Origin IGS: tcttacactgatcctactacataagacggacgaagagggtgtgtcaaaatgaaaattttggctcaccctctatattttgagattctcctgaaagccggatttaattataaagaggctgtgttgaaattatttttcgatttcctctcactttttgtcgaagctgtttggaatttgtcgaggcctctgcatgggggttgtcgcatttgatttggcggttcgggagattctttctcataggcatcgaaatagcagggtgtagaagtcggcttttgttcctatttttgtgactatgttgtgtgtgccgtaaaaacttgaaaaagcgagtacggtttacttactaaataagattaagatgccttgaagaaggatcggatcagacgaccaaatgagaaatgaataacagatacaatacaaaataagaagaataagaaa .........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 tttcttattcttcttattttgtattgtatctgttattcatttctcatttggtcgtctgatccgatccttcttcaaggcatcttaatcttatttagtaagtaaaccgtactcgctttttcaagtttttacggcacacacaacatagtcacaaaaataggaacaaaagccgacttctacaccctgctatttcgatgcctatgagaaagaatctcccgaaccgccaaatcaaatgcgacaacccccatgcagaggcctcgacaaattccaaacagcttcgacaaaaagtgagaggaaatcgaaaaataatttcaacacagcctctttataattaaatccggctttcaggagaatctcaaaatatagagggtgagccaaaattttcattttgacacaccctcttcgtccgtcttatgtagtaggatcagtgtaaga Mask Tandem Repeat Region ================================================ tcttacactgatcctactacataagacggacgaagagggtgtgtcaaaatgaaaattttggctcaccctctatattttgagattctcctgaaagccggatttaattataaagaggctgtgttgaaattatttttcgatttcctctcactttttgtcgaagctgtttggaatttgtcgaggcctctgcatgggggttgtcgcatttgatttggcggttcgggagattctttctcataggcatcgaaatagcagggtgtagaagtcggcttttgttcctatttttgtgactatgttgtgtgtgccgtaaaaacttgaaaaagcgagtacggtttacttactaaataagattaagatgccttgaagaaggatcggatcagacgaccaaatgagaaatgaataacagatacaatacaaaataagaagaataagaaa Find is-nt database================================================ Query_seq: PG1414:PG1416|PG1414:PG1416:hypothetical protein:enoyl-(acyl-carrier-protein) reductase II:->->:1499765..1500196 432 tcttacactgatcctactacataagacggacgaagagggtgtgtcaaaatgaaaattttggctcaccctctatattttgagattctcctgaaagccggatttaattataaagaggctgtgttgaaattatttttcgatttcctctcactttttgtcgaagctgtttggaatttgtcgaggcctctgcatgggggttgtcgcatttgatttggcggttcgggagattctttctcataggcatcgaaatagcagggtgtagaagtcggcttttgttcctatttttgtgactatgttgtgtgtgccgtaaaaacttgaaaaagcgagtacggtttacttactaaataagattaagatgccttgaagaaggatcggatcagacgaccaaatgagaaatgaataacagatacaatacaaaataagaagaataagaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1414:PG1416|PG1414:PG1416:hypothetical protein:enoyl-(acyl-carrier-protein) reductase II:->->:1499765..1500196 432 tcttacactgatcctactacataagacggacgaagagggtgtgtcaaaatgaaaattttggctcaccctctatattttgagattctcctgaaagccggatttaattataaagaggctgtgttgaaattatttttcgatttcctctcactttttgtcgaagctgtttggaatttgtcgaggcctctgcatgggggttgtcgcatttgatttggcggttcgggagattctttctcataggcatcgaaatagcagggtgtagaagtcggcttttgttcctatttttgtgactatgttgtgtgtgccgtaaaaacttgaaaaagcgagtacggtttacttactaaataagattaagatgccttgaagaaggatcggatcagacgaccaaatgagaaatgaataacagatacaatacaaaataagaagaataagaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1414:PG1416|PG1414:PG1416:hypothetical protein:enoyl-(acyl-carrier-protein) reductase II:->->:1499765..1500196 432 tcttacactgatcctactacataagacggacgaagagggtgtgtcaaaatgaaaattttggctcaccctctatattttgagattctcctgaaagccggatttaattataaagaggctgtgttgaaattatttttcgatttcctctcactttttgtcgaagctgtttggaatttgtcgaggcctctgcatgggggttgtcgcatttgatttggcggttcgggagattctttctcataggcatcgaaatagcagggtgtagaagtcggcttttgttcctatttttgtgactatgttgtgtgtgccgtaaaaacttgaaaaagcgagtacggtttacttactaaataagattaagatgccttgaagaaggatcggatcagacgaccaaatgagaaatgaataacagatacaatacaaaataagaagaataagaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tcttacactgatcctactacataagacggacgaagagggtgtgtcaaaatgaaaattttggctcaccctctatattttgagattctcctgaaagccggatttaattataaagaggctgtgttgaaattatttttcgatttcctctcactttttgtcgaagctgtttggaatttgtcgaggcctctgcatgggggttgtcgcatttgatttggcggttcgggagattctttctcataggcatcgaaatagcagggtgtagaagtcggcttttgttcctatttttgtgactatgttgtgtgtgccgtaaaaacttgaaaaagcgagtacggtttacttactaaataagattaagatgccttgaagaaggatcggatcagacgaccaaatgagaaatgaataacagatacaatacaaaataagaagaataagaaa Predict ORF larger than 30AA ================================================ Protein_Len: 52 Strand: + Start: 49 End: 204 ................................................ M K I L A H P L Y F E I L L K A G F N Y K E A V L K L F F D F L S L F V E A V W N L S R P L H G G C R I .................................................................................................................................................................................................................................... Protein_Len: 40 Strand: + Start: 137 End: 256 ........................................................................................................................................ M S S H F L S K L F G I C R G L C M G V V A F D L A V R E I L S H R H R N S R V ................................................................................................................................................................................ Protein_Len: 53 Strand: + Start: 126 End: 284 ............................................................................................................................. M I F R F P L T F C R S C L E F V E A S A W G L S H L I W R F G R F F L I G I E I A G C R S R L L F L F L .................................................................................................................................................... Protein_Len: 31 Strand: - Start: 334 End: 426 ............................................................................................................................................................................................................................................................................................................................................. K S F L I L I G Q L L I P D S S W I L F S Y C I C Y L I L L M ...... Protein_Len: 32 Strand: - Start: 108 End: 203 ........................................................................................................... L S A T N F N N K S K R E S K T S A T Q F K D L G R C P P Q R M ..................................................................................................................................................................................................................................... Protein_Len: 48 Strand: - Start: 104 End: 247 ....................................................................................................... N Y L P Q T S I I K R N G R V K Q R L Q K S N T S A E A H P N D C K I Q R N P L N K R M P M S M ......................................................................................................................................................................................... tcttacactgatcctactacataagacggacgaagagggtgtgtcaaaatgaaaattttggctcaccctctatattttgagattctcctgaaagccggatttaattataaagaggctgtgttgaaattatttttcgatttcctctcactttttgtcgaagctgtttggaatttgtcgaggcctctgcatgggggttgtcgcatttgatttggcggttcgggagattctttctcataggcatcgaaatagcagggtgtagaagtcggcttttgttcctatttttgtgactatgttgtgtgtgccgtaaaaacttgaaaaagcgagtacggtttacttactaaataagattaagatgccttgaagaaggatcggatcagacgaccaaatgagaaatgaataacagatacaatacaaaataagaagaataagaaa 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: 81 Start: 76 End: 105 ...........................................................................TTTGAGATTCTCCTGAAAGCCGGATTTAAT....................................................................................................................................................................................................................................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tcttacactgatcctactacataagacggacgaagagggtgtgtcaaaatgaaaattttggctcaccctctatattttgagattctcctgaaagccggatttaattataaagaggctgtgttgaaattatttttcgatttcctctcactttttgtcgaagctgtttggaatttgtcgaggcctctgcatgggggttgtcgcatttgatttggcggttcgggagattctttctcataggcatcgaaatagcagggtgtagaagtcggcttttgttcctatttttgtgactatgttgtgtgtgccgtaaaaacttgaaaaagcgagtacggtttacttactaaataagattaagatgccttgaagaaggatcggatcagacgaccaaatgagaaatgaataacagatacaatacaaaataagaagaataagaaa Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 77 HP_score: -8.2 Tail_Score: -4.22338 Start: 31 End: 74 Full_Region: ACTACATAAGACGGA CGAAGAGGGTGTGTCAAAAT GAAA ATTTTGGCTCACCCTCTATA TTTTGAGATTCTCCT ..............................CGAAGAGGGTGTGTCAAAATGAAAATTTTGGCTCACCCTCTATA...................................................................................................................................................................................................................................................................................................................................................................... TransTerm Strand: + Conf: 95 HP_score: -13.0 Tail_Score: -3.70689 Start: 33 End: 72 Full_Region: TACATAAGACGGACG AAGAGGGTGTGTCAAAAT GAAA ATTTTGGCTCACCCTCTA TATTTTGAGATTCTC ................................AAGAGGGTGTGTCAAAATGAAAATTTTGGCTCACCCTCTA........................................................................................................................................................................................................................................................................................................................................................................ TransTerm Strand: + Conf: 100 HP_score: -15.6 Tail_Score: -3.42437 Start: 35 End: 70 Full_Region: CATAAGACGGACGAA GAGGGTGTGTCAAAAT GAAA ATTTTGGCTCACCCTC TATATTTTGAGATTC ..................................GAGGGTGTGTCAAAATGAAAATTTTGGCTCACCCTC.......................................................................................................................................................................................................................................................................................................................................................................... TransTerm Strand: - Conf: 91 HP_score: -13.4 Tail_Score: -3.22894 Start: 35 End: 70 Full_Region: gaatctcaaaatata gagggtgagccaaaat tttc attttgacacaccctc ttcgtccgtcttatg ..................................gagggtgagccaaaattttcattttgacacaccctc.......................................................................................................................................................................................................................................................................................................................................................................... Find igs database================================================ Query_seq: PG1414:PG1416|PG1414:PG1416:hypothetical protein:enoyl-(acyl-carrier-protein) reductase II:->->:1499765..1500196 432 tcttacactgatcctactacataagacggacgaagagggtgtgtcaaaatgaaaattttggctcaccctctatattttgagattctcctgaaagccggatttaattataaagaggctgtgttgaaattatttttcgatttcctctcactttttgtcgaagctgtttggaatttgtcgaggcctctgcatgggggttgtcgcatttgatttggcggttcgggagattctttctcataggcatcgaaatagcagggtgtagaagtcggcttttgttcctatttttgtgactatgttgtgtgtgccgtaaaaacttgaaaaagcgagtacggtttacttactaaataagattaagatgccttgaagaaggatcggatcagacgaccaaatgagaaatgaataacagatacaatacaaaataagaagaataagaaa Intra-Species Hit: Count: 1 Min: 1 Max: 432 Len: 432 Subject: NC_002950_PG1414_PG1416|hypothetical protein:enoyl-(acyl-carrier-protein) reductase II|POSITIVE:POSITIVE|[1499765,1500196]|432 HSP 1 e-value: 0.0 bit: 856.0 Len: 432 Query Start:1 Query End:432 Subject Strand: POSITIVE Subject Start: 1 Subject End: 432 tcttacactgatcctactacataagacggacgaagagggtgtgtcaaaatgaaaattttggctcaccctctatattttgagattctcctgaaagccggatttaattataaagaggctgtgttgaaattatttttcgatttcctctcactttttgtcgaagctgtttggaatttgtcgaggcctctgcatgggggttgtcgcatttgatttggcggttcgggagattctttctcataggcatcgaaatagcagggtgtagaagtcggcttttgttcctatttttgtgactatgttgtgtgtgccgtaaaaacttgaaaaagcgagtacggtttacttactaaataagattaagatgccttgaagaaggatcggatcagacgaccaaatgagaaatgaataacagatacaatacaaaataagaagaataagaaa tcttacactgatcctactacataagacggacgaagagggtgtgtcaaaatgaaaattttggctcaccctctatattttgagattctcctgaaagccggatttaattataaagaggctgtgttgaaattatttttcgatttcctctcactttttgtcgaagctgtttggaatttgtcgaggcctctgcatgggggttgtcgcatttgatttggcggttcgggagattctttctcataggcatcgaaatagcagggtgtagaagtcggcttttgttcctatttttgtgactatgttgtgtgtgccgtaaaaacttgaaaaagcgagtacggtttacttactaaataagattaagatgccttgaagaaggatcggatcagacgaccaaatgagaaatgaataacagatacaatacaaaataagaagaataagaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUUACACUGAUCCUACUACAUAAGACGGACGAAGAGGGUGUGUCAAAAUGAAAAUUUUGGCUCACCCUCUAUAUUUUGAGAUUCUCCUGAAAGCCGGAUUUAAUUAUAAAGAGGCUGUGUUGAAAUUAUUUUUCGAUUUCCUCUCACUUUUUGUCGAAGCUGUUUGGAAUUUGUCGAGGCCUCUGCAUGGGGGUUGUCGCAUUUGAUUUGGCGGUUCGGGAGAUUCUUUCUCAUAGGCAUCGAAAUAGCAGGGUGUAGAAGUCGGCUUUUGUUCCUAUUUUUGUGACUAUGUUGUGUGUGCCGUAAAAACUUGAAAAAGCGAGUACGGUUUACUUACUAAAUAAGAUUAAGAUGCCUUGAAGAAGGAUCGGAUCAGACGACCAAAUGAGAAAUGAAUAACAGAUACAAUACAAAAUAAGAAGAAUAAGAAA (((((..((..(((..((.....))..)))...((((((((.((((((((....)))))))).)))))))).(((((((.((.(((((((((.((((((((.........(((((((..(((((((.....)))))))((((...((((((.....)))).))...))))........)))))))..(((.((....)).)))..))))))))..))))))))).)).(((((((.((((((.........(((..((((((....))))))..)))..((((((......((...(((.((((((....(((....)))....)))))).)))..))...))))))....))))))........((.(((.......)))))..)))))))...................)))))))...))..))))).. (-126.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUCUUAUUCUUCUUAUUUUGUAUUGUAUCUGUUAUUCAUUUCUCAUUUGGUCGUCUGAUCCGAUCCUUCUUCAAGGCAUCUUAAUCUUAUUUAGUAAGUAAACCGUACUCGCUUUUUCAAGUUUUUACGGCACACACAACAUAGUCACAAAAAUAGGAACAAAAGCCGACUUCUACACCCUGCUAUUUCGAUGCCUAUGAGAAAGAAUCUCCCGAACCGCCAAAUCAAAUGCGACAACCCCCAUGCAGAGGCCUCGACAAAUUCCAAACAGCUUCGACAAAAAGUGAGAGGAAAUCGAAAAAUAAUUUCAACACAGCCUCUUUAUAAUUAAAUCCGGCUUUCAGGAGAAUCUCAAAAUAUAGAGGGUGAGCCAAAAUUUUCAUUUUGACACACCCUCUUCGUCCGUCUUAUGUAGUAGGAUCAGUGUAAGA ((((...(((((((((((((...(((...(((((....((((.((....((((.((((....(((.(((..((((((((((....((((((((..........(((((...((((....))))...))))).....((......)).....)))))))).....(((.(...........).))).....))))))).)))..))).)))........(((..........)))............))))))))..)).))))....)))))...)))...)))))))))))))...))))..........((((..(((((.(((((.....(((........)))..............((((((((.(.((((((....)))))).).)))))))).........))))).)).)))....)))).... (-92.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 461 230 183 67 16 NC_002950:PG2179|5end_NADH-ubiquinone_oxidoreductase_2287806..2288036_NEGATIVE 430 79 32 228 178 NC_002950:PG0323|5end_hypothetical_protein_357388..357618_NEGATIVE 391 227 181 226 181 NC_002950:PG1630|5end_hypothetical_protein_1711772..1712002_POSITIVE 391 220 178 63 19 NC_002950:PG1313|5end_dipeptidase-related_protein_1392282..1392512_POSITIVE 387 200 155 102 51 NC_002950:PG0459|5end_ISPg5,_transposase_Orf1_501894..502124_NEGATIVE 377 71 31 41 5 NC_002950:PG1968|5end_hypothetical_protein_2058564..2058794_NEGATIVE 376 226 186 52 10 NC_002950:PG0173|5end_transcriptional_regulator,_putative_194741..194971_NEGATIVE 375 223 181 167 124 NC_002950:PG1495|5end_DNA_topoisomerase_III_1571243..1571473_POSITIVE 373 190 142 53 5 NC_002950:PG0738|5end_cytidine/deoxycytidylate_deaminase_family_protein_786463..786693_POSITIVE 372 220 175 121 63 NC_002950:PG0605|5end_hypothetical_protein_662406..662636_NEGATIVE 368 229 184 218 163 NC_002950:PG1405|5end_hypothetical_protein_1490669..1490899_NEGATIVE 364 220 173 220 175 NC_002950:PG1006|5end_hypothetical_protein_1066478..1066708_NEGATIVE 364 215 176 145 92 NC_002950:PG0229|5end_hypothetical_protein_264872..265102_POSITIVE 363 220 172 225 171 NC_002950:PG0791|5end_adenylate_kinase_843177..843407_NEGATIVE 362 197 157 230 184 NC_002950:PG0127|5end_ferrochelatase_148550..148780_POSITIVE 361 220 174 69 21 NC_002950:PG1475|5end_conjugative_transposon_protein_TraN_1551835..1552065_NEGATIVE 359 220 171 196 136 NC_002950:PG0375|5end_50S_ribosomal_protein_L13_405934..406164_POSITIVE 356 215 174 47 5 NC_002950:PG0336|5end_hypothetical_protein_371292..371522_NEGATIVE 354 230 181 115 55 NC_002950:PG0384|5end_MutS2_family_protein_416095..416325_POSITIVE 353 238 191 114 58 NC_002950:PG1250|5end_hypothetical_protein_1327846..1328076_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 461 230 183 61 10 NC_002950:PG2180|3end_Na(+)-translocating_NADH-quinone_reductase_subunit_C_2287812..2287962_NEGATIVE 417 70 21 46 3 NC_002950:PG0241|3end_lipoprotein,_putative_277360..277510_NEGATIVE 404 230 183 67 13 NC_002950:PG0474|3end_low-specificity_L-threonine_aldolase_515011..515161_NEGATIVE 388 71 34 57 20 NC_002950:PG1414|3end_hypothetical_protein_1499704..1499854_POSITIVE 377 71 31 145 109 NC_002950:PG1968|3end_hypothetical_protein_2058460..2058610_NEGATIVE 375 223 181 78 35 NC_002950:PG1494|3end_hypothetical_protein_1571234..1571384_POSITIVE 375 71 31 63 22 NC_002950:PG1004|3end_prolyl_oligopeptidase_family_protein_1060433..1060583_NEGATIVE 373 200 152 88 45 NC_002950:PG1975|3end_hemagglutinin_protein_HagC_2064350..2064500_POSITIVE 373 190 142 56 8 NC_002950:PG0737|3end_hypothetical_protein_786546..786696_POSITIVE 372 220 175 76 18 NC_002950:PG0606|3end_hypothetical_protein_662451..662601_NEGATIVE 364 218 174 90 45 NC_002950:PG1942|3end_30S_ribosomal_protein_S12_2027946..2028096_NEGATIVE 363 70 23 52 8 NC_002950:PG0553|3end_extracellular_protease,_putative_608367..608517_NEGATIVE 361 70 22 77 22 NC_002950:PG0788|3end_hypothetical_protein_838043..838193_NEGATIVE 356 220 171 149 97 NC_002950:PG1229|3end_hypothetical_protein_1305559..1305709_NEGATIVE 355 220 175 51 6 NC_002950:PG0933|3end_translation_elongation_factor_G,_putative_992236..992386_POSITIVE 354 230 181 105 45 NC_002950:PG0383|3end_membrane-associated_zinc_metalloprotease,_putative_416165..416315_POSITIVE 352 219 171 106 46 NC_002950:PG1721|3end_ribonuclease_R_1812472..1812622_POSITIVE 352 258 211 138 83 NC_002950:PG0740|3end_NLP/P60_family_protein_788485..788635_POSITIVE 350 220 180 122 76 NC_002950:PG2085|3end_tryptophanyl-tRNA_synthetase_2186595..2186745_POSITIVE 347 69 30 53 3 NC_002950:PG0537|3end_aminoacyl-histidine_dipeptidase_588394..588544_POSITIVE