Origin IGS: aattgtacattcaatttgttataaatttctttggaagataagttactacacatatccaataaaacattggtatcattgataattctctccaatcgcttagaacgcaaattctcatcaggaaaagaataatcaattaattgcacaacatcgcctgatatagcgataaccttactttgcttgagaattaccatagcatttatgaaatatggtccgaaagatgctaattttcgagaaattaatccttgtttactaatcaaatcagaaagttcttcaaaattctgggacttacgaataatcgcccccaactgattatctattagcaaagtaaccatgatataagatattggcatatccatattccttcttctgagaagatgaacaatacatgccataattattgcttcattattgtaaactctgttca .........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 tgaacagagtttacaataatgaagcaataattatggcatgtattgttcatcttctcagaagaaggaatatggatatgccaatatcttatatcatggttactttgctaatagataatcagttgggggcgattattcgtaagtcccagaattttgaagaactttctgatttgattagtaaacaaggattaatttctcgaaaattagcatctttcggaccatatttcataaatgctatggtaattctcaagcaaagtaaggttatcgctatatcaggcgatgttgtgcaattaattgattattcttttcctgatgagaatttgcgttctaagcgattggagagaattatcaatgataccaatgttttattggatatgtgtagtaacttatcttccaaagaaatttataacaaattgaatgtacaatt Mask Tandem Repeat Region ================================================ aattgtacattcaatttgttataaatttctttggaagataagttactacacatatccaataaaacattggtatcattgataattctctccaatcgcttagaacgcaaattctcatcaggaaaagaataatcaattaattgcacaacatcgcctgatatagcgataaccttactttgcttgagaattaccatagcatttatgaaatatggtccgaaagatgctaattttcgagaaattaatccttgtttactaatcaaatcagaaagttcttcaaaattctgggacttacgaataatcgcccccaactgattatctattagcaaagtaaccatgatataagatattggcatatccatattccttcttctgagaagatgaacaatacatgccataattattgcttcattattgtaaactctgttca Find is-nt database================================================ Query_seq: PG0833:PG0834|PG0833:PG0834:hypothetical protein:hypothetical protein:<-<-:891664..892087 424 aattgtacattcaatttgttataaatttctttggaagataagttactacacatatccaataaaacattggtatcattgataattctctccaatcgcttagaacgcaaattctcatcaggaaaagaataatcaattaattgcacaacatcgcctgatatagcgataaccttactttgcttgagaattaccatagcatttatgaaatatggtccgaaagatgctaattttcgagaaattaatccttgtttactaatcaaatcagaaagttcttcaaaattctgggacttacgaataatcgcccccaactgattatctattagcaaagtaaccatgatataagatattggcatatccatattccttcttctgagaagatgaacaatacatgccataattattgcttcattattgtaaactctgttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0833:PG0834|PG0833:PG0834:hypothetical protein:hypothetical protein:<-<-:891664..892087 424 aattgtacattcaatttgttataaatttctttggaagataagttactacacatatccaataaaacattggtatcattgataattctctccaatcgcttagaacgcaaattctcatcaggaaaagaataatcaattaattgcacaacatcgcctgatatagcgataaccttactttgcttgagaattaccatagcatttatgaaatatggtccgaaagatgctaattttcgagaaattaatccttgtttactaatcaaatcagaaagttcttcaaaattctgggacttacgaataatcgcccccaactgattatctattagcaaagtaaccatgatataagatattggcatatccatattccttcttctgagaagatgaacaatacatgccataattattgcttcattattgtaaactctgttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0833:PG0834|PG0833:PG0834:hypothetical protein:hypothetical protein:<-<-:891664..892087 424 aattgtacattcaatttgttataaatttctttggaagataagttactacacatatccaataaaacattggtatcattgataattctctccaatcgcttagaacgcaaattctcatcaggaaaagaataatcaattaattgcacaacatcgcctgatatagcgataaccttactttgcttgagaattaccatagcatttatgaaatatggtccgaaagatgctaattttcgagaaattaatccttgtttactaatcaaatcagaaagttcttcaaaattctgggacttacgaataatcgcccccaactgattatctattagcaaagtaaccatgatataagatattggcatatccatattccttcttctgagaagatgaacaatacatgccataattattgcttcattattgtaaactctgttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aattgtacattcaatttgttataaatttctttggaagataagttactacacatatccaataaaacattggtatcattgataattctctccaatcgcttagaacgcaaattctcatcaggaaaagaataatcaattaattgcacaacatcgcctgatatagcgataaccttactttgcttgagaattaccatagcatttatgaaatatggtccgaaagatgctaattttcgagaaattaatccttgtttactaatcaaatcagaaagttcttcaaaattctgggacttacgaataatcgcccccaactgattatctattagcaaagtaaccatgatataagatattggcatatccatattccttcttctgagaagatgaacaatacatgccataattattgcttcattattgtaaactctgttca Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 25 End: 126 ........................ M S L E D K L L H I S N K T L V S L I I L S N R L E R K F S S G K E .......................................................................................................................................................................................................................................................................................................... Protein_Len: 58 Strand: + Start: 133 End: 306 .................................................................................................................................... M N C T T S P D I A I T L L C L R I T I A F M K Y G P K D A N F R E I N P C L L I K S E S S S K F W D L R I I A P N ...................................................................................................................... Protein_Len: 40 Strand: - Start: 14 End: 133 ............. N T I F K K P L Y T V V C I W Y F M P I M S L E R W D S L V C I R M L F L I I M ................................................................................................................................................................................................................................................................................................... Protein_Len: 60 Strand: - Start: 3 End: 398 .. A L K R S I L G Q K S I L D S L E E F N Q S K R I I A G L Q N D I L L T V M I Y S I P M D M N R R R L L H V I C A M I M .......................... aattgtacattcaatttgttataaatttctttggaagataagttactacacatatccaataaaacattggtatcattgataattctctccaatcgcttagaacgcaaattctcatcaggaaaagaataatcaattaattgcacaacatcgcctgatatagcgataaccttactttgcttgagaattaccatagcatttatgaaatatggtccgaaagatgctaattttcgagaaattaatccttgtttactaatcaaatcagaaagttcttcaaaattctgggacttacgaataatcgcccccaactgattatctattagcaaagtaaccatgatataagatattggcatatccatattccttcttctgagaagatgaacaatacatgccataattattgcttcattattgtaaactctgttca 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================================================ aattgtacattcaatttgttataaatttctttggaagataagttactacacatatccaataaaacattggtatcattgataattctctccaatcgcttagaacgcaaattctcatcaggaaaagaataatcaattaattgcacaacatcgcctgatatagcgataaccttactttgcttgagaattaccatagcatttatgaaatatggtccgaaagatgctaattttcgagaaattaatccttgtttactaatcaaatcagaaagttcttcaaaattctgggacttacgaataatcgcccccaactgattatctattagcaaagtaaccatgatataagatattggcatatccatattccttcttctgagaagatgaacaatacatgccataattattgcttcattattgtaaactctgttca Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 49 HP_score: -4.3 Tail_Score: -2.95409 Start: 56 End: 70 Full_Region: AGTTACTACACATAT CCAAT AAAAC ATTGG TATCATTGATAATTC .......................................................CCAATAAAACATTGG.................................................................................................................................................................................................................................................................................................................................................................. Find igs database================================================ Query_seq: PG0833:PG0834|PG0833:PG0834:hypothetical protein:hypothetical protein:<-<-:891664..892087 424 aattgtacattcaatttgttataaatttctttggaagataagttactacacatatccaataaaacattggtatcattgataattctctccaatcgcttagaacgcaaattctcatcaggaaaagaataatcaattaattgcacaacatcgcctgatatagcgataaccttactttgcttgagaattaccatagcatttatgaaatatggtccgaaagatgctaattttcgagaaattaatccttgtttactaatcaaatcagaaagttcttcaaaattctgggacttacgaataatcgcccccaactgattatctattagcaaagtaaccatgatataagatattggcatatccatattccttcttctgagaagatgaacaatacatgccataattattgcttcattattgtaaactctgttca Intra-Species Hit: Count: 1 Min: 1 Max: 424 Len: 424 Subject: NC_002950_PG0833_PG0834|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[891664,892087]|424 HSP 1 e-value: 0.0 bit: 841.0 Len: 424 Query Start:1 Query End:424 Subject Strand: POSITIVE Subject Start: 1 Subject End: 424 aattgtacattcaatttgttataaatttctttggaagataagttactacacatatccaataaaacattggtatcattgataattctctccaatcgcttagaacgcaaattctcatcaggaaaagaataatcaattaattgcacaacatcgcctgatatagcgataaccttactttgcttgagaattaccatagcatttatgaaatatggtccgaaagatgctaattttcgagaaattaatccttgtttactaatcaaatcagaaagttcttcaaaattctgggacttacgaataatcgcccccaactgattatctattagcaaagtaaccatgatataagatattggcatatccatattccttcttctgagaagatgaacaatacatgccataattattgcttcattattgtaaactctgttca aattgtacattcaatttgttataaatttctttggaagataagttactacacatatccaataaaacattggtatcattgataattctctccaatcgcttagaacgcaaattctcatcaggaaaagaataatcaattaattgcacaacatcgcctgatatagcgataaccttactttgcttgagaattaccatagcatttatgaaatatggtccgaaagatgctaattttcgagaaattaatccttgtttactaatcaaatcagaaagttcttcaaaattctgggacttacgaataatcgcccccaactgattatctattagcaaagtaaccatgatataagatattggcatatccatattccttcttctgagaagatgaacaatacatgccataattattgcttcattattgtaaactctgttca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUGUACAUUCAAUUUGUUAUAAAUUUCUUUGGAAGAUAAGUUACUACACAUAUCCAAUAAAACAUUGGUAUCAUUGAUAAUUCUCUCCAAUCGCUUAGAACGCAAAUUCUCAUCAGGAAAAGAAUAAUCAAUUAAUUGCACAACAUCGCCUGAUAUAGCGAUAACCUUACUUUGCUUGAGAAUUACCAUAGCAUUUAUGAAAUAUGGUCCGAAAGAUGCUAAUUUUCGAGAAAUUAAUCCUUGUUUACUAAUCAAAUCAGAAAGUUCUUCAAAAUUCUGGGACUUACGAAUAAUCGCCCCCAACUGAUUAUCUAUUAGCAAAGUAACCAUGAUAUAAGAUAUUGGCAUAUCCAUAUUCCUUCUUCUGAGAAGAUGAACAAUACAUGCCAUAAUUAUUGCUUCAUUAUUGUAAACUCUGUUCA (((((......)))))..((((((.....((..(((((...((....))..((((((((((........(((((((...............((((((.((((......)))).((((((...........(((....)))..........))))))..))))))....((((((((((..(((...((((((.((....))...)))))).((((((.......))))))..........................((((((.(((((((..........))))))).(((....))).......)))))).)))...))))))))))..)))))))....)))))).))))..........)))))..))..(((((((((((.((......))))))).)))))).)))))).......... (-72.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAACAGAGUUUACAAUAAUGAAGCAAUAAUUAUGGCAUGUAUUGUUCAUCUUCUCAGAAGAAGGAAUAUGGAUAUGCCAAUAUCUUAUAUCAUGGUUACUUUGCUAAUAGAUAAUCAGUUGGGGGCGAUUAUUCGUAAGUCCCAGAAUUUUGAAGAACUUUCUGAUUUGAUUAGUAAACAAGGAUUAAUUUCUCGAAAAUUAGCAUCUUUCGGACCAUAUUUCAUAAAUGCUAUGGUAAUUCUCAAGCAAAGUAAGGUUAUCGCUAUAUCAGGCGAUGUUGUGCAAUUAAUUGAUUAUUCUUUUCCUGAUGAGAAUUUGCGUUCUAAGCGAUUGGAGAGAAUUAUCAAUGAUACCAAUGUUUUAUUGGAUAUGUGUAGUAACUUAUCUUCCAAAGAAAUUUAUAACAAAUUGAAUGUACAAUU ......((.(((((....((((((.........((((((((..(((((.(((((...)))))..)))))...))))))))............((((((..(((((((((....((((((((((((((((....))))...))))))................))))))..))))))))).((((((((((((.....))))))..))))))..)))))).))))))...((((.(((......)))))))..))))).)).(((((......))))).((((((((....((((((.(((((((((.((...(((((....)))))...))...))))))))).)))))).........(((((.(((((.(((.((....)).)))..))))).)))))...............)))))))). (-95.39) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 843 120 71 211 162 NC_002950:PG0833|5end_hypothetical_protein_891573..891803_NEGATIVE 290 189 147 204 169 NC_002950:PG1726|5end_PDZ_domain_protein_1815281..1815511_POSITIVE 284 301 278 192 170 NC_002950:PG1633|5end_galactokinase_1713385..1713615_POSITIVE 281 312 279 166 128 NC_002950:PG1057|5end_hypothetical_protein_1123419..1123649_POSITIVE 273 106 65 108 58 NC_002950:PG1660|5end_RNA_polymerase_sigma-70_factor,_ECF_subfamily_1744268..1744498_NEGATIVE 271 355 320 205 154 NC_002950:PG1491|5end_hypothetical_protein_1565741..1565971_POSITIVE 271 330 281 180 133 NC_002950:PG0999|5end_hypothetical_protein_1057026..1057256_POSITIVE 271 330 281 83 36 NC_002950:PG0998|5end_hypothetical_protein_1056929..1057159_POSITIVE 257 209 167 148 98 NC_002950:PG0779|5end_hypothetical_protein_832573..832803_NEGATIVE 256 120 72 230 180 NC_002950:PG1718|5end_hypothetical_protein_1806807..1807037_NEGATIVE 254 189 146 147 89 NC_002950:PG1703|5end_MazG_family_protein_1790753..1790983_NEGATIVE 251 308 275 66 35 NC_002950:PG1919|5end_ribosomal_protein_L15_2016281..2016511_NEGATIVE 251 236 192 199 141 NC_002950:PG0518|5end_abortive_infection_protein_family_562939..563169_NEGATIVE 249 194 174 48 29 NC_002950:PG0160|5end_hypothetical_protein_184085..184315_NEGATIVE 248 390 343 204 128 NC_002950:PG1108|5end_hypothetical_protein_1181108..1181338_NEGATIVE 248 380 348 169 132 NC_002950:PG0330|5end_DNA-binding_protein,_histone-like_family_364993..365223_NEGATIVE 245 178 139 67 28 NC_002950:PG1072|5end_MutS_family_protein_1138976..1139206_POSITIVE 244 183 147 130 91 NC_002950:PG0546|5end_hypothetical_protein_600391..600621_NEGATIVE 244 120 73 147 102 NC_002950:PG0203|5end_hypothetical_protein_240211..240441_NEGATIVE 243 106 64 64 12 NC_002950:PG1332|5end_NAD(P)_transhydrogenase,_beta_subunit_1412042..1412272_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 286 314 279 39 6 NC_002950:PG2037|3end_hypothetical_protein_2137591..2137741_NEGATIVE 284 301 278 142 120 NC_002950:PG1632|3end_aldose_1-epimerase_1713415..1713565_POSITIVE 281 312 279 146 108 NC_002950:PG1056|3end_hypothetical_protein_1123479..1123629_POSITIVE 277 369 329 90 60 NC_002950:PG0686|3end_hypothetical_protein_741131..741281_NEGATIVE 275 188 142 47 2 NC_002950:PG0097|3end_hypothetical_protein_115056..115206_NEGATIVE 271 330 281 86 39 NC_002950:PG0997|3end_transcriptional_regulator,_putative_1057012..1057162_POSITIVE 257 209 167 132 82 NC_002950:PG0780|3end_hypothetical_protein_832589..832739_NEGATIVE 254 189 146 129 71 NC_002950:PG1704|3end_thiol:disulfide_interchange_protein_dsbD,_putative_1790771..1790921_NEGATIVE 254 122 90 149 115 NC_002950:PG0003|3end_hypothetical_protein_1919..2069_NEGATIVE 253 121 84 139 99 NC_002950:PG2034|3end_oxidoreductase,_FAD-binding,_putative_2134910..2135060_NEGATIVE 251 308 275 40 9 NC_002950:PG1920|3end_ribosomal_protein_L30_2016307..2016457_NEGATIVE 245 178 139 67 28 NC_002950:PG1071|3end_hypothetical_protein_1139056..1139206_POSITIVE 244 189 145 87 40 NC_002950:PG0815|3end_hypothetical_protein_876447..876597_POSITIVE 244 120 73 96 51 NC_002950:PG0204|3end_hypothetical_protein_240262..240412_NEGATIVE 242 106 68 49 2 NC_002950:PG1216|3end_hypothetical_protein_1295665..1295815_POSITIVE 241 126 83 141 104 NC_002950:PG1812|3end_2-oxoglutarate_ferredoxin_oxidoreductase_1907046..1907196_NEGATIVE 240 189 147 114 75 NC_002950:PG1584|3end_batC_protein_1662154..1662304_POSITIVE 238 197 152 69 11 NC_002950:PG1487|3end_hypothetical_protein_1561799..1561949_POSITIVE 238 336 296 67 29 NC_002950:PG0273|3end_4'-phosphopantetheinyl_transferase_family_protein_306370..306520_POSITIVE 234 184 144 122 80 NC_002950:PG1024|3end_hypothetical_protein_1086876..1087026_POSITIVE