Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A24 F66 I1 R1	37	65.5	2715618	95.2%	2585268	125.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	BS168_reference_genome	1,445,938	G→A	pseudogene (301/699 nt)	ykvQ →	putative sporulation‑specific glycosylase (HGT island)

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	BS168_reference_genome	1,445,938	0	G	A	100.0%	154.7 / NA	48	pseudogene (301/699 nt)	ykvQ	putative sporulation‑specific glycosylase (HGT island)
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (27/21); total (27/21)

GAAGAAAATTAAAAGTAGTTCCTTTTCTAAGCAATCATTGGGATCAGGATTTGGGACGATTTGCATTAATGAACCGAGTTCTTTTAGCTAAACAAATTTCTCATGCAATAGAAGAACTGGATTTGGATGGAGTTAATATCGATATAGAAAACCTTACAGAAAAAGATCGGAATCTATTTACAGATTTTATTAGATTAGTAAGGAAAAGTATTCCTAGACATAAAGAAGTATCAGTTGCAGTGGCGGCAAATCCTTTTGGCTGGACG  >  BS168_reference_genome/1445807‑1446072

gaagaaAATTAAAAGTAGTTCCTTTTCTAAGCAATCATTGGGATCAGGATTTGGGACGATTTGCATTAATGAACCGAGTTCTTTTAGCTAAACAAATTTCTCATGCAATAGAAGAACTGGATTTGGATGGAATTAatat                                                                                                                                 <  4:116731/139‑1 (MQ=255)

gaagaaAATTAAAAGTAGTTCCTTTTCTAAGCAATCATTGGGATCAGGATTTGGGACGATTTGCATTAATGAACCGAGTTCTTTTAGCTAAACAAATTTCTCATGCAATAGAAGAACTGGATTTGGATGGAATTAatat                                                                                                                                 <  1:33430/139‑1 (MQ=255)

 aagaaAATTAAAAGTAGTTCCTTTTCTAAGCAATCATTGGGATCAGGATTTGGGACGATTTGCATTAATGAACCGAGTTCTTTTAGCTAAACAAATTTCTCATGCAATAGAAGAACTGGATTTGGATGGAATTAATATc                                                                                                                                >  2:241814/1‑139 (MQ=255)

  agaaAATTAAAAGTAGTTCCTTTTCTAATCAATCATTGGGATCAGGATTTGGGACGATTTGCATTAATGAACCGAGTTCTTTTAGCTAAACAAATTTCTCATGCAATAGAAGAACTGGATTTGGATGGAATTAATATCg                                                                                                                               <  7:228174/139‑1 (MQ=255)

  agaaAATTAAAAGTAGTTCCTTTTCTAAGCAATCATTGGGATCAGGATTTGGGACGATTTTCATTAATGAACCGAGTTCTTTTAGCTAAACAAATTTCTCATGCAATAGAAGAACTGGATTTGGATGGAATTAATATCg                                                                                                                               <  7:201276/139‑1 (MQ=255)

  agaaAATTAAAAGTAGTTCCTTTTCTAAGCAATCATTGGGATCAGGATTTGGGACGATTTGCATTAATGAACCGAGTTCTTTTAGCTAAACAAATTTCTCATGCAATAGAAGAACTGGATTTGGATGGAATTAATATCg                                                                                                                               <  1:241814/139‑1 (MQ=255)

  agaaAATTAAAAGTAGTTCCTTTTCTAAGCAATCATTGGGATCAGGATTTGGGACGATTTGCATTAATGAACCGAGTTCTTTTAGCTAAACAAATTTCTCATGCAATAGAAGAACTGGATTTGGATGGAATTAATATCg                                                                                                                               <  5:49528/139‑1 (MQ=255)

  agaaAATTAAAAGTAGTTCCTTTTCTAAGCAATCATTGGGATCAGGATTTGGGACGATTTGCATTAATGAACCGAGTTCTTTTAGCTAAACAAATTTCTCAAGCAATAGAAGAACTGGATTTGGATGGAATTAATATCg                                                                                                                               <  2:239585/139‑1 (MQ=255)

    aaaaTTAAAAGTAGTTCCTTTTCTAAGCAATCATTGGGATCAGGATTTGGGACGATTTGCATTAATGAACCGAGTTCTTTTAGCTAAACAAATTTCTCATGCAATAGAAGAACTGGATTTGGATGGAATTAATATCGa                                                                                                                              >  3:316768/1‑138 (MQ=255)

                  ttCCTTTTCTAAGCAATCATTGGGATCAGGATTTGGGACGATTTGCATTAATGAACCGAGTTCTTTTAGCTAAACAAATTTCTCATGCAATAGAAGAACTGGATTTGGATGGAATTAATATCGATATAGAAAACCTTa                                                                                                                >  5:42940/1‑138 (MQ=255)

                        ttCTAAGCAATCATTGGGATCAGGATTTGGGACGATTTGCATTAATGAACCGAGTTCTTTTAGCTAAACAAATTTCTCATGCAATAGAAGAACTGGATTTGGATGGAATTAATATCGATATAGAAAACCTTACAGaaa                                                                                                          <  4:316768/138‑1 (MQ=255)

                            aaGCAATCATTGGGATCAGGATTTGGGACGATTTGCATTAATGAACCGAGTTCTTTTAGCTAAACAAATTTCTCATGCAATAGAAGAACTGGATTTGGATGGAATTAATATCGATATAGAAAACCTTACAGaaa                                                                                                          >  6:197839/1‑134 (MQ=255)

                                  tCATTGGGATCAGGATTTGGGACGATTTGCATTAATGAACCGAGTTCTTTTATCTAAACAAATTTCTCATGCAATAGAAGAAGTGGATTTGGATGGAATTAATATCGATATAGAAAACCTAACATAAAAAGATCGGatt                                                                                               >  2:208095/1‑137 (MQ=255)

                                           tCAGGATTTGGGACGATTTGCATTAATGAACCGAGTTCTTTTAGCTAAACAAATTTCTCATGCAATAGAAGAACTGGATTTGGATGGAATTAATATCGATATAGAAAACCTTACAGAAAAAGATCGGAATCTATTTa                                                                                        <  2:296503/137‑1 (MQ=255)

                                           tCAGGATTTGGGACGATTTGCATTAATGAACCGAGTTCTTTTAGCTAAACAAATTTCTCATGCAATAGAAGAACTGGATTTGGATGGAATTAATATCGATATAGAAAACCTTACAGAAAAAGATCGGAATCTATTTa                                                                                        >  1:296503/1‑137 (MQ=255)

                                                   tGGGACGATTTGCATTAATGAACCGAGTTCTTTTAGCTAAACAAATTTCTCATGCAATAGAAGAACTGGATTTGGATGGAATTAATATCGATATAGAAAACCTTACAGAAAAAGATCGGAATCTATTTACAGATTttat                                                                              >  3:258502/1‑139 (MQ=255)

                                                    gggACGATTTGCATTAATGAACCGAGTTCTTTTAGCTAAACAAATTTCTCATGCAATAGAAGAACTGGATTTGGATGGAATTAATATCGATATAGAAAACCTTACAGAAAAAGATCGGAATCTATTTACAGATTttat                                                                              >  1:68605/1‑138 (MQ=255)

                                                         gATTTGCATTAATGAACCGAGTTCTTTTAGCTAAACAAATTTCTCATGCAATAGTAGAACTGGATTTGGATGGAATTAATATCGATATAGAAAACCTTACAGAAAAAGATCGGAATCTATTTACAGATTTTattagat                                                                         >  1:93397/1‑138 (MQ=255)

                                                         gATTTGCATTAATGAACCGAGTTCTTTTAGCTAAACAAATTTCTCATGCAATAGAAGAACTGGATTTGGATGGAATTAATATCGATATAGAAAACCTTACAGAAAAAGATCGGAATCTATTTACAGATTTTattagat                                                                         >  3:199593/1‑138 (MQ=255)

                                                         gATTTGCATTAATGAACCGAGTTCTTTTAGCTAAACAAATTTCTCATGCAATAGAAGAACTGGATTTGGATGGAATTAATATCGATATAGAAAACCTTACAGAAAAAGATCGGAATCTATTTACAGATTTTattagat                                                                         >  1:194252/1‑138 (MQ=255)

                                                         gATTTGCATTAATGAACCGAGTTCTTTTAGCTAAACAAATTTCTCATGCAATAGAAGAACTGGATTTGGATGGAATTAATATCGATATAGAAAACCTTACAGAAAAAGATCGGAATCTATTTACAGATTTTattagat                                                                         >  8:336887/1‑138 (MQ=255)

                                                         gATTTGCATTAATGAACCGAGTTCTTTTAGCTAAACAAATTTCTCATGCAATAGAAGAACTGGATTTGGATGGAATTAATATCGAGATAGAACACCTTACAGAAAAAGATCGGAATCTATTTACAGATTTTattagatt                                                                        >  8:298233/1‑139 (MQ=255)

                                                          aTTTGCATTAATGAACCGAGTTCTTTTAGCTAAACAAATTTCTCATGCAATAGAAGAACTAGATTTGGATGGAATTAATATCGATATAGAAAACCTTACAGAAAAAGATCGGAATCTATTTACAGATTTTattagat                                                                         >  7:98105/1‑137 (MQ=255)

                                                               cATTAATGAACCGAGTTCTTTTAGCTAAACAAATTTCTCATGCAATAGAAGAACTGGATTTGGATGGAATTAATATCGATATAGAAAACCTTACAGAAAAAGATCGGAATCTATTTACAGATTTTATTAGATTAGTAAg                                                                  <  4:45518/139‑1 (MQ=255)

                                                                aTTAATGAACCGAGTTCTTTTAGCTAAACAAATTTCTCATGCAATAGAAGAACTGGATTTGGATGGAATTAATATCGATATAGAAAACCTTACAGAAAAAGATCGGAATCTATTTACAGATTTTATTAGATTAGTAAg                                                                  <  4:223385/138‑1 (MQ=255)

                                                                    aTGAACCGAGTTCTTTTAGCTAAACAAATTTCTCATGCAATAGAAGAACTGGATTTGGATGGAATTAATATCGATATAGAAAACCTTACAGAAAAAGATCGGAATCTATTTACAGATTTTATTAGATTAGTAAGGaa                                                               >  2:202859/1‑137 (MQ=255)

                                                                     tGAACCGAGTTCTTTTAGCTAAACAAATTTCTCATGCAATAGAAGAACTGGATTTGGATGGAATTAATATCGATATAGAAAACCTTACAGAAAAAGATCGGAATCTATTTACAGATTTTATTAGATTAGTAAGGAAAAg                                                            <  2:144342/139‑1 (MQ=255)

                                                                         ccGAGTTCTTTTAGCTAAACAAATTTCTCATGCAATAGAAGAACTGGATTTGGATGGAATTAATATCGATATAGAAAACCTTACAGAAAAAGATCGGAATCTATTTACAGATTTTATTAGATTAGTAAGGAAAAGTAtt                                                        >  3:241341/1‑139 (MQ=255)

                                                                         ccGAGTTCTTTTAGCTAAACAAATTTCTCATGCAATAGAAGAACTGGATTTGGATGGAATTAATATCGATATAGAAAACCTTACAGAAAAAGATCGGAATCTATTTACAGATTTTATTAGATTAGTAAGGAAAAGTAtt                                                        >  7:178539/1‑139 (MQ=255)

                                                                            aGTTCTTTTAGCTAAACAAATTTCTCATGCAATAGAAGAACTGGATTTGGATGGAATTAATATCGATATAGAAAACCTTACAGAAAAAGATCGGAATCTATTTACAGATTTTATTAGATTAGTAAGGAAAAGTATTcc                                                      >  7:155116/1‑138 (MQ=255)

                                                                            aGTTCTTTTAGCTAAACAAATTTCTCATGCAATAGAAGAACTGGATTTGGATGGAATTAATATCGATATAGAAAACCTTACAGAAAAAGATCGGAATCTATTTACAGATTTTATTAGATTAGTAAGGAAAAGTATTcc                                                      >  6:264779/1‑138 (MQ=255)

                                                                            aGTTCTTTTAGCTAAACAAATTTCTCATGCAATAGAAGAACTGGATTTGGATGGAATTAATATCGATATAGAAAACCTTACAGAAAAAGATCGGAATCTATTTACAGATTTTATTAGATTAGTAAGGAAAAGTATTCCt                                                     <  8:178539/139‑1 (MQ=255)

                                                                            aGTTCTTTTAGCTAAACAAATTTCTCATGCAATAGAAGAACTGGATTTGGATGGAATTAATATCGATATAGAAAACCTTACAGAAAAAGATCGGAATCTATTTACAGATTTTATTAGATTAGTAAGGAAAAGTATTCCt                                                     <  2:194252/139‑1 (MQ=255)

                                                                                      gCTAAACAAATTTCTCATGCAATAGAAGAACTGGATTTGGATGGAATTAATATCGATATAGAAAACCTTACAGAAAAAGATCGGAATCTATTTACAGATTTTATTAGATTAGTAAGGAAAAGTATTCCTAGACATAaag                                           <  6:228397/139‑1 (MQ=255)

                                                                                       cTAAACAAATTTCTCATGCAATAGAAGAACTGGATTTGGATGGAATTAATATCGATATAGAAAACCTTACAGAAAAAGATCGGAATCTATTTACAGATTTTATTAGATTAGTAAGGAAAAGTATTCCTAGACATAaag                                           >  7:42618/1‑138 (MQ=255)

                                                                                                    tcATGCAATAGAAGAACTGGATTTGGATGGAATTAATATCGATATAGAAAACCTTACAGAAAAAGATCGGAATCTATTTACAGATTTTATTAGATTAGTAAGGAAAAGTATTCCTAGACATAAAGAAGTATCAGTTg                               >  4:118911/1‑137 (MQ=255)

                                                                                                      aTGCAATAGAAGAAATTGAATTGGATGGAATTAATATCGATATAGAAAAACTTACAGAAAAAGATCGGAATCTATTTACAGATTTTATTAGATTAGTAAGGAAAAGTATTCCTAGACATAAAGAAGTATCAGTTGCAGt                           <  4:17424/139‑1 (MQ=255)

                                                                                                       tGCAATAGAAGAACTGGATTTGGATGGAATTAATATCGATATAGAAAACCTTACAGAAAAAGATCGGAATCTATTTACAGATTTTATTAGATTAGTAAGGAAAAGTATTCCTAGACATAAAGAAGTATCAGTTGCAGTg                          >  1:95394/1‑139 (MQ=255)

                                                                                                                    cTGGATTTGGATGGAATTAATATCGATATAGAAAACCTTACAGAAAAAGATCGGAATCTATTTACAGATTTTATTAGATTAGTAAGGAAAAGTATTCCTAGACATAAAGAAGTATCAGTTGCAGTGGCGGCAAATCCtt             >  7:159830/1‑139 (MQ=255)

                                                                                                                    cTGGATTTGGATGGAATTAATATCGATATAGAAAACCTTACAGAAAAAGATCGGAATCTATTTACAGATTTTATTAGATTAGTAAGGAAAAGTATTCCTAGACATAAAGAAGTATCAGTTGCAGTGGCGGCAAATCCtt             >  4:39805/1‑139 (MQ=255)

                                                                                                                    cTGGATTTGGATGGAATTAATATCGATATAGAAAACCTTACAGAAAAAGATCGGAATCTATTTACAGATTTTATTAGATTAGTAAGGAAAAGTATTCCTAGACATAAAGAAGTATCAGTTGCAGTGGCGGCAAATCCtt             >  4:176242/1‑139 (MQ=255)

                                                                                                                        aTTTGGATGGAATTAATATCGATATAGAAAACCTTACAGAAAAAGATCGGAATCTATTTACAGATTTTATTAGATTAGTAAGGAAAAGTATTCCTAGACATAAAGAAGTATCAGTTGCAGTGGCGGCAAATCCTTTTgg         <  5:264779/139‑1 (MQ=255)

                                                                                                                         tttGGATGGAATTAATATCGATATAGAAAACCTTACAGAAAAAGATCGGAATCTATTTACAGATTTTATTAGATTAGTAAGGAAAAGTATTCCTAGACATAAAGAAGTATCAGTTGCAGTGGCGGCAAATCCTTTTGGc        >  2:306973/1‑139 (MQ=255)

                                                                                                                         tttGGATGGAATTAATATCGATATAGAAAACCTTACAGAAAAAGATCGGAATCTATTTACAGATTTTATTAGATTAGTAAGGAAAAGTATTCCTAGACATAAAGAAGTATCAGTTGCAGTGGCGGCAAATCCTTTTGGc        <  1:306973/139‑1 (MQ=255)

                                                                                                                         tttGGATGGAATTAATATCGATATAGAAAACCTTACAGAAAAAGATCGGAATCTATTTACAGATTTTATTAGATTAGTAAGGAAAAGTATTCCTAGACATAAAGAAGTATCAGTTGCAGTGGCGGCAAATCCTTTTGGc        <  8:98105/139‑1 (MQ=255)

                                                                                                                           tggatggaATTAATATCGATATAGAAAACCTTACAGAAAAAGCTCGGAATCTATTTACAGATTTTATTAGATTAGTAAGGAAAAGTATTCCTAGACATAAAGAAGTATCAGTTGCAGTGGCGGCAAATCCTTTTGGCt       <  7:57049/138‑1 (MQ=255)

                                                                                                                            ggatggaATTAATATCGATATAGAAAACCTTACAGAAAAAGATCGGAATCTATTTACAGATTTTATTAGATTAGTAAGGAAAAGTATTCCTAGACATAAAGAAGTATCAGTTGCAGTGGCGGCAAATCCTTTTGGCTg      >  1:263287/1‑138 (MQ=255)

                                                                                                                               tggaATTAATATCGATATAGAAAACCTTACAGAAAAAGATCGGAATCTATTTACAGATTTTATTAGATTAGTAAGGAAAAGTATTCCTAGACATAAAGAAGTATCAGTTGCAGTGGCGGCAAATCCTTTTGGCTGGACg  <  2:263287/139‑1 (MQ=255)

GAAGAAAATTAAAAGTAGTTCCTTTTCTAAGCAATCATTGGGATCAGGATTTGGGACGATTTGCATTAATGAACCGAGTTCTTTTAGCTAAACAAATTTCTCATGCAATAGAAGAACTGGATTTGGATGGAGTTAATATCGATATAGAAAACCTTACAGAAAAAGATCGGAATCTATTTACAGATTTTATTAGATTAGTAAGGAAAAGTATTCCTAGACATAAAGAAGTATCAGTTGCAGTGGCGGCAAATCCTTTTGGCTGGACG  >  BS168_reference_genome/1445807‑1446072

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 14 ≤` `ATCG/ATCG` `< 15 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A