Origin IGS: tttatattcgagtggtgttttataaatattcaaaagagaaaagtatccggttttcttggaatcttgaaagaagataaacaaagatatttcactacctatattactaaggtgagagatgcgataaagatagatgctatacaattaatgagaggtgtgaaaccttcttttggataatggatgcgcgaaattaattgtaaatatgactgtcgtaaatacagggaaaatttaaggtaaggtaaaaataga .........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 tctatttttaccttaccttaaattttccctgtatttacgacagtcatatttacaattaatttcgcgcatccattatccaaaagaaggtttcacacctctcattaattgtatagcatctatctttatcgcatctctcaccttagtaatataggtagtgaaatatctttgtttatcttctttcaagattccaagaaaaccggatacttttctcttttgaatatttataaaacaccactcgaatataaa Mask Tandem Repeat Region ================================================ tttatattcgagtggtgttttataaatattcaaaagagaaaagtatccggttttcttggaatcttgaaagaagataaacaaagatatttcactacctatattactaaggtgagagatgcgataaagatagatgctatacaattaatgagaggtgtgaaaccttcttttggataatggatgcgcgaaattaattgtaaatatgactgtcgtaaatacagggaaaatttaaggtaaggtaaaaataga Find is-nt database================================================ Query_seq: PG0106:PG0108|PG0106:PG0108:glycosyl transferase, group 4 family protein:UDP-N-acetyl-D-mannosaminuronic acid dehydrogenase:->->:129995..130240 246 tttatattcgagtggtgttttataaatattcaaaagagaaaagtatccggttttcttggaatcttgaaagaagataaacaaagatatttcactacctatattactaaggtgagagatgcgataaagatagatgctatacaattaatgagaggtgtgaaaccttcttttggataatggatgcgcgaaattaattgtaaatatgactgtcgtaaatacagggaaaatttaaggtaaggtaaaaataga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0106:PG0108|PG0106:PG0108:glycosyl transferase, group 4 family protein:UDP-N-acetyl-D-mannosaminuronic acid dehydrogenase:->->:129995..130240 246 tttatattcgagtggtgttttataaatattcaaaagagaaaagtatccggttttcttggaatcttgaaagaagataaacaaagatatttcactacctatattactaaggtgagagatgcgataaagatagatgctatacaattaatgagaggtgtgaaaccttcttttggataatggatgcgcgaaattaattgtaaatatgactgtcgtaaatacagggaaaatttaaggtaaggtaaaaataga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0106:PG0108|PG0106:PG0108:glycosyl transferase, group 4 family protein:UDP-N-acetyl-D-mannosaminuronic acid dehydrogenase:->->:129995..130240 246 tttatattcgagtggtgttttataaatattcaaaagagaaaagtatccggttttcttggaatcttgaaagaagataaacaaagatatttcactacctatattactaaggtgagagatgcgataaagatagatgctatacaattaatgagaggtgtgaaaccttcttttggataatggatgcgcgaaattaattgtaaatatgactgtcgtaaatacagggaaaatttaaggtaaggtaaaaataga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tttatattcgagtggtgttttataaatattcaaaagagaaaagtatccggttttcttggaatcttgaaagaagataaacaaagatatttcactacctatattactaaggtgagagatgcgataaagatagatgctatacaattaatgagaggtgtgaaaccttcttttggataatggatgcgcgaaattaattgtaaatatgactgtcgtaaatacagggaaaatttaaggtaaggtaaaaataga Predict ORF larger than 30AA ================================================ Protein_Len: 56 Strand: + Start: 4 End: 171 ... M F E W C F I N I Q K R K V S G F L G I L K E D K Q R Y F T T Y I T K V R D A I K I D A I Q L M R G V K P S F G ........................................................................... Protein_Len: 40 Strand: - Start: 99 End: 218 .................................................................................................. I V L T L S A I F I S A I C N I L P T F G E K P Y H I R S I L Q L Y S Q R L Y M ............................ Protein_Len: 47 Strand: - Start: 1 End: 141 K Y E L P T K Y I N L L S F Y G T K K S D Q F F I F L S I E S G I N S L H S I R Y L Y I S Y M ......................................................................................................... tttatattcgagtggtgttttataaatattcaaaagagaaaagtatccggttttcttggaatcttgaaagaagataaacaaagatatttcactacctatattactaaggtgagagatgcgataaagatagatgctatacaattaatgagaggtgtgaaaccttcttttggataatggatgcgcgaaattaattgtaaatatgactgtcgtaaatacagggaaaatttaaggtaaggtaaaaataga 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================================================ tttatattcgagtggtgttttataaatattcaaaagagaaaagtatccggttttcttggaatcttgaaagaagataaacaaagatatttcactacctatattactaaggtgagagatgcgataaagatagatgctatacaattaatgagaggtgtgaaaccttcttttggataatggatgcgcgaaattaattgtaaatatgactgtcgtaaatacagggaaaatttaaggtaaggtaaaaataga Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG0106:PG0108|PG0106:PG0108:glycosyl transferase, group 4 family protein:UDP-N-acetyl-D-mannosaminuronic acid dehydrogenase:->->:129995..130240 246 tttatattcgagtggtgttttataaatattcaaaagagaaaagtatccggttttcttggaatcttgaaagaagataaacaaagatatttcactacctatattactaaggtgagagatgcgataaagatagatgctatacaattaatgagaggtgtgaaaccttcttttggataatggatgcgcgaaattaattgtaaatatgactgtcgtaaatacagggaaaatttaaggtaaggtaaaaataga Intra-Species Hit: Count: 1 Min: 1 Max: 246 Len: 246 Subject: NC_002950_PG0106_PG0108|glycosyl transferase, group 4 family protein:UDP-N-acetyl-D-mannosaminuronic acid dehydrogenase|POSITIVE:POSITIVE|[129995,130240]|246 HSP 1 e-value: 1.0E-137 bit: 488.0 Len: 246 Query Start:1 Query End:246 Subject Strand: POSITIVE Subject Start: 1 Subject End: 246 tttatattcgagtggtgttttataaatattcaaaagagaaaagtatccggttttcttggaatcttgaaagaagataaacaaagatatttcactacctatattactaaggtgagagatgcgataaagatagatgctatacaattaatgagaggtgtgaaaccttcttttggataatggatgcgcgaaattaattgtaaatatgactgtcgtaaatacagggaaaatttaaggtaaggtaaaaataga tttatattcgagtggtgttttataaatattcaaaagagaaaagtatccggttttcttggaatcttgaaagaagataaacaaagatatttcactacctatattactaaggtgagagatgcgataaagatagatgctatacaattaatgagaggtgtgaaaccttcttttggataatggatgcgcgaaattaattgtaaatatgactgtcgtaaatacagggaaaatttaaggtaaggtaaaaataga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUAUAUUCGAGUGGUGUUUUAUAAAUAUUCAAAAGAGAAAAGUAUCCGGUUUUCUUGGAAUCUUGAAAGAAGAUAAACAAAGAUAUUUCACUACCUAUAUUACUAAGGUGAGAGAUGCGAUAAAGAUAGAUGCUAUACAAUUAAUGAGAGGUGUGAAACCUUCUUUUGGAUAAUGGAUGCGCGAAAUUAAUUGUAAAUAUGACUGUCGUAAAUACAGGGAAAAUUUAAGGUAAGGUAAAAAUAGA (((((..((.....(((((((((...(((((((((((....((((((..((((((((..........)))))))).......(.((((((..(((((.........))))).)))))))..........))))))..............((((.....)))))))))))))))))))).))))....((..(((((..((((.....))))..)))))..)).......))....)))))...... (-41.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUAUUUUUACCUUACCUUAAAUUUUCCCUGUAUUUACGACAGUCAUAUUUACAAUUAAUUUCGCGCAUCCAUUAUCCAAAAGAAGGUUUCACACCUCUCAUUAAUUGUAUAGCAUCUAUCUUUAUCGCAUCUCUCACCUUAGUAAUAUAGGUAGUGAAAUAUCUUUGUUUAUCUUCUUUCAAGAUUCCAAGAAAACCGGAUACUUUUCUCUUUUGAAUAUUUAUAAAACACCACUCGAAUAUAAA .............................(((((((..(((((..(((((((((((((((......................((((((.....)))).))))))))))))...((.((((((.(((..(.............)..))).)))))))).)))))..)))))........(((((((.....((((((........)))))).)))))))...................))))))).. (-26.46) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 266 220 171 100 51 NC_002950:PG1989|5end_hypothetical_protein_2079101..2079331_NEGATIVE 258 150 106 106 60 NC_002950:PG0061|5end_yngK_protein_72145..72375_POSITIVE 248 237 199 117 79 NC_002950:PG0127|5end_ferrochelatase_148550..148780_POSITIVE 246 209 164 148 98 NC_002950:PG0395|5end_DNA-directed_RNA_polymerase_beta'_subunit_428924..429154_POSITIVE 246 186 148 201 167 NC_002950:PG0306|5end_electron_transport_complex,_RnfABCDGE_type,_G_subunit_341916..342146_POSITIVE 244 185 144 61 14 NC_002950:PG1435|5end_integrase_1520303..1520533_POSITIVE 243 195 151 223 181 NC_002950:PG0375|5end_50S_ribosomal_protein_L13_405934..406164_POSITIVE 242 185 146 218 176 NC_002950:PG1176|5end_ABC_transporter,_ATP-binding_protein,_putative_1257644..1257874_NEGATIVE 242 185 146 93 51 NC_002950:PG0938|5end_calcium-transporting_ATPase_1000385..1000615_NEGATIVE 242 172 131 135 95 NC_002950:PG0811|5end_Holliday_junction_DNA_helicase_motor_protein_873209..873439_NEGATIVE 241 186 148 174 139 NC_002950:PG1925|5end_ribosomal_protein_S14_2018675..2018905_NEGATIVE 240 152 115 179 139 NC_002950:PG0838|5end_integrase_895477..895707_POSITIVE 237 160 112 57 18 NC_002950:PG2104|5end_hypothetical_protein_2213619..2213849_NEGATIVE 235 51 11 162 115 NC_002950:PG0882|5end_hypothetical_protein_944195..944425_POSITIVE 235 184 147 64 22 NC_002950:PG0155|5end_riboflavin_biosynthesis_protein_RibD_178853..179083_NEGATIVE 234 200 151 130 71 NC_002950:PG1576|5end_L-aspartate_oxidase_1653016..1653246_POSITIVE 233 186 151 48 12 NC_002950:PG0624|5end_hypothetical_protein_678078..678308_POSITIVE 232 50 9 227 187 NC_002950:PG1230|5end_hypothetical_protein_1308068..1308298_NEGATIVE 230 130 106 126 101 NC_002950:PG1365|5end_16S_rRNA-processing_protein_1446069..1446299_NEGATIVE 230 183 148 70 29 NC_002950:PG1317|5end_hypothetical_protein_1397154..1397384_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 258 150 106 59 13 NC_002950:PG0060|3end_hypothetical_protein_72178..72328_POSITIVE 254 185 145 140 93 NC_002950:PG0328|3end_imidazolonepropionase_362155..362305_NEGATIVE 246 185 145 115 66 NC_002950:PG1723|3end_ribosomal_protein_S20_1813403..1813553_POSITIVE 246 209 164 82 32 NC_002950:PG0394|3end_DNA-directed_RNA_polymerase_beta_subunit_428938..429088_POSITIVE 244 184 145 147 100 NC_002950:PG0775|3end_acyl-CoA_dehydrogenase_family_protein_827432..827582_NEGATIVE 242 185 146 68 26 NC_002950:PG1906|3end_ISPg1,_transposase_2006572..2006722_POSITIVE 242 185 146 68 26 NC_002950:PG1624|3end_ISPg1,_transposase_1706188..1706338_NEGATIVE 242 185 146 68 26 NC_002950:PG1448|3end_ISPg1,_transposase_1533449..1533599_POSITIVE 242 185 146 68 26 NC_002950:PG1320|3end_ISPg1,_transposase,_internal_deletion_1399467..1399617_POSITIVE 242 185 146 68 26 NC_002950:PG1197|3end_ISPg1,_transposase_1275475..1275625_NEGATIVE 242 185 146 68 26 NC_002950:PG1177|3end_ISPg1,_transposase_1257794..1257944_NEGATIVE 242 185 146 68 26 NC_002950:PG1031|3end_ISPg1,_transposase_1093081..1093231_NEGATIVE 242 185 146 68 26 NC_002950:PG0825|3end_ISPg1,_transposase_882063..882213_NEGATIVE 242 185 146 68 26 NC_002950:PG0184|3end_ISPg1,_transposase_217567..217717_POSITIVE 238 124 83 46 5 NC_002950:PG0786|3end_hypothetical_protein_837570..837720_NEGATIVE 235 51 11 52 5 NC_002950:PG0881|3end_recombinase_A_944165..944315_POSITIVE 234 189 145 97 54 NC_002950:PG1718|3end_hypothetical_protein_1806532..1806682_NEGATIVE 233 183 148 35 3 NC_002950:PG0566|3end_DNA-binding_protein,_histone-like_family_622935..623085_NEGATIVE 230 130 106 119 94 NC_002950:PG1366|3end_UDP-N-acetylglucosamine_1-carboxyvinyltransferase_1446076..1446226_NEGATIVE 229 195 153 98 48 NC_002950:PG1720|3end_hypothetical_protein_1810224..1810374_POSITIVE