Origin IGS: gtagctttgcccatagactgaagcgaaggaagaaggaaaaactcaaggaattgctttgtctgaatagactcttatgaccgaatcacaggcccggatatttcaggaaatatagacatagaccggtattagaaacagaggggacagagagttacaaagagaaactgttgtacgggattttcattgaactcttttgccacagagctgattctaagtgccttcggaaaaggtcaagcctccagtatatggctaccaatcaaacagaatttttgggctgtaaatgcaaaatttcggtgtgaaaatcaactgagtataggatgtgtatccttctcttttgtcggcttagcctttcttttcctcctcctgtctgcttcgtcttgtagattggggataacctttagggcctgtacggt .........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 accgtacaggccctaaaggttatccccaatctacaagacgaagcagacaggaggaggaaaagaaaggctaagccgacaaaagagaaggatacacatcctatactcagttgattttcacaccgaaattttgcatttacagcccaaaaattctgtttgattggtagccatatactggaggcttgaccttttccgaaggcacttagaatcagctctgtggcaaaagagttcaatgaaaatcccgtacaacagtttctctttgtaactctctgtcccctctgtttctaataccggtctatgtctatatttcctgaaatatccgggcctgtgattcggtcataagagtctattcagacaaagcaattccttgagtttttccttcttccttcgcttcagtctatgggcaaagctac Mask Tandem Repeat Region ================================================ gtagctttgcccatagactgaagcgaaggaagaaggaaaaactcaaggaattgctttgtctgaatagactcttatgaccgaatcacaggcccggatatttcaggaaatatagacatagaccggtattagaaacagaggggacagagagttacaaagagaaactgttgtacgggattttcattgaactcttttgccacagagctgattctaagtgccttcggaaaaggtcaagcctccagtatatggctaccaatcaaacagaatttttgggctgtaaatgcaaaatttcggtgtgaaaatcaactgagtataggatgtgtatccttctcttttgtcggcttagcctttcttttcctcctcctgtctgcttcgtcttgtagattggggataacctttagggcctgtacggt Find is-nt database================================================ Query_seq: PG0354:PG0355|PG0354:PG0355:hypothetical protein:hypothetical protein:<-->:389374..389783 410 gtagctttgcccatagactgaagcgaaggaagaaggaaaaactcaaggaattgctttgtctgaatagactcttatgaccgaatcacaggcccggatatttcaggaaatatagacatagaccggtattagaaacagaggggacagagagttacaaagagaaactgttgtacgggattttcattgaactcttttgccacagagctgattctaagtgccttcggaaaaggtcaagcctccagtatatggctaccaatcaaacagaatttttgggctgtaaatgcaaaatttcggtgtgaaaatcaactgagtataggatgtgtatccttctcttttgtcggcttagcctttcttttcctcctcctgtctgcttcgtcttgtagattggggataacctttagggcctgtacggt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0354:PG0355|PG0354:PG0355:hypothetical protein:hypothetical protein:<-->:389374..389783 410 gtagctttgcccatagactgaagcgaaggaagaaggaaaaactcaaggaattgctttgtctgaatagactcttatgaccgaatcacaggcccggatatttcaggaaatatagacatagaccggtattagaaacagaggggacagagagttacaaagagaaactgttgtacgggattttcattgaactcttttgccacagagctgattctaagtgccttcggaaaaggtcaagcctccagtatatggctaccaatcaaacagaatttttgggctgtaaatgcaaaatttcggtgtgaaaatcaactgagtataggatgtgtatccttctcttttgtcggcttagcctttcttttcctcctcctgtctgcttcgtcttgtagattggggataacctttagggcctgtacggt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0354:PG0355|PG0354:PG0355:hypothetical protein:hypothetical protein:<-->:389374..389783 410 gtagctttgcccatagactgaagcgaaggaagaaggaaaaactcaaggaattgctttgtctgaatagactcttatgaccgaatcacaggcccggatatttcaggaaatatagacatagaccggtattagaaacagaggggacagagagttacaaagagaaactgttgtacgggattttcattgaactcttttgccacagagctgattctaagtgccttcggaaaaggtcaagcctccagtatatggctaccaatcaaacagaatttttgggctgtaaatgcaaaatttcggtgtgaaaatcaactgagtataggatgtgtatccttctcttttgtcggcttagcctttcttttcctcctcctgtctgcttcgtcttgtagattggggataacctttagggcctgtacggt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gtagctttgcccatagactgaagcgaaggaagaaggaaaaactcaaggaattgctttgtctgaatagactcttatgaccgaatcacaggcccggatatttcaggaaatatagacatagaccggtattagaaacagaggggacagagagttacaaagagaaactgttgtacgggattttcattgaactcttttgccacagagctgattctaagtgccttcggaaaaggtcaagcctccagtatatggctaccaatcaaacagaatttttgggctgtaaatgcaaaatttcggtgtgaaaatcaactgagtataggatgtgtatccttctcttttgtcggcttagcctttcttttcctcctcctgtctgcttcgtcttgtagattggggataacctttagggcctgtacggt Predict ORF larger than 30AA ================================================ Protein_Len: 44 Strand: + Start: 162 End: 293 ................................................................................................................................................................. M L Y G I F I E L F C H R A D S K C L R K R S S L Q Y M A T N Q T E F L G C K C K I S V ..................................................................................................................... Protein_Len: 60 Strand: + Start: 181 End: 408 .................................................................................................................................................................................... M N S F A T E L I L S A F G K G Q A S S I W L P I K Q N F W A V N A K F R C E N Q L S I G C V S F S F V G L A F L F L L .. Protein_Len: 42 Strand: - Start: 257 End: 382 ................................................................................................................................................................................................................................................................ V S N K P Q L H L I E T H F D V S Y L I H I R R K Q R S L R E K G G G T Q K T K Y M ............................ Protein_Len: 34 Strand: - Start: 152 End: 253 ....................................................................................................................................................... L S F S N Y P I K M S S K Q W L A S E L H R R F L D L R W Y I A V M ............................................................................................................................................................. gtagctttgcccatagactgaagcgaaggaagaaggaaaaactcaaggaattgctttgtctgaatagactcttatgaccgaatcacaggcccggatatttcaggaaatatagacatagaccggtattagaaacagaggggacagagagttacaaagagaaactgttgtacgggattttcattgaactcttttgccacagagctgattctaagtgccttcggaaaaggtcaagcctccagtatatggctaccaatcaaacagaatttttgggctgtaaatgcaaaatttcggtgtgaaaatcaactgagtataggatgtgtatccttctcttttgtcggcttagcctttcttttcctcctcctgtctgcttcgtcttgtagattggggataacctttagggcctgtacggt 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================================================ gtagctttgcccatagactgaagcgaaggaagaaggaaaaactcaaggaattgctttgtctgaatagactcttatgaccgaatcacaggcccggatatttcaggaaatatagacatagaccggtattagaaacagaggggacagagagttacaaagagaaactgttgtacgggattttcattgaactcttttgccacagagctgattctaagtgccttcggaaaaggtcaagcctccagtatatggctaccaatcaaacagaatttttgggctgtaaatgcaaaatttcggtgtgaaaatcaactgagtataggatgtgtatccttctcttttgtcggcttagcctttcttttcctcctcctgtctgcttcgtcttgtagattggggataacctttagggcctgtacggt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG0354:PG0355|PG0354:PG0355:hypothetical protein:hypothetical protein:<-->:389374..389783 410 gtagctttgcccatagactgaagcgaaggaagaaggaaaaactcaaggaattgctttgtctgaatagactcttatgaccgaatcacaggcccggatatttcaggaaatatagacatagaccggtattagaaacagaggggacagagagttacaaagagaaactgttgtacgggattttcattgaactcttttgccacagagctgattctaagtgccttcggaaaaggtcaagcctccagtatatggctaccaatcaaacagaatttttgggctgtaaatgcaaaatttcggtgtgaaaatcaactgagtataggatgtgtatccttctcttttgtcggcttagcctttcttttcctcctcctgtctgcttcgtcttgtagattggggataacctttagggcctgtacggt Intra-Species Hit: Count: 2 Min: 1 Max: 410 Len: 410 Subject: NC_002950_PG0354_PG0355|hypothetical protein:hypothetical protein|NEGATIVE:POSITIVE|[389374,389783]|410 HSP 1 e-value: 0.0 bit: 813.0 Len: 410 Query Start:1 Query End:410 Subject Strand: POSITIVE Subject Start: 1 Subject End: 410 gtagctttgcccatagactgaagcgaaggaagaaggaaaaactcaaggaattgctttgtctgaatagactcttatgaccgaatcacaggcccggatatttcaggaaatatagacatagaccggtattagaaacagaggggacagagagttacaaagagaaactgttgtacgggattttcattgaactcttttgccacagagctgattctaagtgccttcggaaaaggtcaagcctccagtatatggctaccaatcaaacagaatttttgggctgtaaatgcaaaatttcggtgtgaaaatcaactgagtataggatgtgtatccttctcttttgtcggcttagcctttcttttcctcctcctgtctgcttcgtcttgtagattggggataacctttagggcctgtacggt gtagctttgcccatagactgaagcgaaggaagaaggaaaaactcaaggaattgctttgtctgaatagactcttatgaccgaatcacaggcccggatatttcaggaaatatagacatagaccggtattagaaacagaggggacagagagttacaaagagaaactgttgtacgggattttcattgaactcttttgccacagagctgattctaagtgccttcggaaaaggtcaagcctccagtatatggctaccaatcaaacagaatttttgggctgtaaatgcaaaatttcggtgtgaaaatcaactgagtataggatgtgtatccttctcttttgtcggcttagcctttcttttcctcctcctgtctgcttcgtcttgtagattggggataacctttagggcctgtacggt Subject: NC_002950_PG0599_PG0602|3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II:hypothetical protein|POSITIVE:POSITIVE|[657793,658639]|847 HSP 1 e-value: 1.0E-15 bit: 85.7 Len: 103 Query Start:161 Query End:263 Subject Strand: NEGATIVE Subject Start: 730 Subject End: 831 ................................................................................................................................................................actgttgtacgggattttcattgaactcttttgccacagagctgattctaagtgccttcggaaaaggtcaagcctccagtatatggctaccaatcaaacagaa................................................................................................................................................... ................................................................................................................................................................actgttgcatgggagtttcattgaactcttttgctgcagagcagattcttagtgtcttcgggaaagatcaaacctcaag-atatggctaccaagcaaacagaa................................................................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUAGCUUUGCCCAUAGACUGAAGCGAAGGAAGAAGGAAAAACUCAAGGAAUUGCUUUGUCUGAAUAGACUCUUAUGACCGAAUCACAGGCCCGGAUAUUUCAGGAAAUAUAGACAUAGACCGGUAUUAGAAACAGAGGGGACAGAGAGUUACAAAGAGAAACUGUUGUACGGGAUUUUCAUUGAACUCUUUUGCCACAGAGCUGAUUCUAAGUGCCUUCGGAAAAGGUCAAGCCUCCAGUAUAUGGCUACCAAUCAAACAGAAUUUUUGGGCUGUAAAUGCAAAAUUUCGGUGUGAAAAUCAACUGAGUAUAGGAUGUGUAUCCUUCUCUUUUGUCGGCUUAGCCUUUCUUUUCCUCCUCCUGUCUGCUUCGUCUUGUAGAUUGGGGAUAACCUUUAGGGCCUGUACGGU .............(((((.(((((((.......((......)).......))))))))))))..............((((....((((((((.........((((((..............((((((((((.(((..(((..((((((((.(((.(((((.(((.....)))..))))).)))))))))))..)).)....))).)))).))))))...(((((.((..(((((.(((.....)))................(((((((.((((.((((.....)))))))).)))))))(((..(((...(((((....))))).)))..)))..)))))..))))))))))))).((((.((((((........)))))).))))..........)))))))).)))) (-114.94) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACCGUACAGGCCCUAAAGGUUAUCCCCAAUCUACAAGACGAAGCAGACAGGAGGAGGAAAAGAAAGGCUAAGCCGACAAAAGAGAAGGAUACACAUCCUAUACUCAGUUGAUUUUCACACCGAAAUUUUGCAUUUACAGCCCAAAAAUUCUGUUUGAUUGGUAGCCAUAUACUGGAGGCUUGACCUUUUCCGAAGGCACUUAGAAUCAGCUCUGUGGCAAAAGAGUUCAAUGAAAAUCCCGUACAACAGUUUCUCUUUGUAACUCUCUGUCCCCUCUGUUUCUAAUACCGGUCUAUGUCUAUAUUUCCUGAAAUAUCCGGGCCUGUGAUUCGGUCAUAAGAGUCUAUUCAGACAAAGCAAUUCCUUGAGUUUUUCCUUCUUCCUUCGCUUCAGUCUAUGGGCAAAGCUAC .........((((...(((((......)))))...(((((((((.((.(((((((((((((....((((..(((..(((..(((.(((((....)))))...)))..)))....(((.((.(((.(((((...........))))).))).)).)))..)))))))....(((.((((..(((((...((...((((..((((((.(((....(.((((..(((((((((.((((..............))))...))).)))))).)))))...))).))))))..((((..(((.((..........)).))).))))))))..))...))))).....((((....)))).........)))).))))))))).)))))))))))))).))))..))))........ (-108.94) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 916 50 1 141 92 NC_002950:PG0354|5end_hypothetical_protein_389283..389513_NEGATIVE 709 220 171 214 165 NC_002950:PG0747|5end_sigma-54_dependent_DNA-binding_response_regulator_795294..795524_NEGATIVE 582 209 161 156 108 NC_002950:PG0602|5end_hypothetical_protein_658500..658730_POSITIVE 574 240 191 221 172 NC_002950:PG1291|5end_hypothetical_protein_1371178..1371408_NEGATIVE 460 400 354 63 9 NC_002950:PG1861|5end_hypothetical_protein_1960057..1960287_NEGATIVE 372 375 333 229 189 NC_002950:PG0333|5end_hypothetical_protein_367823..368053_POSITIVE 371 306 264 126 81 NC_002950:PG0313|5end_hypothetical_protein_347366..347596_POSITIVE 370 376 331 230 184 NC_002950:PG1163|5end_cobyrinic_acid_a,c-diamide_synthase_1243381..1243611_NEGATIVE 367 380 335 148 99 NC_002950:PG2098|5end_hypothetical_protein_2206635..2206865_NEGATIVE 357 389 343 121 67 NC_002950:PG0400|5end_hypothetical_protein_437528..437758_NEGATIVE 355 179 134 87 33 NC_002950:PG1600|5end_hypothetical_protein_1680984..1681214_NEGATIVE 354 410 365 82 22 NC_002950:PG1859|5end_glycerate_kinase_family_protein_1958334..1958564_NEGATIVE 354 376 333 159 114 NC_002950:PG0147|5end_hypothetical_protein_169667..169897_NEGATIVE 351 239 191 211 154 NC_002950:PG2208|5end_hypothetical_protein_2320586..2320816_NEGATIVE 346 98 51 158 102 NC_002950:PG1389|5end_DNA-binding_protein,_histone-like_family_1471328..1471558_NEGATIVE 344 400 357 218 142 NC_002950:PG0589|5end_bifunctional_GMP_synthase/glutamine_amidotransferase_protein_647708..647938_NEGATIVE 340 374 331 225 162 NC_002950:PG1343|5end_lipoate-protein_ligase_B_1423628..1423858_POSITIVE 340 376 331 130 73 NC_002950:PG0399|5end_lipoprotein,_putative_436237..436467_NEGATIVE 337 390 342 183 129 NC_002950:PG1894|5end_hypothetical_protein_1992277..1992507_POSITIVE 336 400 355 113 66 NC_002950:PG2125|5end_transcriptional_regulator,_AraC_family_2232254..2232484_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 542 209 161 75 27 NC_002950:PG1159|3end_cobalamin_biosynthesis_protein_CbiB_1237957..1238107_NEGATIVE 429 410 361 69 5 NC_002950:PG1862|3end_hypothetical_protein_1960070..1960220_NEGATIVE 367 380 335 134 85 NC_002950:PG2099|3end_ATP-dependent_RNA_helicase,_DEAD/DEAH_box_family_2206649..2206799_NEGATIVE 364 362 322 149 112 NC_002950:PG2072|3end_UvrD/REP_helicase_domain_protein_2170757..2170907_POSITIVE 363 390 344 80 38 NC_002950:PG0172|3end_exonuclease_194355..194505_POSITIVE 352 409 365 74 36 NC_002950:PG2082|3end_POT_family_protein_2181843..2181993_NEGATIVE 351 239 191 123 66 NC_002950:PG2209|3end_hypothetical_protein_2320674..2320824_NEGATIVE 344 370 321 149 95 NC_002950:PG1494|3end_hypothetical_protein_1571234..1571384_POSITIVE 342 377 333 108 47 NC_002950:PG0322|3end_serine/threonine_transporter_356966..357116_POSITIVE 341 369 324 149 97 NC_002950:PG1162|3end_ATP:cob(I)alamin_adenosyltransferase,_putative_1241473..1241623_NEGATIVE 340 376 331 122 65 NC_002950:PG0400|3end_hypothetical_protein_436245..436395_NEGATIVE 339 337 291 97 54 NC_002950:PG2073|3end_hypothetical_protein_2174219..2174369_NEGATIVE 339 337 291 97 54 NC_002950:PG1669|3end_hypothetical_protein_1755411..1755561_NEGATIVE 339 337 291 97 54 NC_002950:PG1264|3end_hypothetical_protein_1344740..1344890_NEGATIVE 339 337 291 97 54 NC_002950:PG0103|3end_hypothetical_protein_121525..121675_POSITIVE 337 380 331 134 81 NC_002950:PG0485|3end_preprotein_translocase,_YajC_subunit_524986..525136_NEGATIVE 335 238 194 144 86 NC_002950:PG2038|3end_N-acetylmuramoyl-L-alanine_amidase,_putative_2137809..2137959_NEGATIVE 329 374 335 123 86 NC_002950:PG1276|3end_DNA-binding_protein,_histone-like_family_1353531..1353681_POSITIVE 329 374 335 123 86 NC_002950:PG0566|3end_DNA-binding_protein,_histone-like_family_622935..623085_NEGATIVE 327 370 325 92 33 NC_002950:PG1600|3end_hypothetical_protein_1679959..1680109_NEGATIVE