Origin IGS: gctgcagtatccttgctgtggctcttggttatagagccacccaatcatttgctgtaccgaggcaatgtcccactgtttttgctgccgatgacccgaatcatcggctattttctatatataaagtgagagatagtgtaaaaaaaaacgtaactttgcgccctatgaatatgcctgtatagatgaaaaaaatctaacaataaaataagtaacagacaaaatgcaaaacaaaggatttgtgattgttatcacatcggctctggccatcatctgtgcgttttacctgtcattctctttcgttacgaaccgttacgaaaagaaggctaaggcg .........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 cgccttagccttcttttcgtaacggttcgtaacgaaagagaatgacaggtaaaacgcacagatgatggccagagccgatgtgataacaatcacaaatcctttgttttgcattttgtctgttacttattttattgttagatttttttcatctatacaggcatattcatagggcgcaaagttacgtttttttttacactatctctcactttatatatagaaaatagccgatgattcgggtcatcggcagcaaaaacagtgggacattgcctcggtacagcaaatgattgggtggctctataaccaagagccacagcaaggatactgcagc Mask Tandem Repeat Region ================================================ gctgcagtatccttgctgtggctcttggttatagagccacccaatcatttgctgtaccgaggcaatgtcccactgtttttgctgccgatgacccgaatcatcggctattttctatatataaagtgagagatagtgtaaaaaaaaacgtaactttgcgccctatgaatatgcctgtatagatgaaaaaaatctaacaataaaataagtaacagacaaaatgcaaaacaaaggatttgtgattgttatcacatcggctctggccatcatctgtgcgttttacctgtcattctctttcgttacgaaccgttacgaaaagaaggctaaggcg Find is-nt database================================================ Query_seq: PG1761:PG1762|PG1761:PG1762:acetyltransferase, GNAT family:protein-export membrane protein SecD/protein-export membrane protein SecF:->->:1847800..1848127 328 gctgcagtatccttgctgtggctcttggttatagagccacccaatcatttgctgtaccgaggcaatgtcccactgtttttgctgccgatgacccgaatcatcggctattttctatatataaagtgagagatagtgtaaaaaaaaacgtaactttgcgccctatgaatatgcctgtatagatgaaaaaaatctaacaataaaataagtaacagacaaaatgcaaaacaaaggatttgtgattgttatcacatcggctctggccatcatctgtgcgttttacctgtcattctctttcgttacgaaccgttacgaaaagaaggctaaggcg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1761:PG1762|PG1761:PG1762:acetyltransferase, GNAT family:protein-export membrane protein SecD/protein-export membrane protein SecF:->->:1847800..1848127 328 gctgcagtatccttgctgtggctcttggttatagagccacccaatcatttgctgtaccgaggcaatgtcccactgtttttgctgccgatgacccgaatcatcggctattttctatatataaagtgagagatagtgtaaaaaaaaacgtaactttgcgccctatgaatatgcctgtatagatgaaaaaaatctaacaataaaataagtaacagacaaaatgcaaaacaaaggatttgtgattgttatcacatcggctctggccatcatctgtgcgttttacctgtcattctctttcgttacgaaccgttacgaaaagaaggctaaggcg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1761:PG1762|PG1761:PG1762:acetyltransferase, GNAT family:protein-export membrane protein SecD/protein-export membrane protein SecF:->->:1847800..1848127 328 gctgcagtatccttgctgtggctcttggttatagagccacccaatcatttgctgtaccgaggcaatgtcccactgtttttgctgccgatgacccgaatcatcggctattttctatatataaagtgagagatagtgtaaaaaaaaacgtaactttgcgccctatgaatatgcctgtatagatgaaaaaaatctaacaataaaataagtaacagacaaaatgcaaaacaaaggatttgtgattgttatcacatcggctctggccatcatctgtgcgttttacctgtcattctctttcgttacgaaccgttacgaaaagaaggctaaggcg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gctgcagtatccttgctgtggctcttggttatagagccacccaatcatttgctgtaccgaggcaatgtcccactgtttttgctgccgatgacccgaatcatcggctattttctatatataaagtgagagatagtgtaaaaaaaaacgtaactttgcgccctatgaatatgcctgtatagatgaaaaaaatctaacaataaaataagtaacagacaaaatgcaaaacaaaggatttgtgattgttatcacatcggctctggccatcatctgtgcgttttacctgtcattctctttcgttacgaaccgttacgaaaagaaggctaaggcg Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: + Start: 13 End: 123 ............ M L W L L V I E P P N H L L Y R G N V P L F L L P M T R I I G Y F L Y I K ............................................................................................................................................................................................................. Protein_Len: 56 Strand: + Start: 9 End: 176 ........ M L A V A L G Y R A T Q S F A V P R Q C P T V F A A D D P N H R L F S I Y K V R D S V K K N V T L R P M N M P V ........................................................................................................................................................ Protein_Len: 40 Strand: + Start: 202 End: 321 ......................................................................................................................................................................................................... M S N R Q N A K Q R I C D C Y H I G S G H H L C V L P V I L F R Y E P L R K E G ....... Protein_Len: 37 Strand: + Start: 218 End: 328 ......................................................................................................................................................................................................................... M Q N K G F V I V I T S A L A I I C A F Y L S F S F V T N R Y E K K A K A Protein_Len: 35 Strand: - Start: 163 End: 267 .................................................................................................................................................................. S Y A Q I S S F F R V I F Y T V S L I C F L P N T I T I V D A R A M M ............................................................. Protein_Len: 42 Strand: - Start: 108 End: 233 ........................................................................................................... K R Y I F H S I T Y F F V Y S Q A R H I H R Y L H F F D L L L I L L L C F A F C L M ............................................................................................... Protein_Len: 30 Strand: - Start: 101 End: 190 .................................................................................................... R S N E I Y L T L S L T F F F T V K R G I F I G T Y I F F M .......................................................................................................................................... Protein_Len: 36 Strand: - Start: 1 End: 108 S C Y G Q Q P E Q N Y L W G I M Q Q V S A I D W Q K Q Q R H G S D D A M ............................................................................................................................................................................................................................ gctgcagtatccttgctgtggctcttggttatagagccacccaatcatttgctgtaccgaggcaatgtcccactgtttttgctgccgatgacccgaatcatcggctattttctatatataaagtgagagatagtgtaaaaaaaaacgtaactttgcgccctatgaatatgcctgtatagatgaaaaaaatctaacaataaaataagtaacagacaaaatgcaaaacaaaggatttgtgattgttatcacatcggctctggccatcatctgtgcgttttacctgtcattctctttcgttacgaaccgttacgaaaagaaggctaaggcg 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: 82 Start: 188 End: 217 ...........................................................................................................................................................................................TTTGTCTGTTACTTATTTTATTGTTAGATT............................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ gctgcagtatccttgctgtggctcttggttatagagccacccaatcatttgctgtaccgaggcaatgtcccactgtttttgctgccgatgacccgaatcatcggctattttctatatataaagtgagagatagtgtaaaaaaaaacgtaactttgcgccctatgaatatgcctgtatagatgaaaaaaatctaacaataaaataagtaacagacaaaatgcaaaacaaaggatttgtgattgttatcacatcggctctggccatcatctgtgcgttttacctgtcattctctttcgttacgaaccgttacgaaaagaaggctaaggcg Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 71 HP_score: -5.1 Tail_Score: -4.64844 Start: 83 End: 107 Full_Region: TCCCACTGTTTTTGC TGCCGATGA CCCGAA TCATCGGCTA TTTTCTATATATAAA ..................................................................................TGCCGATGACCCGAATCATCGGCTA............................................................................................................................................................................................................................. TransTerm Strand: + Conf: 84 HP_score: -10.2 Tail_Score: -3.9328 Start: 84 End: 105 Full_Region: CCCACTGTTTTTGCT GCCGATGA CCCGAA TCATCGGC TATTTTCTATATATA ...................................................................................GCCGATGACCCGAATCATCGGC............................................................................................................................................................................................................................... Find igs database================================================ Query_seq: PG1761:PG1762|PG1761:PG1762:acetyltransferase, GNAT family:protein-export membrane protein SecD/protein-export membrane protein SecF:->->:1847800..1848127 328 gctgcagtatccttgctgtggctcttggttatagagccacccaatcatttgctgtaccgaggcaatgtcccactgtttttgctgccgatgacccgaatcatcggctattttctatatataaagtgagagatagtgtaaaaaaaaacgtaactttgcgccctatgaatatgcctgtatagatgaaaaaaatctaacaataaaataagtaacagacaaaatgcaaaacaaaggatttgtgattgttatcacatcggctctggccatcatctgtgcgttttacctgtcattctctttcgttacgaaccgttacgaaaagaaggctaaggcg Intra-Species Hit: Count: 1 Min: 1 Max: 328 Len: 328 Subject: NC_002950_PG1761_PG1762|acetyltransferase, GNAT family:protein-export membrane protein SecD/protein-export membrane protein SecF|POSITIVE:POSITIVE|[1847800,1848127]|328 HSP 1 e-value: 1.0E-157 bit: 555.0 Len: 328 Query Start:1 Query End:328 Subject Strand: POSITIVE Subject Start: 1 Subject End: 328 gctgcagtatccttgctgtggctcttggttatagagccacccaatcatttgctgtaccgaggcaatgtcccactgtttttgctgccgatgacccgaatcatcggctattttctatatataaagtgagagatagtgtnnnnnnnnncgtaactttgcgccctatgaatatgcctgtatagatgnnnnnnntctaacaataaaataagtaacagacaaaatgcaaaacaaaggatttgtgattgttatcacatcggctctggccatcatctgtgcgttttacctgtcattctctttcgttacgaaccgttacgaaaagaaggctaaggcg gctgcagtatccttgctgtggctcttggttatagagccacccaatcatttgctgtaccgaggcaatgtcccactgtttttgctgccgatgacccgaatcatcggctattttctatatataaagtgagagatagtgtaaaaaaaaacgtaactttgcgccctatgaatatgcctgtatagatgaaaaaaatctaacaataaaataagtaacagacaaaatgcaaaacaaaggatttgtgattgttatcacatcggctctggccatcatctgtgcgttttacctgtcattctctttcgttacgaaccgttacgaaaagaaggctaaggcg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCUGCAGUAUCCUUGCUGUGGCUCUUGGUUAUAGAGCCACCCAAUCAUUUGCUGUACCGAGGCAAUGUCCCACUGUUUUUGCUGCCGAUGACCCGAAUCAUCGGCUAUUUUCUAUAUAUAAAGUGAGAGAUAGUGUAAAAAAAAACGUAACUUUGCGCCCUAUGAAUAUGCCUGUAUAGAUGAAAAAAAUCUAACAAUAAAAUAAGUAACAGACAAAAUGCAAAACAAAGGAUUUGUGAUUGUUAUCACAUCGGCUCUGGCCAUCAUCUGUGCGUUUUACCUGUCAUUCUCUUUCGUUACGAACCGUUACGAAAAGAAGGCUAAGGCG ((..(((((....)))))..))...((((..(((((((.......(((((.((((((..(((((...((.(((((((((((((((((((((......))))))))................))).))))))))))..........((((....))))......))...)))))...(((((.......)))))............)).))))...)))))..............((((((....))))))..))))))))))).........(((((((...(((.((((.((((((.(((...))).)))))))))))))))))))) (-89.09) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGCCUUAGCCUUCUUUUCGUAACGGUUCGUAACGAAAGAGAAUGACAGGUAAAACGCACAGAUGAUGGCCAGAGCCGAUGUGAUAACAAUCACAAAUCCUUUGUUUUGCAUUUUGUCUGUUACUUAUUUUAUUGUUAGAUUUUUUUCAUCUAUACAGGCAUAUUCAUAGGGCGCAAAGUUACGUUUUUUUUUACACUAUCUCUCACUUUAUAUAUAGAAAAUAGCCGAUGAUUCGGGUCAUCGGCAGCAAAAACAGUGGGACAUUGCCUCGGUACAGCAAAUGAUUGGGUGGCUCUAUAACCAAGAGCCACAGCAAGGAUACUGCAGC .(((...(((.(((((((((.(((...))).))).)))))).((((((..((((.(((((((.((((((....)))..((((((....)))))).))).)))))...)).))))..))))))..........((((((((.......))))).)))))).........((((..........((........))......(((((((.....(((.....)))(((((((((....))))))))).........)))))))....)))).)))...(((.....(((.((((((((.......))))))))..)))......)))... (-86.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 401 99 51 67 15 NC_002950:PG0362|5end_hypothetical_protein_395301..395531_POSITIVE 392 59 15 180 135 NC_002950:PG1769|5end_hypothetical_protein_1856607..1856837_POSITIVE 374 97 51 222 177 NC_002950:PG1588|5end_hypothetical_protein_1666532..1666762_NEGATIVE 371 96 52 75 25 NC_002950:PG0754|5end_DNA_topoisomerase_I_800943..801173_POSITIVE 358 270 228 49 8 NC_002950:PG1485|5end_conjugative_transposon_protein_TraC_1560370..1560600_NEGATIVE 357 113 81 193 152 NC_002950:PG0171|5end_5'-nucleotidase_family_protein_191724..191954_POSITIVE 355 110 62 217 169 NC_002950:PG1395|5end_cell_shape-determining_protein_MreC,_putative_1477669..1477899_NEGATIVE 354 100 51 90 36 NC_002950:PG0309|5end_thiamine_biosynthesis_lipoprotein_ApbE_345023..345253_NEGATIVE 350 99 52 61 5 NC_002950:PG1992|5end_glucose-inhibited_division_protein_A_2081410..2081640_POSITIVE 348 99 51 74 21 NC_002950:PG0806|5end_oxidoreductase,_Gfo/Idh/MocA_family_863592..863822_NEGATIVE 348 95 51 79 29 NC_002950:PG0322|5end_serine/threonine_transporter_355708..355938_POSITIVE 346 95 54 83 47 NC_002950:PG2019|5end_hypothetical_protein_2111662..2111892_NEGATIVE 339 38 1 135 96 NC_002950:PG1029|5end_hypothetical_protein_1091080..1091310_POSITIVE 338 79 32 152 107 NC_002950:PG2018|5end_hypothetical_protein_2110871..2111101_NEGATIVE 338 274 240 226 186 NC_002950:PG1068|5end_hypothetical_protein_1134636..1134866_POSITIVE 337 106 61 212 161 NC_002950:PG0159|5end_endopeptidase_PepO_183164..183394_NEGATIVE 333 98 51 63 10 NC_002950:PG0714|5end_copper_homeostasis_protein_CutC_768671..768901_NEGATIVE 330 298 252 176 114 NC_002950:PG1848|5end_RNA_methyltransferase,_TrmH_family_1947382..1947612_NEGATIVE 330 105 62 62 6 NC_002950:PG1486|5end_conjugative_transposon_protein_TraA_1561166..1561396_NEGATIVE 330 97 51 123 51 NC_002950:PG0272|5end_CBS_domain_protein_304399..304629_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 369 89 41 131 76 NC_002950:PG0344|3end_purple_acid_phosphatase_378543..378693_NEGATIVE 358 270 228 62 21 NC_002950:PG1486|3end_conjugative_transposon_protein_TraA_1560357..1560507_NEGATIVE 354 100 51 93 39 NC_002950:PG0310|3end_nitroreductase_family_protein_345020..345170_NEGATIVE 351 87 41 148 110 NC_002950:PG0361|3end_hypothetical_protein_395481..395631_POSITIVE 346 95 54 137 101 NC_002950:PG2020|3end_CRISPR-associated_TM1814_family_protein_2111608..2111758_NEGATIVE 339 38 1 71 32 NC_002950:PG1028|3end_TPR_domain_protein_1091096..1091246_POSITIVE 336 98 51 127 73 NC_002950:PG0068|3end_hypothetical_protein_82079..82229_POSITIVE 333 98 51 58 5 NC_002950:PG0715|3end_transporter_768676..768826_NEGATIVE 333 300 251 116 59 NC_002950:PG0167|3end_ribosomal_protein_L25_188512..188662_NEGATIVE 331 57 11 128 74 NC_002950:PG1675|3end_hypothetical_protein_1760360..1760510_POSITIVE 331 105 61 62 12 NC_002950:PG0752|3end_uracil_phosphoribosyltransferase_798397..798547_POSITIVE 330 105 73 74 39 NC_002950:PG2140|3end_ribosomal_protein_L32_2246399..2246549_POSITIVE 330 296 251 68 26 NC_002950:PG1133|3end_hypothetical_protein_1214103..1214253_POSITIVE 327 60 15 40 2 NC_002950:PG2108|3end_thiazole_synthase_2216671..2216821_NEGATIVE 326 105 61 132 67 NC_002950:PG1565|3end_3-deoxy-D-manno-octulosonic-acid_transferase,_putative_1644621..1644771_NEGATIVE 324 299 253 57 8 NC_002950:PG0348|3end_ATP-dependent_DNA_helicase_RecG_384521..384671_POSITIVE 322 298 251 82 20 NC_002950:PG1174|3end_thioesterase_family_protein_1253210..1253360_NEGATIVE 321 58 11 86 33 NC_002950:PG0997|3end_transcriptional_regulator,_putative_1057012..1057162_POSITIVE 321 295 252 89 41 NC_002950:PG0742|3end_antigen_PgaA_789300..789450_NEGATIVE 320 92 52 150 91 NC_002950:PG0800|3end_hypothetical_protein_854719..854869_NEGATIVE