Origin IGS: cccacctataagctctgtgtacaaaagaaacgatatgactcttatcctttttcctctcttgaagaatcgaatcatgcggatctgtcttataaattcatccttacagagttgtaaagaggaatttatacaacgaaattcc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ggaatttcgttgtataaattcctctttacaactctgtaaggatgaatttataagacagatccgcatgattcgattcttcaagagaggaaaaaggataagagtcatatcgtttcttttgtacacagagcttataggtggg Mask Tandem Repeat Region ================================================ cccacctataagctctgtgtacaaaagaaacgatatgactcttatcctttttcctctcttgaagaatcgaatcatgcggatctgtcttataaattcatccttacagagttgtaaagaggaatttatacaacgaaattcc Find is-nt database================================================ Query_seq: PG0680:PG0681|PG0680:PG0681:efflux transporter, MFP component, RND family:hypothetical protein:-><-:732362..732500 139 cccacctataagctctgtgtacaaaagaaacgatatgactcttatcctttttcctctcttgaagaatcgaatcatgcggatctgtcttataaattcatccttacagagttgtaaagaggaatttatacaacgaaattcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0680:PG0681|PG0680:PG0681:efflux transporter, MFP component, RND family:hypothetical protein:-><-:732362..732500 139 cccacctataagctctgtgtacaaaagaaacgatatgactcttatcctttttcctctcttgaagaatcgaatcatgcggatctgtcttataaattcatccttacagagttgtaaagaggaatttatacaacgaaattcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0680:PG0681|PG0680:PG0681:efflux transporter, MFP component, RND family:hypothetical protein:-><-:732362..732500 139 cccacctataagctctgtgtacaaaagaaacgatatgactcttatcctttttcctctcttgaagaatcgaatcatgcggatctgtcttataaattcatccttacagagttgtaaagaggaatttatacaacgaaattcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cccacctataagctctgtgtacaaaagaaacgatatgactcttatcctttttcctctcttgaagaatcgaatcatgcggatctgtcttataaattcatccttacagagttgtaaagaggaatttatacaacgaaattcc Predict ORF larger than 30AA ================================================ Protein_Len: 44 Strand: + Start: 8 End: 139 ....... M S S V Y K R N D M T L I L F P L L K N R I M R I C L I N S S L Q S C K E E F I Q R N S Protein_Len: 31 Strand: - Start: 2 End: 94 . W R Y A R H V F S V I H S K D K K R E Q L I S D H P D T K Y M ............................................. Protein_Len: 42 Strand: - Start: 1 End: 126 G G I L E T Y L L F S I V R I R K G R K F F R I M R I Q R I F E D K C L Q L S S N M ............. cccacctataagctctgtgtacaaaagaaacgatatgactcttatcctttttcctctcttgaagaatcgaatcatgcggatctgtcttataaattcatccttacagagttgtaaagaggaatttatacaacgaaattcc 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================================================ cccacctataagctctgtgtacaaaagaaacgatatgactcttatcctttttcctctcttgaagaatcgaatcatgcggatctgtcttataaattcatccttacagagttgtaaagaggaatttatacaacgaaattcc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG0680:PG0681|PG0680:PG0681:efflux transporter, MFP component, RND family:hypothetical protein:-><-:732362..732500 139 cccacctataagctctgtgtacaaaagaaacgatatgactcttatcctttttcctctcttgaagaatcgaatcatgcggatctgtcttataaattcatccttacagagttgtaaagaggaatttatacaacgaaattcc Intra-Species Hit: Count: 1 Min: 1 Max: 139 Len: 139 Subject: NC_002950_PG0680_PG0681|efflux transporter, MFP component, RND family:hypothetical protein|POSITIVE:NEGATIVE|[732362,732500]|139 HSP 1 e-value: 2.0E-73 bit: 276.0 Len: 139 Query Start:1 Query End:139 Subject Strand: POSITIVE Subject Start: 1 Subject End: 139 cccacctataagctctgtgtacaaaagaaacgatatgactcttatcctttttcctctcttgaagaatcgaatcatgcggatctgtcttataaattcatccttacagagttgtaaagaggaatttatacaacgaaattcc cccacctataagctctgtgtacaaaagaaacgatatgactcttatcctttttcctctcttgaagaatcgaatcatgcggatctgtcttataaattcatccttacagagttgtaaagaggaatttatacaacgaaattcc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CCCACCUAUAAGCUCUGUGUACAAAAGAAACGAUAUGACUCUUAUCCUUUUUCCUCUCUUGAAGAAUCGAAUCAUGCGGAUCUGUCUUAUAAAUUCAUCCUUACAGAGUUGUAAAGAGGAAUUUAUACAACGAAAUUCC ..........(((((((((......(((..((.(((((.((......((((((.......))))))..)).)))))))..)))..................))))))))).......(((((((........))))))) (-22.95) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGAAUUUCGUUGUAUAAAUUCCUCUUUACAACUCUGUAAGGAUGAAUUUAUAAGACAGAUCCGCAUGAUUCGAUUCUUCAAGAGAGGAAAAAGGAUAAGAGUCAUAUCGUUUCUUUUGUACACAGAGCUUAUAGGUGGG ........(((.(((((((((.((((((((....)))))))).))))))))).)))....(((((((((((.......(((((((((......(((....)))......)))))))))......))).))))..)))). (-34.92) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 287 76 32 227 189 NC_002950:PG0268|5end_tRNA_(5-methylaminomethyl-2-thiouridylate)-methyltransferase_300898..301128_POSITIVE 282 60 13 79 23 NC_002950:PG1387|5end_hypothetical_protein_1470058..1470288_NEGATIVE 275 81 45 66 29 NC_002950:PG1476|5end_conjugative_transposon_protein_TraM_1553219..1553449_NEGATIVE 274 87 55 172 137 NC_002950:PG0335|5end_tRNA_delta(2)-isopentenylpyrophosphate_transferase_370706..370936_NEGATIVE 269 89 48 216 176 NC_002950:PG1681|5end_glycogen_debranching_enzyme,_archaeal_type,_putative_1766412..1766642_POSITIVE 268 84 41 163 115 NC_002950:PG0934|5end_hypothetical_protein_994318..994548_NEGATIVE 266 77 39 44 1 NC_002950:PG1014|5end_TPR_domain_protein_1073763..1073993_POSITIVE 265 105 61 59 18 NC_002950:PG1913|5end_30S_ribosomal_protein_S11_2012926..2013156_NEGATIVE 265 120 73 51 1 NC_002950:PG1215|5end_lipoprotein_protein,_putative_1294621..1294851_POSITIVE 265 86 44 102 44 NC_002950:PG0384|5end_MutS2_family_protein_416095..416325_POSITIVE 262 87 46 224 184 NC_002950:PG0482|5end_hypothetical_protein_523129..523359_NEGATIVE 261 88 53 52 12 NC_002950:PG1630|5end_hypothetical_protein_1711772..1712002_POSITIVE 258 88 47 219 186 NC_002950:PG0903|5end_hypothetical_protein_969640..969870_NEGATIVE 258 86 45 209 168 NC_002950:PG0334|5end_glycosyl_transferase,_group_2_family_protein_369751..369981_NEGATIVE 252 86 41 56 15 NC_002950:PG0070|5end_UDP-N-acetylglucosamine_acyltransferase_84734..84964_NEGATIVE 249 80 31 216 164 NC_002950:PG2075|5end_hypothetical_protein_2176466..2176696_NEGATIVE 249 120 76 132 75 NC_002950:PG1596|5end_isoleucyl-tRNA_synthetase,_putative_1674543..1674773_POSITIVE 249 88 47 58 24 NC_002950:PG0790|5end_GTP-binding_protein_Obg_842583..842813_NEGATIVE 247 95 53 69 21 NC_002950:PG1931|5end_50S_ribosomal_protein_L16_2020849..2021079_NEGATIVE 247 111 77 39 4 NC_002950:PG1452|5end_lipoprotein,_putative_1535642..1535872_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 326 86 46 151 100 NC_002950:PG1980|3end_hypothetical_protein_2067760..2067910_NEGATIVE 289 86 41 131 90 NC_002950:PG1060|3end_carboxyl-terminal_protease_1128447..1128597_POSITIVE 275 81 45 76 39 NC_002950:PG1477|3end_hypothetical_protein_1553209..1553359_NEGATIVE 274 88 45 48 2 NC_002950:PG2015|3end_CRISPR-associated_protein_Cas4_2105502..2105652_NEGATIVE 265 105 61 47 6 NC_002950:PG1914|3end_30S_ribosomal_protein_S13_2012938..2013088_NEGATIVE 265 86 44 92 34 NC_002950:PG0383|3end_membrane-associated_zinc_metalloprotease,_putative_416165..416315_POSITIVE 262 87 46 117 77 NC_002950:PG0483|3end_kinase,_putative_523236..523386_NEGATIVE 255 82 47 136 94 NC_002950:PG0173|3end_transcriptional_regulator,_putative_194388..194538_NEGATIVE 252 89 45 50 6 NC_002950:PG1136|3end_hypothetical_protein_1216699..1216849_NEGATIVE 252 86 41 59 18 NC_002950:PG0071|3end_UDP-3-O-acyl-GlcNAc_deacetylase/beta-hydroxyacyl-[acyl_carrier_protein]_dehydratase_FabZ_84731..84881_NEGATIVE 251 69 31 116 67 NC_002950:PG1964|3end_bacterial_sugar_transferase_2054396..2054546_POSITIVE 249 88 47 48 14 NC_002950:PG0791|3end_adenylate_kinase_842593..842743_NEGATIVE 247 87 42 137 79 NC_002950:PG1840|3end_hypothetical_protein_1937295..1937445_POSITIVE 247 79 46 75 39 NC_002950:PG0324|3end_histidine_ammonia-lyase_357589..357739_NEGATIVE 240 60 12 122 55 NC_002950:PG2076|3end_hypothetical_protein_2177073..2177223_POSITIVE 238 118 74 67 23 NC_002950:PG0385|3end_ribosomal_protein_S21_419050..419200_POSITIVE 238 82 47 150 108 NC_002950:PG0165|3end_heat_shock_protein_15_187370..187520_NEGATIVE 237 120 75 87 46 NC_002950:PG0474|3end_low-specificity_L-threonine_aldolase_515011..515161_NEGATIVE 236 105 67 125 86 NC_002950:PG2205|3end_2-dehydropantoate_2-reductase_2317145..2317295_POSITIVE 236 87 50 66 29 NC_002950:PG1898|3end_transporter,_putative_1996727..1996877_NEGATIVE