Origin IGS: gctcaccctatctcgtcccgaatcgggacatgcttacttaccctgtacaaagtatgcctcggcaaaaagagcgtatttcgtacagggtatatttgtaccggatgggaaaagagcattatccgtaattcgaaccgcaataatttcactcgtggcacgtgaacccttattcacatttagacgaaaggagtaactttgttcaaaagggggtaacggtgccatacgttattcagcttggcactttccctcatactacttattaaaacattcaagaacaa .........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 ttgttcttgaatgttttaataagtagtatgagggaaagtgccaagctgaataacgtatggcaccgttacccccttttgaacaaagttactcctttcgtctaaatgtgaataagggttcacgtgccacgagtgaaattattgcggttcgaattacggataatgctcttttcccatccggtacaaatataccctgtacgaaatacgctctttttgccgaggcatactttgtacagggtaagtaagcatgtcccgattcgggacgagatagggtgagc Mask Tandem Repeat Region ================================================ gctcaccctatctcgtcccgaatcgggacatgcttacttaccctgtacaaagtatgcctcggcaaaaagagcgtatttcgtacagggtatatttgtaccggatgggaaaagagcattatccgtaattcgaaccgcaataatttcactcgtggcacgtgaacccttattcacatttagacgaaaggagtaactttgttcaaaagggggtaacggtgccatacgttattcagcttggcactttccctcatactacttattaaaacattcaagaacaa Find is-nt database================================================ Query_seq: PG1218:PG1219|PG1218:PG1219:hypothetical protein:hypothetical protein:->->:1296536..1296810 275 gctcaccctatctcgtcccgaatcgggacatgcttacttaccctgtacaaagtatgcctcggcaaaaagagcgtatttcgtacagggtatatttgtaccggatgggaaaagagcattatccgtaattcgaaccgcaataatttcactcgtggcacgtgaacccttattcacatttagacgaaaggagtaactttgttcaaaagggggtaacggtgccatacgttattcagcttggcactttccctcatactacttattaaaacattcaagaacaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1218:PG1219|PG1218:PG1219:hypothetical protein:hypothetical protein:->->:1296536..1296810 275 gctcaccctatctcgtcccgaatcgggacatgcttacttaccctgtacaaagtatgcctcggcaaaaagagcgtatttcgtacagggtatatttgtaccggatgggaaaagagcattatccgtaattcgaaccgcaataatttcactcgtggcacgtgaacccttattcacatttagacgaaaggagtaactttgttcaaaagggggtaacggtgccatacgttattcagcttggcactttccctcatactacttattaaaacattcaagaacaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1218:PG1219|PG1218:PG1219:hypothetical protein:hypothetical protein:->->:1296536..1296810 275 gctcaccctatctcgtcccgaatcgggacatgcttacttaccctgtacaaagtatgcctcggcaaaaagagcgtatttcgtacagggtatatttgtaccggatgggaaaagagcattatccgtaattcgaaccgcaataatttcactcgtggcacgtgaacccttattcacatttagacgaaaggagtaactttgttcaaaagggggtaacggtgccatacgttattcagcttggcactttccctcatactacttattaaaacattcaagaacaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gctcaccctatctcgtcccgaatcgggacatgcttacttaccctgtacaaagtatgcctcggcaaaaagagcgtatttcgtacagggtatatttgtaccggatgggaaaagagcattatccgtaattcgaaccgcaataatttcactcgtggcacgtgaacccttattcacatttagacgaaaggagtaactttgttcaaaagggggtaacggtgccatacgttattcagcttggcactttccctcatactacttattaaaacattcaagaacaa Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 30 End: 122 ............................. M L T Y P V Q S M P R Q K E R I S Y R V Y L Y R M G K E H Y P ......................................................................................................................................................... Protein_Len: 49 Strand: + Start: 10 End: 156 ......... M S S R I G T C L L T L Y K V C L G K K S V F R T G Y I C T G W E K S I I R N S N R N N F T R G T ....................................................................................................................... Protein_Len: 33 Strand: + Start: 89 End: 187 ........................................................................................ M F V P D G K R A L S V I R T A I I S L V A R E P L F T F R R K E ........................................................................................ Protein_Len: 34 Strand: + Start: 156 End: 257 ........................................................................................................................................................... M N P Y S H L D E R S N F V Q K G V T V P Y V I Q L G T F P H T T Y .................. Protein_Len: 33 Strand: - Start: 177 End: 275 ................................................................................................................................................................................ V F P T V K N L L P Y R H W V N N L K A S E R M S S I L V N L F M Protein_Len: 60 Strand: - Start: 37 End: 219 .................................... G Q V F Y A E A F L A Y K T C P I N T G S P F L A N D T I R V A I I E S T A R S G K N V N L R F S Y S Q E F P P L P A M ........................................................ Protein_Len: 55 Strand: - Start: 6 End: 167 ..... * G I E D R I P V H K S V R Y L T H R P L F L T N R V P Y I Q V P H S F L M I R L E F R L L K V R P V H V R M ............................................................................................................ gctcaccctatctcgtcccgaatcgggacatgcttacttaccctgtacaaagtatgcctcggcaaaaagagcgtatttcgtacagggtatatttgtaccggatgggaaaagagcattatccgtaattcgaaccgcaataatttcactcgtggcacgtgaacccttattcacatttagacgaaaggagtaactttgttcaaaagggggtaacggtgccatacgttattcagcttggcactttccctcatactacttattaaaacattcaagaacaa 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================================================ gctcaccctatctcgtcccgaatcgggacatgcttacttaccctgtacaaagtatgcctcggcaaaaagagcgtatttcgtacagggtatatttgtaccggatgggaaaagagcattatccgtaattcgaaccgcaataatttcactcgtggcacgtgaacccttattcacatttagacgaaaggagtaactttgttcaaaagggggtaacggtgccatacgttattcagcttggcactttccctcatactacttattaaaacattcaagaacaa Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 58 HP_score: -4.2 Tail_Score: -3.86897 Start: 38 End: 91 Full_Region: TCGGGACATGCTTAC TTACCCTGTACAAAGTATGCCTC GGCAAAAA GAGCGTATTTCGTACAGGGTATA TTTGTACCGGATGGG .....................................TTACCCTGTACAAAGTATGCCTCGGCAAAAAGAGCGTATTTCGTACAGGGTATA........................................................................................................................................................................................ TransTerm Strand: + Conf: 72 HP_score: -9.3 Tail_Score: -3.5241 Start: 39 End: 89 Full_Region: CGGGACATGCTTACT TACCCTGTACAAAGTATGCCTC GGCAAAAA GAGCGTATTTCGTACAGGGTA TATTTGTACCGGATG ......................................TACCCTGTACAAAGTATGCCTCGGCAAAAAGAGCGTATTTCGTACAGGGTA.......................................................................................................................................................................................... TransTerm Strand: + Conf: 43 HP_score: -3.3 Tail_Score: -2.71712 Start: 156 End: 171 Full_Region: TTTCACTCGTGGCAC GTGAA CCCTTA TTCAC ATTTAGACGAAAGGA ...........................................................................................................................................................GTGAACCCTTATTCAC........................................................................................................ Find igs database================================================ Query_seq: PG1218:PG1219|PG1218:PG1219:hypothetical protein:hypothetical protein:->->:1296536..1296810 275 gctcaccctatctcgtcccgaatcgggacatgcttacttaccctgtacaaagtatgcctcggcaaaaagagcgtatttcgtacagggtatatttgtaccggatgggaaaagagcattatccgtaattcgaaccgcaataatttcactcgtggcacgtgaacccttattcacatttagacgaaaggagtaactttgttcaaaagggggtaacggtgccatacgttattcagcttggcactttccctcatactacttattaaaacattcaagaacaa Intra-Species Hit: Count: 1 Min: 1 Max: 275 Len: 275 Subject: NC_002950_PG1218_PG1219|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1296536,1296810]|275 HSP 1 e-value: 1.0E-154 bit: 545.0 Len: 275 Query Start:1 Query End:275 Subject Strand: POSITIVE Subject Start: 1 Subject End: 275 gctcaccctatctcgtcccgaatcgggacatgcttacttaccctgtacaaagtatgcctcggcaaaaagagcgtatttcgtacagggtatatttgtaccggatgggaaaagagcattatccgtaattcgaaccgcaataatttcactcgtggcacgtgaacccttattcacatttagacgaaaggagtaactttgttcaaaagggggtaacggtgccatacgttattcagcttggcactttccctcatactacttattaaaacattcaagaacaa gctcaccctatctcgtcccgaatcgggacatgcttacttaccctgtacaaagtatgcctcggcaaaaagagcgtatttcgtacagggtatatttgtaccggatgggaaaagagcattatccgtaattcgaaccgcaataatttcactcgtggcacgtgaacccttattcacatttagacgaaaggagtaactttgttcaaaagggggtaacggtgccatacgttattcagcttggcactttccctcatactacttattaaaacattcaagaacaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCUCACCCUAUCUCGUCCCGAAUCGGGACAUGCUUACUUACCCUGUACAAAGUAUGCCUCGGCAAAAAGAGCGUAUUUCGUACAGGGUAUAUUUGUACCGGAUGGGAAAAGAGCAUUAUCCGUAAUUCGAACCGCAAUAAUUUCACUCGUGGCACGUGAACCCUUAUUCACAUUUAGACGAAAGGAGUAACUUUGUUCAAAAGGGGGUAACGGUGCCAUACGUUAUUCAGCUUGGCACUUUCCCUCAUACUACUUAUUAAAACAUUCAAGAACAA ((((..(((((((.((((((...)))))).(((..(..((((((((((.((((((((.((........)))))))))).))))))))))..)..)))..)))))))....))))....(((....((((..((((.............))))...(((((......))))).......)))).)))......((((((....(((((....(((((((..(........)..)))))))..)))))....((.....))..........)))))) (-87.22) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUGUUCUUGAAUGUUUUAAUAAGUAGUAUGAGGGAAAGUGCCAAGCUGAAUAACGUAUGGCACCGUUACCCCCUUUUGAACAAAGUUACUCCUUUCGUCUAAAUGUGAAUAAGGGUUCACGUGCCACGAGUGAAAUUAUUGCGGUUCGAAUUACGGAUAAUGCUCUUUUCCCAUCCGGUACAAAUAUACCCUGUACGAAAUACGCUCUUUUUGCCGAGGCAUACUUUGUACAGGGUAAGUAAGCAUGUCCCGAUUCGGGACGAGAUAGGGUGAGC (..((((...((((((.........((((((((((((((((((.((........)).))))))(((((.((...(((((((..(((.......(((((....((((((((....))))))))...))))).......)))...)))))))....)).)))))....)))))).))..)))).....(((((((((((((.((.((.(((......))))).)).)))))))))))))...))))))((((((...)))))).....))))..).. (-81.14) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 369 246 202 103 60 NC_002950:PG0767|5end_4-alpha-glucanotransferase_820533..820763_NEGATIVE 346 236 191 107 62 NC_002950:PG0295|5end_DNA_processing_protein_DprA,_putative_331300..331530_NEGATIVE 340 107 70 80 37 NC_002950:PG0704|5end_phosphoglycerate_mutase_family_protein_758928..759158_POSITIVE 329 238 191 184 131 NC_002950:PG1351|5end_hypothetical_protein_1432744..1432974_NEGATIVE 324 248 202 195 153 NC_002950:PG1481|5end_conjugative_transposon_protein_TraG_1558447..1558677_NEGATIVE 323 244 202 120 69 NC_002950:PG1189|5end_hypothetical_protein_1269992..1270222_POSITIVE 316 43 8 189 155 NC_002950:PG1449|5end_hypothetical_protein_1534262..1534492_NEGATIVE 316 87 51 217 179 NC_002950:PG0960|5end_tRNA_(guanine-N(7)-)-methyltransferase_1021895..1022125_NEGATIVE 316 43 8 189 155 NC_002950:PG0824|5end_hypothetical_protein_881170..881400_POSITIVE 313 236 193 196 159 NC_002950:PG0137|5end_aminoacyl-histidine_dipeptidase_159104..159334_POSITIVE 312 48 1 125 73 NC_002950:PG0753|5end_protease_798301..798531_POSITIVE 311 57 12 68 26 NC_002950:PG1365|5end_16S_rRNA-processing_protein_1446069..1446299_NEGATIVE 311 115 71 149 107 NC_002950:PG0229|5end_hypothetical_protein_264872..265102_POSITIVE 310 50 6 126 86 NC_002950:PG0133|5end_hypothetical_protein_155764..155994_NEGATIVE 306 139 92 90 38 NC_002950:PG1249|5end_1-acyl-sn-glycerol-3-phosphate_acetyltransferase,_putative_1327161..1327391_NEGATIVE 306 238 191 96 29 NC_002950:PG0977|5end_ubiquinone/menaquinone_biosynthesis_methyltransferase_1039299..1039529_POSITIVE 306 246 201 135 75 NC_002950:PG0324|5end_histidine_ammonia-lyase_359082..359312_NEGATIVE 302 241 202 37 1 NC_002950:PG1106|5end_UDP-N-acetylmuramoylalanyl-D-glutamyl-2,_6-diaminopimelate--D-alanyl-D-alanyl_ligase_1178429..1178659_NEGATIVE 299 245 203 118 64 NC_002950:PG2019|5end_hypothetical_protein_2111662..2111892_NEGATIVE 299 248 201 72 17 NC_002950:PG0933|5end_translation_elongation_factor_G,_putative_989997..990227_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 421 89 41 52 4 NC_002950:PG1218|3end_hypothetical_protein_1296475..1296625_POSITIVE 346 236 191 114 69 NC_002950:PG0296|3end_phosphoribosylformylglycinamidine_synthase_331293..331443_NEGATIVE 340 107 70 78 35 NC_002950:PG0703|3end_cobalamin_(5'-phosphate)_synthase,_putative_759006..759156_POSITIVE 337 109 61 97 47 NC_002950:PG0013|3end_hypothetical_protein_16441..16591_POSITIVE 324 105 61 59 11 NC_002950:PG0636|3end_MATE_efflux_family_protein_687707..687857_NEGATIVE 316 43 8 151 117 NC_002950:PG1450|3end_hypothetical_protein_1534300..1534450_NEGATIVE 316 43 8 151 117 NC_002950:PG0823|3end_hypothetical_protein_881212..881362_POSITIVE 312 48 1 141 89 NC_002950:PG0752|3end_uracil_phosphoribosyltransferase_798397..798547_POSITIVE 311 57 12 61 19 NC_002950:PG1366|3end_UDP-N-acetylglucosamine_1-carboxyvinyltransferase_1446076..1446226_NEGATIVE 310 50 6 107 67 NC_002950:PG0134|3end_magnesium_transporter_155783..155933_NEGATIVE 308 60 11 125 69 NC_002950:PG2214|3end_hypothetical_protein_2325301..2325451_NEGATIVE 306 139 92 67 15 NC_002950:PG1250|3end_hypothetical_protein_1327184..1327334_NEGATIVE 306 238 191 64 2 NC_002950:PG0976|3end_phosphoribosylaminoimidazole-succinocarboxamide_synthase_1039347..1039497_POSITIVE 306 246 201 132 72 NC_002950:PG0325|3end_hypothetical_protein_359085..359235_NEGATIVE 305 246 202 149 95 NC_002950:PG1966|3end_hypothetical_protein_2056118..2056268_NEGATIVE 298 64 24 143 99 NC_002950:PG2205|3end_2-dehydropantoate_2-reductase_2317145..2317295_POSITIVE 298 130 84 84 37 NC_002950:PG1760|3end_ABC_transporter,_ATP-binding_protein_1847216..1847366_POSITIVE 298 246 201 63 31 NC_002950:PG1226|3end_peptidyl-prolyl_cis-trans_isomerase,_cyclophilin-type_1304048..1304198_POSITIVE 296 88 42 64 22 NC_002950:PG2216|3end_hypothetical_protein_2329530..2329680_POSITIVE 291 246 201 62 13 NC_002950:PG1649|3end_hypothetical_protein_1730030..1730180_NEGATIVE