Origin IGS: gttgatataatggtacccccaaaaactagttgttcattcaaaatcagtttctattcaagatagttgtgtgttaaaaacttgggatgttaggctatgctataaacttaaaagtgacatagtctcatctttcaatagcatataattgtaatatgccttttcttacttatttctacaatcgatgaacgaaaaaattgta .........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 tacaattttttcgttcatcgattgtagaaataagtaagaaaaggcatattacaattatatgctattgaaagatgagactatgtcacttttaagtttatagcatagcctaacatcccaagtttttaacacacaactatcttgaatagaaactgattttgaatgaacaactagtttttgggggtaccattatatcaac Mask Tandem Repeat Region ================================================ gttgatataatggtacccccaaaaactagttgttcattcaaaatcagtttctattcaagatagttgtgtgttaaaaacttgggatgttaggctatgctataaacttaaaagtgacatagtctcatctttcaatagcatataattgtaatatgccttttcttacttatttctacaatcgatgaacgaaaaaattgta Find is-nt database================================================ Query_seq: PG0182:PG0183|PG0182:PG0183:von Willebrand factor type A domain protein:lipoprotein, putative:->->:209373..209568 196 gttgatataatggtacccccaaaaactagttgttcattcaaaatcagtttctattcaagatagttgtgtgttaaaaacttgggatgttaggctatgctataaacttaaaagtgacatagtctcatctttcaatagcatataattgtaatatgccttttcttacttatttctacaatcgatgaacgaaaaaattgta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0182:PG0183|PG0182:PG0183:von Willebrand factor type A domain protein:lipoprotein, putative:->->:209373..209568 196 gttgatataatggtacccccaaaaactagttgttcattcaaaatcagtttctattcaagatagttgtgtgttaaaaacttgggatgttaggctatgctataaacttaaaagtgacatagtctcatctttcaatagcatataattgtaatatgccttttcttacttatttctacaatcgatgaacgaaaaaattgta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0182:PG0183|PG0182:PG0183:von Willebrand factor type A domain protein:lipoprotein, putative:->->:209373..209568 196 gttgatataatggtacccccaaaaactagttgttcattcaaaatcagtttctattcaagatagttgtgtgttaaaaacttgggatgttaggctatgctataaacttaaaagtgacatagtctcatctttcaatagcatataattgtaatatgccttttcttacttatttctacaatcgatgaacgaaaaaattgta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gttgatataatggtacccccaaaaactagttgttcattcaaaatcagtttctattcaagatagttgtgtgttaaaaacttgggatgttaggctatgctataaacttaaaagtgacatagtctcatctttcaatagcatataattgtaatatgccttttcttacttatttctacaatcgatgaacgaaaaaattgta Predict ORF larger than 30AA ================================================ gttgatataatggtacccccaaaaactagttgttcattcaaaatcagtttctattcaagatagttgtgtgttaaaaacttgggatgttaggctatgctataaacttaaaagtgacatagtctcatctttcaatagcatataattgtaatatgccttttcttacttatttctacaatcgatgaacgaaaaaattgta 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================================================ gttgatataatggtacccccaaaaactagttgttcattcaaaatcagtttctattcaagatagttgtgtgttaaaaacttgggatgttaggctatgctataaacttaaaagtgacatagtctcatctttcaatagcatataattgtaatatgccttttcttacttatttctacaatcgatgaacgaaaaaattgta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG0182:PG0183|PG0182:PG0183:von Willebrand factor type A domain protein:lipoprotein, putative:->->:209373..209568 196 gttgatataatggtacccccaaaaactagttgttcattcaaaatcagtttctattcaagatagttgtgtgttaaaaacttgggatgttaggctatgctataaacttaaaagtgacatagtctcatctttcaatagcatataattgtaatatgccttttcttacttatttctacaatcgatgaacgaaaaaattgta Intra-Species Hit: Count: 1 Min: 1 Max: 196 Len: 196 Subject: NC_002950_PG0182_PG0183|von Willebrand factor type A domain protein:lipoprotein, putative|POSITIVE:POSITIVE|[209373,209568]|196 HSP 1 e-value: 1.0E-107 bit: 389.0 Len: 196 Query Start:1 Query End:196 Subject Strand: POSITIVE Subject Start: 1 Subject End: 196 gttgatataatggtacccccaaaaactagttgttcattcaaaatcagtttctattcaagatagttgtgtgttaaaaacttgggatgttaggctatgctataaacttaaaagtgacatagtctcatctttcaatagcatataattgtaatatgccttttcttacttatttctacaatcgatgaacgaaaaaattgta gttgatataatggtacccccaaaaactagttgttcattcaaaatcagtttctattcaagatagttgtgtgttaaaaacttgggatgttaggctatgctataaacttaaaagtgacatagtctcatctttcaatagcatataattgtaatatgccttttcttacttatttctacaatcgatgaacgaaaaaattgta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUUGAUAUAAUGGUACCCCCAAAAACUAGUUGUUCAUUCAAAAUCAGUUUCUAUUCAAGAUAGUUGUGUGUUAAAAACUUGGGAUGUUAGGCUAUGCUAUAAACUUAAAAGUGACAUAGUCUCAUCUUUCAAUAGCAUAUAAUUGUAAUAUGCCUUUUCUUACUUAUUUCUACAAUCGAUGAACGAAAAAAUUGUA ..........(((.....)))........(((((((((........(........)...((((((((((((((.......((((((..((((((((.(((..........))).))))))))))))))....))))))))))))))...............................))))))))).......... (-33.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UACAAUUUUUUCGUUCAUCGAUUGUAGAAAUAAGUAAGAAAAGGCAUAUUACAAUUAUAUGCUAUUGAAAGAUGAGACUAUGUCACUUUUAAGUUUAUAGCAUAGCCUAACAUCCCAAGUUUUUAACACACAACUAUCUUGAAUAGAAACUGAUUUUGAAUGAACAACUAGUUUUUGGGGGUACCAUUAUAUCAAC ............(((((((((...(((...((..(((((...(((((((.......))))))).......((((((.((((((.(((....))).....)))))).))..))))......................)))))..))....)))...))).))))))..........(((.....))).......... (-30.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 302 98 63 208 169 NC_002950:PG0902|5end_alpha-1,2-mannosidase_family_protein_968971..969201_NEGATIVE 287 130 89 192 144 NC_002950:PG1418|5end_DNA_polymerase_III,_gamma_and_tau_subunits_1503064..1503294_POSITIVE 283 130 89 97 52 NC_002950:PG1599|5end_hypothetical_protein_1679087..1679317_POSITIVE 256 167 130 193 154 NC_002950:PG1563|5end_glucose-1-phosphate_thymidylyltransferase_1642466..1642696_NEGATIVE 256 100 54 91 44 NC_002950:PG1248|5end_hypothetical_protein_1326532..1326762_NEGATIVE 256 115 76 49 7 NC_002950:PG1210|5end_peptidase,_M24_family_1289044..1289274_POSITIVE 232 57 11 162 110 NC_002950:PG1589|5end_dihydropteroate_synthase_1667438..1667668_NEGATIVE 231 56 11 110 61 NC_002950:PG0497|5end_5'-methylthioadenosine/S-adenosylhomocysteine_nucleosidase_537257..537487_POSITIVE 230 185 147 71 21 NC_002950:PG1551|5end_hmuY_protein_1628438..1628668_POSITIVE 227 137 95 207 162 NC_002950:PG1202|5end_hypothetical_protein_1283014..1283244_NEGATIVE 227 159 118 146 107 NC_002950:PG1143|5end_sugar_dehydrogenase,_UDP-glucose/GDP-mannose_dehydrogenase_family_1227198..1227428_NEGATIVE 226 100 59 69 20 NC_002950:PG0214|5end_RNA_polymerase_sigma-70_factor,_ECF_subfamily_250963..251193_POSITIVE 225 127 89 74 33 NC_002950:PG0866|5end_hypothetical_protein_928983..929213_POSITIVE 225 88 52 45 3 NC_002950:PG0037|5end_50S_ribosomal_protein_L19_46519..46749_POSITIVE 221 88 46 169 121 NC_002950:PG0257|5end_hypothetical_protein_290034..290264_POSITIVE 219 129 81 59 6 NC_002950:PG1936|5end_ribosomal_protein_L23_2023492..2023722_NEGATIVE 216 128 90 94 58 NC_002950:PG1467|5end_methlytransferase,_UbiE/COQ5_family_1543210..1543440_POSITIVE 216 97 51 214 168 NC_002950:PG0588|5end_3-methyl-2-oxobutanoate_hydroxymethyltransferase_646117..646347_NEGATIVE 213 93 55 171 139 NC_002950:PG1972|5end_hemagglutinin_protein_HagB_2060002..2060232_POSITIVE 213 98 58 66 31 NC_002950:PG0413|5end_hypothetical_protein_451781..452011_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 302 98 63 81 42 NC_002950:PG0903|3end_hypothetical_protein_969098..969248_NEGATIVE 287 130 89 69 21 NC_002950:PG1417|3end_fumarate_hydratase_class_I,_anaerobic_1503021..1503171_POSITIVE 283 130 89 100 55 NC_002950:PG1598|3end_lipoprotein_signal_peptidase,_putative_1679170..1679320_POSITIVE 256 167 130 78 39 NC_002950:PG1564|3end_hypothetical_protein_1642581..1642731_NEGATIVE 256 100 54 76 29 NC_002950:PG1249|3end_1-acyl-sn-glycerol-3-phosphate_acetyltransferase,_putative_1326547..1326697_NEGATIVE 231 56 11 113 64 NC_002950:PG0496|3end_hypothetical_protein_537340..537490_POSITIVE 221 88 46 135 87 NC_002950:PG0256|3end_CvpA_family_protein_290080..290230_POSITIVE 216 128 90 79 43 NC_002950:PG1466|3end_hypothetical_protein_1543275..1543425_POSITIVE 216 97 51 143 97 NC_002950:PG0589|3end_bifunctional_GMP_synthase/glutamine_amidotransferase_protein_646188..646338_NEGATIVE 213 98 58 75 40 NC_002950:PG0414|3end_hypothetical_protein_451772..451922_NEGATIVE 212 159 118 40 5 NC_002950:PG0737|3end_hypothetical_protein_786546..786696_POSITIVE 211 50 10 56 16 NC_002950:PG0668|3end_TonB-dependent_receptor_719804..719954_POSITIVE 210 155 117 92 45 NC_002950:PG1180|3end_hypothetical_protein_1261210..1261360_NEGATIVE 208 101 63 141 107 NC_002950:PG1967|3end_TPR_domain_protein_2058135..2058285_POSITIVE 208 106 63 149 95 NC_002950:PG0778|3end_hypothetical_protein_831150..831300_NEGATIVE 208 115 79 70 36 NC_002950:PG0631|3end_MotA/TolQ/ExbB_proton_channel_family_protein_684960..685110_POSITIVE 204 89 42 110 69 NC_002950:PG0237|3end_uracil-DNA_glycosylase_275526..275676_POSITIVE 203 87 42 109 54 NC_002950:PG2125|3end_transcriptional_regulator,_AraC_family_2231376..2231526_NEGATIVE 203 98 51 128 65 NC_002950:PG1815|3end_3-deoxy-manno-octulosonate_cytidylyltransferase_1910669..1910819_NEGATIVE 198 129 81 64 8 NC_002950:PG2170|3end_sugar_transporter_2276685..2276835_NEGATIVE