Origin IGS: tccctttagcggatttggtggagaacgatgaggaactgaaagatggggggtgccttatgccaagtgttattggacgtaatacctacccgtctctgtcagttcctccgatagattgcttttatgcagc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gctgcataaaagcaatctatcggaggaactgacagagacgggtaggtattacgtccaataacacttggcataaggcaccccccatctttcagttcctcatcgttctccaccaaatccgctaaaggga Mask Tandem Repeat Region ================================================ tccctttagcggatttggtggagaacgatgaggaactgaaagatggggggtgccttatgccaagtgttattggacgtaatacctacccgtctctgtcagttcctccgatagattgcttttatgcagc Find is-nt database================================================ Query_seq: PG0484:PG0485|PG0484:PG0485:hypothetical protein:preprotein translocase, YajC subunit:<-<-:524949..525075 127 tccctttagcggatttggtggagaacgatgaggaactgaaagatggggggtgccttatgccaagtgttattggacgtaatacctacccgtctctgtcagttcctccgatagattgcttttatgcagc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0484:PG0485|PG0484:PG0485:hypothetical protein:preprotein translocase, YajC subunit:<-<-:524949..525075 127 tccctttagcggatttggtggagaacgatgaggaactgaaagatggggggtgccttatgccaagtgttattggacgtaatacctacccgtctctgtcagttcctccgatagattgcttttatgcagc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0484:PG0485|PG0484:PG0485:hypothetical protein:preprotein translocase, YajC subunit:<-<-:524949..525075 127 tccctttagcggatttggtggagaacgatgaggaactgaaagatggggggtgccttatgccaagtgttattggacgtaatacctacccgtctctgtcagttcctccgatagattgcttttatgcagc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tccctttagcggatttggtggagaacgatgaggaactgaaagatggggggtgccttatgccaagtgttattggacgtaatacctacccgtctctgtcagttcctccgatagattgcttttatgcagc Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: + Start: 15 End: 125 .............. M V E N D E E L K D G G C L M P S V I G R N T Y P S L S V P P I D C F Y A .. tccctttagcggatttggtggagaacgatgaggaactgaaagatggggggtgccttatgccaagtgttattggacgtaatacctacccgtctctgtcagttcctccgatagattgcttttatgcagc 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================================================ tccctttagcggatttggtggagaacgatgaggaactgaaagatggggggtgccttatgccaagtgttattggacgtaatacctacccgtctctgtcagttcctccgatagattgcttttatgcagc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG0484:PG0485|PG0484:PG0485:hypothetical protein:preprotein translocase, YajC subunit:<-<-:524949..525075 127 tccctttagcggatttggtggagaacgatgaggaactgaaagatggggggtgccttatgccaagtgttattggacgtaatacctacccgtctctgtcagttcctccgatagattgcttttatgcagc Intra-Species Hit: Count: 1 Min: 1 Max: 127 Len: 127 Subject: NC_002950_PG0484_PG0485|hypothetical protein:preprotein translocase, YajC subunit|NEGATIVE:NEGATIVE|[524949,525075]|127 HSP 1 e-value: 2.0E-66 bit: 252.0 Len: 127 Query Start:1 Query End:127 Subject Strand: POSITIVE Subject Start: 1 Subject End: 127 tccctttagcggatttggtggagaacgatgaggaactgaaagatggggggtgccttatgccaagtgttattggacgtaatacctacccgtctctgtcagttcctccgatagattgcttttatgcagc tccctttagcggatttggtggagaacgatgaggaactgaaagatggggggtgccttatgccaagtgttattggacgtaatacctacccgtctctgtcagttcctccgatagattgcttttatgcagc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCCCUUUAGCGGAUUUGGUGGAGAACGAUGAGGAACUGAAAGAUGGGGGGUGCCUUAUGCCAAGUGUUAUUGGACGUAAUACCUACCCGUCUCUGUCAGUUCCUCCGAUAGAUUGCUUUUAUGCAGC ...(((((.((....)).)))))..((..((((((((((.((((((((((((..(((((((((......)))).)))))))))).)))))))...)))))))))))).....((((......)))). (-47.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCUGCAUAAAAGCAAUCUAUCGGAGGAACUGACAGAGACGGGUAGGUAUUACGUCCAAUAACACUUGGCAUAAGGCACCCCCCAUCUUUCAGUUCCUCAUCGUUCUCCACCAAAUCCGCUAAAGGGA (((.......))).........((((((((((..((((.(((..(((.(((.(.((((......))))).))).)).)..))).))))))))))))))................(((......))). (-36.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1006 50 1 141 92 NC_002950:PG0484|5end_hypothetical_protein_524858..525088_NEGATIVE 381 117 75 182 137 NC_002950:PG0024|5end_redox-sensing_transcriptional_repressor_Rex_27732..27962_POSITIVE 359 89 45 147 103 NC_002950:PG0938|5end_calcium-transporting_ATPase_1000385..1000615_NEGATIVE 354 89 44 43 3 NC_002950:PG0814|5end_hypothetical_protein_876251..876481_NEGATIVE 353 46 1 59 9 NC_002950:PG1069|5end_alcohol_dehydrogenase,_zinc-containing,_putative_1135499..1135729_POSITIVE 344 90 41 159 105 NC_002950:PG0398|5end_recF_protein_435710..435940_NEGATIVE 339 50 1 208 156 NC_002950:PG0241|5end_lipoprotein,_putative_278214..278444_NEGATIVE 335 70 26 57 16 NC_002950:PG1899|5end_TonB-dependent_receptor,_putative_1999724..1999954_NEGATIVE 332 49 3 86 37 NC_002950:PG0605|5end_hypothetical_protein_662406..662636_NEGATIVE 328 50 1 67 3 NC_002950:PG2095|5end_lipoprotein,_putative_2200617..2200847_NEGATIVE 318 59 11 92 35 NC_002950:PG0524|5end_hypothetical_protein_568599..568829_POSITIVE 315 60 16 141 91 NC_002950:PG1494|5end_hypothetical_protein_1569841..1570071_POSITIVE 314 60 17 69 35 NC_002950:PG1855|5end_carboxyl-terminal_protease_1955476..1955706_NEGATIVE 304 50 1 43 2 NC_002950:PG0749|5end_hypothetical_protein_795654..795884_NEGATIVE 304 64 22 167 123 NC_002950:PG0638|5end_tetraacyldisaccharide_4'-kinase_691183..691413_NEGATIVE 300 67 21 76 29 NC_002950:PG0539|5end_efflux_transporter,_MFP_component,_RND_family_590574..590804_POSITIVE 299 60 12 209 160 NC_002950:PG1547|5end_hypothetical_protein_1624262..1624492_POSITIVE 299 49 10 46 11 NC_002950:PG1277|5end_UDP-glucose-6_dehydrogenase,_putative_1353754..1353984_POSITIVE 299 60 11 156 103 NC_002950:PG0451|5end_CBS_domain_protein_491519..491749_POSITIVE 299 75 32 168 119 NC_002950:PG0250|5end_hypothetical_protein_284081..284311_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 399 50 3 150 99 NC_002950:PG1422|3end_D-alanyl-D-alanine_carboxypeptidase_1507380..1507530_NEGATIVE 380 89 45 122 78 NC_002950:PG1906|3end_ISPg1,_transposase_2006572..2006722_POSITIVE 380 89 45 122 78 NC_002950:PG1624|3end_ISPg1,_transposase_1706188..1706338_NEGATIVE 380 89 45 122 78 NC_002950:PG1448|3end_ISPg1,_transposase_1533449..1533599_POSITIVE 380 89 45 122 78 NC_002950:PG1197|3end_ISPg1,_transposase_1275475..1275625_NEGATIVE 380 89 45 122 78 NC_002950:PG1177|3end_ISPg1,_transposase_1257794..1257944_NEGATIVE 380 89 45 122 78 NC_002950:PG1031|3end_ISPg1,_transposase_1093081..1093231_NEGATIVE 380 89 45 122 78 NC_002950:PG0825|3end_ISPg1,_transposase_882063..882213_NEGATIVE 380 89 45 122 78 NC_002950:PG0184|3end_ISPg1,_transposase_217567..217717_POSITIVE 359 89 45 122 78 NC_002950:PG1244|3end_ISPg1,_transposase_1320699..1320849_POSITIVE 359 89 45 122 78 NC_002950:PG0549|3end_ISPg1,_transposase_605987..606137_NEGATIVE 359 89 45 122 78 NC_002950:PG0460|3end_ISPg1,_transposase_503102..503252_POSITIVE 341 89 45 122 78 NC_002950:PG1320|3end_ISPg1,_transposase,_internal_deletion_1399467..1399617_POSITIVE 338 54 18 41 9 NC_002950:PG1226|3end_peptidyl-prolyl_cis-trans_isomerase,_cyclophilin-type_1304048..1304198_POSITIVE 337 48 10 76 42 NC_002950:PG1721|3end_ribonuclease_R_1812472..1812622_POSITIVE 317 40 1 82 42 NC_002950:PG0340|3end_hypothetical_protein_376436..376586_POSITIVE 316 53 16 83 43 NC_002950:PG0628|3end_ABC_transporter,_ATP-binding_protein_681684..681834_NEGATIVE 314 60 17 61 27 NC_002950:PG1856|3end_cytidine/deoxycytidylate_deaminase_family_protein_1955484..1955634_NEGATIVE 313 66 25 60 10 NC_002950:PG2188|3end_diaminopimelate_decarboxylase_2294633..2294783_NEGATIVE 313 98 51 93 46 NC_002950:PG1162|3end_ATP:cob(I)alamin_adenosyltransferase,_putative_1241473..1241623_NEGATIVE