Origin IGS: taagtttgtcaagcggaggatgttatataaattaagtgactggttgatagtaacctaatttatagaacttctctaagaataacttaagagttttccccgtttcatctatagattcaagcgggttatgggggaattcgaagagtatcatacgaaccatctgggacaaaagatgctatagcttgcggcaaatgggaatgagtttatatcacagatacctataaaggagtgtaagtataaattataatgagcgagatatctgtcactgcttctttgcctatgagcctgagattattcttcaaaggaatgtccagcaaataacgatgaagcaataaaagaagaaagacaaatgtagttactgcgtagtataattatttcgagcactttactacatgcaaatcttttccctttcaccgttttatccttactgtagttatgtagtaagataatatcaatgaaagagaaaagatatcaaataatca .........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 tgattatttgatatcttttctctttcattgatattatcttactacataactacagtaaggataaaacggtgaaagggaaaagatttgcatgtagtaaagtgctcgaaataattatactacgcagtaactacatttgtctttcttcttttattgcttcatcgttatttgctggacattcctttgaagaataatctcaggctcataggcaaagaagcagtgacagatatctcgctcattataatttatacttacactcctttataggtatctgtgatataaactcattcccatttgccgcaagctatagcatcttttgtcccagatggttcgtatgatactcttcgaattcccccataacccgcttgaatctatagatgaaacggggaaaactcttaagttattcttagagaagttctataaattaggttactatcaaccagtcacttaatttatataacatcctccgcttgacaaactta Mask Tandem Repeat Region ================================================ taagtttgtcaagcggaggatgttatataaattaagtgactggttgatagtaacctaatttatagaacttctctaagaataacttaagagttttccccgtttcatctatagattcaagcgggttatgggggaattcgaagagtatcatacgaaccatctgggacaaaagatgctatagcttgcggcaaatgggaatgagtttatatcacagatacctataaaggagtgtaagtataaattataatgagcgagatatctgtcactgcttctttgcctatgagcctgagattattcttcaaaggaatgtccagcaaataacgatgaagcaataaaagaagaaagacaaatgtagttactgcgtagtataattatttcgagcactttactacatgcaaatcttttccctttcaccgttttatccttactgtagttatgtagtaagataatatcaatgaaagagaaaagatatcaaataatca Find is-nt database================================================ Query_seq: PI1558:PI1559|PI1558:PI1559:conserved hypothetical protein:hypothetical protein:->->:1476167..1476645 479 taagtttgtcaagcggaggatgttatataaattaagtgactggttgatagtaacctaatttatagaacttctctaagaataacttaagagttttccccgtttcatctatagattcaagcgggttatgggggaattcgaagagtatcatacgaaccatctgggacaaaagatgctatagcttgcggcaaatgggaatgagtttatatcacagatacctataaaggagtgtaagtataaattataatgagcgagatatctgtcactgcttctttgcctatgagcctgagattattcttcaaaggaatgtccagcaaataacgatgaagcaataaaagaagaaagacaaatgtagttactgcgtagtataattatttcgagcactttactacatgcaaatcttttccctttcaccgttttatccttactgtagttatgtagtaagataatatcaatgaaagagaaaagatatcaaataatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1558:PI1559|PI1558:PI1559:conserved hypothetical protein:hypothetical protein:->->:1476167..1476645 479 taagtttgtcaagcggaggatgttatataaattaagtgactggttgatagtaacctaatttatagaacttctctaagaataacttaagagttttccccgtttcatctatagattcaagcgggttatgggggaattcgaagagtatcatacgaaccatctgggacaaaagatgctatagcttgcggcaaatgggaatgagtttatatcacagatacctataaaggagtgtaagtataaattataatgagcgagatatctgtcactgcttctttgcctatgagcctgagattattcttcaaaggaatgtccagcaaataacgatgaagcaataaaagaagaaagacaaatgtagttactgcgtagtataattatttcgagcactttactacatgcaaatcttttccctttcaccgttttatccttactgtagttatgtagtaagataatatcaatgaaagagaaaagatatcaaataatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1558:PI1559|PI1558:PI1559:conserved hypothetical protein:hypothetical protein:->->:1476167..1476645 479 taagtttgtcaagcggaggatgttatataaattaagtgactggttgatagtaacctaatttatagaacttctctaagaataacttaagagttttccccgtttcatctatagattcaagcgggttatgggggaattcgaagagtatcatacgaaccatctgggacaaaagatgctatagcttgcggcaaatgggaatgagtttatatcacagatacctataaaggagtgtaagtataaattataatgagcgagatatctgtcactgcttctttgcctatgagcctgagattattcttcaaaggaatgtccagcaaataacgatgaagcaataaaagaagaaagacaaatgtagttactgcgtagtataattatttcgagcactttactacatgcaaatcttttccctttcaccgttttatccttactgtagttatgtagtaagataatatcaatgaaagagaaaagatatcaaataatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taagtttgtcaagcggaggatgttatataaattaagtgactggttgatagtaacctaatttatagaacttctctaagaataacttaagagttttccccgtttcatctatagattcaagcgggttatgggggaattcgaagagtatcatacgaaccatctgggacaaaagatgctatagcttgcggcaaatgggaatgagtttatatcacagatacctataaaggagtgtaagtataaattataatgagcgagatatctgtcactgcttctttgcctatgagcctgagattattcttcaaaggaatgtccagcaaataacgatgaagcaataaaagaagaaagacaaatgtagttactgcgtagtataattatttcgagcactttactacatgcaaatcttttccctttcaccgttttatccttactgtagttatgtagtaagataatatcaatgaaagagaaaagatatcaaataatca Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: + Start: 108 End: 218 ........................................................................................................... M D S S G L W G N S K S I I R T I W D K R C Y S L R Q M G M S L Y H R Y L ..................................................................................................................................................................................................................................................................... Protein_Len: 32 Strand: + Start: 234 End: 329 ......................................................................................................................................................................................................................................... M N Y N E R D I C H C F F A Y E P E I I L Q R N V Q Q I T M K Q ...................................................................................................................................................... Protein_Len: 54 Strand: - Start: 292 End: 453 ................................................................................................................................................................................................................................................................................................... E E F S H G A F L S S A I F S S L C I Y N S R L I I I E L V K S C A F R K G K V T K D K S Y N H L L I I D M .......................... Protein_Len: 37 Strand: - Start: 219 End: 329 .......................................................................................................................................................................................................................... L P T Y T Y I I I L S I D T V A E K G I L R L N N K L P I D L L Y R H L M ...................................................................................................................................................... Protein_Len: 44 Strand: - Start: 35 End: 166 .................................. T V P Q Y Y G L K Y F K E L F L K L T K G T E D I S E L P N H P F E F L I M R V M Q S M ......................................................................................................................................................................................................................................................................................................................... taagtttgtcaagcggaggatgttatataaattaagtgactggttgatagtaacctaatttatagaacttctctaagaataacttaagagttttccccgtttcatctatagattcaagcgggttatgggggaattcgaagagtatcatacgaaccatctgggacaaaagatgctatagcttgcggcaaatgggaatgagtttatatcacagatacctataaaggagtgtaagtataaattataatgagcgagatatctgtcactgcttctttgcctatgagcctgagattattcttcaaaggaatgtccagcaaataacgatgaagcaataaaagaagaaagacaaatgtagttactgcgtagtataattatttcgagcactttactacatgcaaatcttttccctttcaccgttttatccttactgtagttatgtagtaagataatatcaatgaaagagaaaagatatcaaataatca 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================================================ taagtttgtcaagcggaggatgttatataaattaagtgactggttgatagtaacctaatttatagaacttctctaagaataacttaagagttttccccgtttcatctatagattcaagcgggttatgggggaattcgaagagtatcatacgaaccatctgggacaaaagatgctatagcttgcggcaaatgggaatgagtttatatcacagatacctataaaggagtgtaagtataaattataatgagcgagatatctgtcactgcttctttgcctatgagcctgagattattcttcaaaggaatgtccagcaaataacgatgaagcaataaaagaagaaagacaaatgtagttactgcgtagtataattatttcgagcactttactacatgcaaatcttttccctttcaccgttttatccttactgtagttatgtagtaagataatatcaatgaaagagaaaagatatcaaataatca Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 55 HP_score: -4.7 Tail_Score: -3.49475 Start: 22 End: 68 Full_Region: TGTCAAGCGGAGGAT GTTATATAAATTAAGTGACTG GTTGA TAGTAACCTAATTTATAGAAC TTCTCTAAGAATAAC .....................GTTATATAAATTAAGTGACTGGTTGATAGTAACCTAATTTATAGAAC........................................................................................................................................................................................................................................................................................................................................................................................................................... Find igs database================================================ Query_seq: PI1558:PI1559|PI1558:PI1559:conserved hypothetical protein:hypothetical protein:->->:1476167..1476645 479 taagtttgtcaagcggaggatgttatataaattaagtgactggttgatagtaacctaatttatagaacttctctaagaataacttaagagttttccccgtttcatctatagattcaagcgggttatgggggaattcgaagagtatcatacgaaccatctgggacaaaagatgctatagcttgcggcaaatgggaatgagtttatatcacagatacctataaaggagtgtaagtataaattataatgagcgagatatctgtcactgcttctttgcctatgagcctgagattattcttcaaaggaatgtccagcaaataacgatgaagcaataaaagaagaaagacaaatgtagttactgcgtagtataattatttcgagcactttactacatgcaaatcttttccctttcaccgttttatccttactgtagttatgtagtaagataatatcaatgaaagagaaaagatatcaaataatca Intra-Species Hit: Count: 1 Min: 1 Max: 479 Len: 479 Subject: pint_PI1558_PI1559|conserved hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1476167,1476645]|479 HSP 1 e-value: 0.0 bit: 950.0 Len: 479 Query Start:1 Query End:479 Subject Strand: POSITIVE Subject Start: 1 Subject End: 479 taagtttgtcaagcggaggatgttatataaattaagtgactggttgatagtaacctaatttatagaacttctctaagaataacttaagagttttccccgtttcatctatagattcaagcgggttatgggggaattcgaagagtatcatacgaaccatctgggacaaaagatgctatagcttgcggcaaatgggaatgagtttatatcacagatacctataaaggagtgtaagtataaattataatgagcgagatatctgtcactgcttctttgcctatgagcctgagattattcttcaaaggaatgtccagcaaataacgatgaagcaataaaagaagaaagacaaatgtagttactgcgtagtataattatttcgagcactttactacatgcaaatcttttccctttcaccgttttatccttactgtagttatgtagtaagataatatcaatgaaagagaaaagatatcaaataatca taagtttgtcaagcggaggatgttatataaattaagtgactggttgatagtaacctaatttatagaacttctctaagaataacttaagagttttccccgtttcatctatagattcaagcgggttatgggggaattcgaagagtatcatacgaaccatctgggacaaaagatgctatagcttgcggcaaatgggaatgagtttatatcacagatacctataaaggagtgtaagtataaattataatgagcgagatatctgtcactgcttctttgcctatgagcctgagattattcttcaaaggaatgtccagcaaataacgatgaagcaataaaagaagaaagacaaatgtagttactgcgtagtataattatttcgagcactttactacatgcaaatcttttccctttcaccgttttatccttactgtagttatgtagtaagataatatcaatgaaagagaaaagatatcaaataatca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGUUUGUCAAGCGGAGGAUGUUAUAUAAAUUAAGUGACUGGUUGAUAGUAACCUAAUUUAUAGAACUUCUCUAAGAAUAACUUAAGAGUUUUCCCCGUUUCAUCUAUAGAUUCAAGCGGGUUAUGGGGGAAUUCGAAGAGUAUCAUACGAACCAUCUGGGACAAAAGAUGCUAUAGCUUGCGGCAAAUGGGAAUGAGUUUAUAUCACAGAUACCUAUAAAGGAGUGUAAGUAUAAAUUAUAAUGAGCGAGAUAUCUGUCACUGCUUCUUUGCCUAUGAGCCUGAGAUUAUUCUUCAAAGGAAUGUCCAGCAAAUAACGAUGAAGCAAUAAAAGAAGAAAGACAAAUGUAGUUACUGCGUAGUAUAAUUAUUUCGAGCACUUUACUACAUGCAAAUCUUUUCCCUUUCACCGUUUUAUCCUUACUGUAGUUAUGUAGUAAGAUAAUAUCAAUGAAAGAGAAAAGAUAUCAAAUAAUCA ...(((((((..((((.(((.(((.(((((((((.((.((((.....)))).)).))))))))).)))..(((((((.....))).))))...)))))))(((...((((((((((.(((((((((((.((.((((...)))).))........(((((........))))))))))))))))..(....)....))))))))))..(((((((.((.........(((((.......))))).......)).)))))))...((((((.(((..(((..((.((.(((.(((((.....))))))))))))..))).))).))))))......)))....)))))))(((((...(((..((((....))))....)))....)))))......((((((((.((((((..(..(((((.((((((((....)))))))))))))...)..)))))).))))))))............ (-112.59) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUUAUUUGAUAUCUUUUCUCUUUCAUUGAUAUUAUCUUACUACAUAACUACAGUAAGGAUAAAACGGUGAAAGGGAAAAGAUUUGCAUGUAGUAAAGUGCUCGAAAUAAUUAUACUACGCAGUAACUACAUUUGUCUUUCUUCUUUUAUUGCUUCAUCGUUAUUUGCUGGACAUUCCUUUGAAGAAUAAUCUCAGGCUCAUAGGCAAAGAAGCAGUGACAGAUAUCUCGCUCAUUAUAAUUUAUACUUACACUCCUUUAUAGGUAUCUGUGAUAUAAACUCAUUCCCAUUUGCCGCAAGCUAUAGCAUCUUUUGUCCCAGAUGGUUCGUAUGAUACUCUUCGAAUUCCCCCAUAACCCGCUUGAAUCUAUAGAUGAAACGGGGAAAACUCUUAAGUUAUUCUUAGAGAAGUUCUAUAAAUUAGGUUACUAUCAACCAGUCACUUAAUUUAUAUAACAUCCUCCGCUUGACAAACUUA (((((((((...((((((((((((((((((...((((((((((..........))))).)))))..))))))))))))))))))..((((........))))...)))))))))..................((((((.....(((.((((((((((...(((((((...((.....))......))))))).....(((....)))...)))))))))).)))......((..((((((.((((((.(((((..(((....)))....))))))))))).......(((((((..((((((....)).....))))..)))))))....)))))).((((..(((...........((((.((..(((....)))..))))))...((((....)))).)))..))))..(((.((((((((((((.(((.......))).)))))))))))).))).......))..)))))).... (-110.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 326 284 245 173 129 pint:PI2063|5end_conserved_hypothetical_protein_2023946..2024176_POSITIVE 319 199 156 49 4 pint:PI1313|5end_possible_POT_family_(proton-dependent_oligopeptide_transport_family)_1229710..1229940_POSITIVE 314 124 83 176 135 pint:PI0932|5end_conserved_hypothetical_protein;_possible_hemin_receptor_863854..864084_POSITIVE 314 158 115 184 143 pint:PI0170|5end_hypothetical_protein_163305..163535_POSITIVE 314 158 115 43 2 pint:PI0167|5end_hypothetical_protein_163164..163394_POSITIVE 303 167 121 215 160 pint:PI1007|5end_conserved_hypothetical_protein_926956..927186_POSITIVE 303 284 243 143 100 pint:PI0301|5end_probable_transposase_285672..285902_POSITIVE 302 308 266 203 158 pint:PI0637|5end_hypothetical_protein_582117..582347_POSITIVE 302 308 266 118 73 pint:PI0636|5end_hypothetical_protein_582032..582262_POSITIVE 302 199 154 213 168 pint:PI0280|5end_conserved_hypothetical_protein_266001..266231_POSITIVE 300 159 111 154 95 pint:PI0197|5end_acetate_kinase_188602..188832_POSITIVE 298 313 271 185 137 pint:PI0251|5end_hypothetical_protein_247551..247781_POSITIVE 291 415 371 201 156 pint:PI2068|5end_hypothetical_protein_2028328..2028558_POSITIVE 291 289 242 71 19 pint:PI1878|5end_hypothetical_protein_1819989..1820219_POSITIVE 291 128 82 138 104 pint:PI1136|5end_conserved_hypothetical_protein_1062195..1062425_POSITIVE 286 297 254 46 5 pint:PI0530|5end_possible_membrane-fusion_protein_483772..484002_POSITIVE 282 288 241 57 12 pint:PI2137|5end_RNA_methylase_SpoU_family_2083173..2083403_POSITIVE 280 306 261 227 167 pint:PI2126|5end_conserved_hypothetical_protein_2074907..2075137_POSITIVE 278 288 249 189 147 pint:PI1000|5end_conserved_hypothetical_protein_923332..923562_POSITIVE 278 228 181 85 28 pint:PI0897|5end_ferredoxin,_4Fe-4S_828227..828457_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 314 158 115 78 37 pint:PI0168|3end_methionyl-tRNA_synthetase_(methionine--tRNA_ligase)_163279..163429_POSITIVE 300 159 111 115 56 pint:PI0196|3end_hypothetical_protein_188643..188793_POSITIVE 298 285 245 87 42 pint:PI1734|3end_possible_carboxyl-terminal_protease-related_protein_1653829..1653979_POSITIVE 298 470 426 89 44 pint:PI0730|3end_hypothetical_protein_662166..662316_POSITIVE 291 415 371 130 85 pint:PI2067|3end_hypothetical_protein_2028337..2028487_POSITIVE 291 289 242 141 89 pint:PI1877|3end_hypothetical_protein_1820139..1820289_POSITIVE 291 128 82 66 32 pint:PI1135|3end_hypothetical_protein_1062203..1062353_POSITIVE 291 440 395 87 41 pint:PI0502|3end_conserved_hypothetical_protein;_possible_helicase_463089..463239_POSITIVE 288 297 251 96 51 pint:PI0145|3end_secDF_export_membrane_protein_139724..139874_POSITIVE 284 283 243 151 109 pint:PI0300|3end_transposase_285761..285911_POSITIVE 282 288 241 57 12 pint:PI2135|3end_conserved_hypothetical_protein_2083253..2083403_POSITIVE 281 286 245 87 29 pint:PI1713|3end_ABC_transporter,_ATP-binding_protein_1630192..1630342_POSITIVE 279 387 341 81 30 pint:PI0809|3end_hypothetical_protein_747108..747258_POSITIVE 278 288 249 113 71 pint:PI0998|3end_possible_flavin_reductase_domain_protein_923336..923486_POSITIVE 276 380 332 58 12 pint:PI0242|3end_hypothetical_protein_240227..240377_POSITIVE 272 185 149 42 12 pint:PI0785|3end_hypothetical_protein_724138..724288_POSITIVE 272 185 149 39 9 pint:PI0786|3end_conserved_hypothetical_protein;_possible_glycosyltransferase_724135..724285_POSITIVE 271 288 242 121 77 pint:PI0378|3end_conserved_hypothetical_protein;_possible_helicase_349539..349689_POSITIVE 267 286 257 37 7 pint:PI0472|3end_50S_ribosomal_protein_L5_438705..438855_POSITIVE 266 228 181 54 6 pint:PI0896|3end_2-oxoglutarate_oxidoreductase,_alpha_subunit_828276..828426_POSITIVE