).)))))..............((((((((((((((((..((((((((((.....(((....(((((((.(.........).)))))))...))))))))))...(((((((..........)))))))......((((.((.(.(((....))).).)).)))).....)))..)))))).....))))))))))......)))))..))))).... (-75.77) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUCUUUUCCUCCUAUUAAUUUAUAUGUUUGUAUUUUUUACACCAAGUAUAUUGCAAUACCCAUACCAAUGUAAACGUUCUGCCAUAAUGACACAUAAAUAUGACAAUAUGUCUUAUUUUACAACAUAAAGCCUACUCUAUCGUUUCGUGUAGACUGCUCUGCAAGACUGUAAAAACUCAAUGUAAACAAACACAUCGUUUCAUUUUCCCGAAUAGAAAGCAUCUUUCUAUCUUCUUUAUCGCUGCCCUUGUAUUCUUUAUUUUAUAGGUUGAAAACAGAUAAAGAAAGUGUAAAUAUUUUUUCAAAGAUUAUCUAUUAGAUAACUCAUUAUCUAUCAACACUUUACAAAACCUA (((((((..................((((((((((((((((......(((((((............)))))))...((..(((....(((......(((((.(((.....))).))))).....)))..(((....(((((........)))))..)))..)))..)).))))))....)))))))))).((((..................((((((((...)))))))).(((((((((......((((((..........)))))).........))))))))).))))............)))))))......(((((((....))))))).................... (-50.26) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 322 160 111 133 78 pint:PI0670|5end_hypothetical_protein_611000..611230_POSITIVE 322 160 111 57 2 pint:PI0669|5end_hypothetical_protein_610924..611154_POSITIVE 318 35 1 84 50 pint:PI1356|5end_hypothetical_protein_1273162..1273392_POSITIVE 310 45 1 117 80 pint:PI2144|5end_hypothetical_protein_2091954..2092184_POSITIVE 308 50 1 113 64 pint:PI0200|5end_hypothetical_protein_191545..191775_POSITIVE 306 149 108 45 4 pint:PI2095|5end_hypothetical_protein_2049195..2049425_POSITIVE 306 50 1 124 75 pint:PI1666|5end_conserved_hypothetical_protein_1579231..1579461_POSITIVE 298 218 179 94 50 pint:PI1601|5end_hypothetical_protein_1530282..1530512_POSITIVE 298 234 193 175 121 pint:PI1187|5end_conserved_hypothetical_protein_1106692..1106922_POSITIVE 298 229 191 217 169 pint:PI0822|5end_tRNA_delta(2)-isopentenylpyrophosphate_transferase_761028..761258_POSITIVE 298 148 104 154 96 pint:PI0640|5end_conserved_hypothetical_protein_583289..583519_POSITIVE 295 35 1 126 92 pint:PI1934|5end_hypothetical_protein_1882363..1882593_POSITIVE 292 222 187 93 55 pint:PI0604|5end_O-succinylbenzoic_acid--CoA_ligase_550825..551055_POSITIVE 291 149 110 40 3 pint:PI2093|5end_hypothetical_protein_2049190..2049420_POSITIVE 291 226 190 192 155 pint:PI2029|5end_DNA_topoisomerase_I_1982775..1983005_POSITIVE 290 50 1 113 64 pint:PI2131|5end_hypothetical_protein_2080678..2080908_POSITIVE 288 42 1 94 53 pint:PI1057|5end_hypothetical_protein_977286..977516_POSITIVE 286 141 101 123 79 pint:PI1071|5end_DNA_topoisomerase_III_988290..988520_POSITIVE 283 210 172 193 148 pint:PI1891|5end_hypothetical_protein_1835196..1835426_POSITIVE 280 160 112 206 157 pint:PI1905|5end_hypothetical_protein_1847628..1847858_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 346 50 1 92 43 pint:PI1051|3end_hypothetical_protein_970228..970378_POSITIVE 310 45 1 57 20 pint:PI2143|3end_DNA_mismatch_repair_protein_2091974..2092124_POSITIVE 303 46 1 65 27 pint:PI1391|3end_hypothetical_protein_1311694..1311844_POSITIVE 298 169 124 78 33 pint:PI1688|3end_possible_GTPase_1603903..1604053_POSITIVE 291 226 190 139 102 pint:PI2028|3end_shikimate_kinase_1982802..1982952_POSITIVE 290 50 1 66 17 pint:PI2130|3end_DNA_polymerase_I_2080711..2080861_POSITIVE 286 141 101 54 10 pint:PI1070|3end_peptidoglycan-associated_lipoprotein_988301..988451_POSITIVE 277 200 153 47 2 pint:PI0519|3end_5'-nucleotidase/2',3'-cyclic_phosphodiesterase_478809..478959_POSITIVE 271 97 51 82 37 pint:PI1485|3end_hypothetical_protein_1405339..1405489_POSITIVE 267 148 108 95 54 pint:PI1529|3end_cytosine/adenosine_deaminase_1450377..1450527_POSITIVE 266 150 105 45 6 pint:PI0223|3end_topoisomerase_IA_220583..220733_POSITIVE 265 230 187 144 96 pint:PI2032|3end_RNA_polymerase_sigma_factor,_ECF_subfamily_1987121..1987271_POSITIVE 265 141 102 68 23 pint:PI0870|3end_branched-chain_amino_acid_aminotransferase_806894..807044_POSITIVE 265 50 1 96 47 pint:PI0688|3end_hypothetical_protein_625750..625900_POSITIVE 264 172 131 137 93 pint:PI0839|3end_conserved_hypothetical_protein_774210..774360_POSITIVE 263 149 102 96 38 pint:PI1966|3end_conserved_hypothetical_protein_1924091..1924241_POSITIVE 263 50 1 54 5 pint:PI1600|3end_conserved_hypothetical_protein_1530275..1530425_POSITIVE 262 149 110 109 60 pint:PI1284|3end_ATP_synthase,_delta_subunit_1200323..1200473_POSITIVE 262 237 191 57 11 pint:PI0003|3end_pseudouridylate_synthase_6044..6194_POSITIVE 261 160 113 49 1 pint:PI1904|3end_glutamine_synthetase_1847551..1847701_POSITIVE