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
A5 F1 I1 R1	770	51.4	2439994	93.8%	2288714	110.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	696,276	G→A	392 (TAG→TAA)	ubiF →	2‑octaprenyl‑3‑methyl‑6‑methoxy‑1,4‑benzoquinol oxygenase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	696,276	0	G	A	100.0%	114.8 / NA	36	392 (TAG→TAA)	ubiF	2‑octaprenyl‑3‑methyl‑6‑methoxy‑1,4‑benzoquinol oxygenase
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (19/17); total (19/17)

CGGTATGGATCTGTTTTATGCCGGATTCAGCAATAATCTGCCACCACTGCGTTTTATGCGTAATCTCGGGTTAATGGCGGCGGAGCGTGCTGGCGTGTTGAAACGTCAGGCGCTGAAATATGCGTTAGGGTTGTAGCCTTACAACATTGCCGGATGCGTGCCAACCGTAGGTCGGATAAGACGCGGCAGCGTCGCATCCGACATTGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAA  >  NC_000913/696141‑696395

cGGTATGGATCTGTTTTATGCCGGATTCAGCAATAATCTGCCACCACTGCGTTTTATGCGTAATCTCGGGTTAATGGCGGCGGAGCGTGCTGGCGTGTTGAAACGTCAGGCGCTGAAATATGCGTTAGGGTTGTAACCt                                                                                                                      >  1:78480/1‑139 (MQ=255)

                  tGCCGGATTCAGCAATAATCTGCCACCACTGCGTTTTATGCGTAATCTCGGGTTAATGGCGGCGGAGCGTGCTGGCGTGTTGAAACGTCAGGCGCTGAAATATGCGTTAGGGTTGTAACCTTACAACATTGCCGGATGc                                                                                                    >  2:241842/1‑139 (MQ=255)

                            aGCAATAATCTGCCACCACTGCGTTTTATGCGTAATCTCGGGTTAATGGCGGCGGAGCGTGCTGGCGTGTTGAAACGTCAGGCGCTGAAATATGCGTTAGGGTTGTAACCTTACAACATTGCCGGATGCGTGCCAACCg                                                                                          >  1:313488/1‑139 (MQ=255)

                              cAATAATCTGCCACCACTGCGTTTTATGCGTAATCTCGGGTTAATGGCGGCGGAGCGTGCTGGCGTGTTGAAACGTCAGGCGCTGAAATATGCGTTAGGGTTGTAACCTTACAACATTGCCGGATGCGTGCCAACCGTa                                                                                        >  1:927928/1‑139 (MQ=255)

                               aataatCTGCCACCACTGCGTTTTATGCGTAATCTCGGGTTAATGGCGGCGGAGCGTGCTGGCGTGTTGAAACGTCAGGCGCTGAAATATGCGTTAGGGTTGTAACCTTACAACATTGCCGGATGCGTGCCAACCGTAg                                                                                       <  2:78480/139‑1 (MQ=255)

                                ataatCTGCCACCACTGCGTTTTATGCGTAATCTCGGGTTAATGGCGGCGGAGCGTGCTGGCGTGTTGAAACGTCAGGCGCTGAAATATGCGTTAGGGTTGTAACCTTACAACATTGCCGGATGCGTGCCAACCGTAgg                                                                                      <  1:1164361/139‑1 (MQ=255)

                                      tGCCACCACTGCGTTTTATGCGTAATCTCGGGTTAATGGCGGCGGAGCGTGCTGGCGTGTTGAAACGTCAGGCGCTGAAATATGCGTTAGGGTTGTAACCTTacaac                                                                                                                >  2:868425/1‑107 (MQ=255)

                                      tGCCACCACTGCGTTTTATGCGTAATCTCGGGTTAATGGCGGCGGAGCGTGCTGGCGTGTTGAAACGTCAGGCGCTGAAATATGCGTTAGGGTTGTAACCTTacaac                                                                                                                <  1:868425/107‑1 (MQ=255)

                                        ccaccaCTGCGTTTTATGCGTAATCTCGGGTTAATGGCGGCGGAGCGTGCTGGCGTGTTGAAACGTCAGGCGCTGAAATATGCGTTAGGGTTGTAACCTTACAACATTGCCGGATGCGTGCCAACCGTAGGTCGGATaa                                                                              >  2:1055986/1‑139 (MQ=255)

                                        ccaccaCTGCGTTTTATGCGTAATCTCGGGTTAATGGCGGCGGAGCGTGCTGGCGTGTTGAAACGTCAGGCGCTGAAATATGCGTTAGGGTTGTAACCTTACAACATTGCCGGATGCGTGCCAACCGTAGGTCGGATaa                                                                              >  2:1034473/1‑139 (MQ=255)

                                                 cGTTTTATGCGTAATCTCGGGTTAATGGCGGCGGAGCGTGCTGGCGTGTTGAAACGTCAGGCGCTGAAATATGCGTTAGGGTTGTAACCTTACAACATTGCCGGATGCGTGCCAACCGTAGGTCGGATAAGACGCGGCa                                                                     >  2:179974/1‑139 (MQ=255)

                                                    tttATGCGTAATCTCGGGTTAATGGCGGCGGAGCGTGCTGGCGTGTTGAAACGTCAGGCGCTGAAATATGCGTTAGGGTTGTAACCTTACAACATTGCCGGATGCGTGCCAACCGTAGGTCGGATAAGACGCGGCAGCg                                                                  <  1:1055986/139‑1 (MQ=255)

                                                         gCGTAATCTCGGGTTAATGGCGGCGGAGCGTGCTGGCGTGTTGAAACGTCAGGCGCTGAAATATGCGTTAGGGTTGTAACCTTACAACATTGCCGGATGCGTGCCAACCGTAGGTCGGATAAGACGCGGCAGCGTCGCa                                                             <  1:179974/139‑1 (MQ=255)

                                                           gTAATCTCGGGTTAATGGCGGCGGAGCGTGCTGGCGTGTTGAAACGTCAGGCGCTGAAATATGCGTTAGGGTTGTAACCTTACAACATTGCCGGATGCGTGCCAACCGTAGGTCGGATAAGACGCGGCAGCGTCGCATc                                                           >  1:959921/1‑139 (MQ=255)

                                                             aaTCTCGGGTTAATGGCGGCGGAGCGTGCTGGCGTGTTGAAACGTCAGGCGCTGAAATATGCGTTAGGGTTGTAACCTTACAACATTGCCGGATGCGTGCCAACCGTAGGTCGGATAAGACGCGGCAGCGTCGCATCCg                                                         <  1:1126000/139‑1 (MQ=255)

                                                             aaTCTCGGGTTAATGGCGGCGGAGCGTGCTGGCGTGTTGAAACGTCAGGCGCTGAAATATGCGTTAGGGTTGTAACCTTACAACATTGCCGGATGCGTGCCAACCGTAGGTCGGATAAGACGCGGCAGCGTCGCATCCg                                                         >  2:1126000/1‑139 (MQ=255)

                                                                ctcGGGTTAATGGCGGCGGAGCGTGCTGGCGTGTTGAAACGTCAGGCGCTGAAATATGCGTTAGGGTTGTAACCTTACAACATTGCCGGATGCGTGCCAACCGTAGGTCGGATAAGACGCGGCAGCGTCGCATCCGACa                                                      <  1:1034473/139‑1 (MQ=255)

                                                                  cGGGTTAATGGCGGCGGAGCGTGCTGGCGTGTTGAAACGTCAGGCGCTGAAATATGCGTTAGGGTTGTAACCTTACAACATTGcc                                                                                                          >  2:39945/1‑85 (MQ=255)

                                                                  cGGGTTAATGGCGGCGGAGCGTGCTGGCGTGTTGAAACGTCAGGCGCTGAAATATGCGTTAGGGTTGTAACCTTACAACATTGcc                                                                                                          <  1:39945/85‑1 (MQ=255)

                                                                   gggTTAATGGCGGCGGAGCGTGCTGGCGTGTTGAAACGTCAGGCGCTGAAATATGCGTTAGGGTTGTAACCTTACAACATTGCCGGATGCGTGCCAACCGTAGGTCGGATAAGACGCGGCAGCGTCGCATCCGACATTg                                                   <  2:313488/139‑1 (MQ=255)

                                                                    ggTTAATGGCGGCGGAGCGTGCTGGCGTGTTGAAACGTCAGGCGCTGAAATATGCGTTAGGGTTGTAACCTTACAACATTGCCGGATGCGTGCCAACCGTAGGTCGGATAAGACGCGGCAGCGTCGCATCCGACATTGa                                                  <  1:241842/139‑1 (MQ=255)

                                                                         aTGGCGGCGGAGCGTGCTGGCGTGTTGAAACGTCAGGCGCTGAAATATGCGTTAGGGTTGTAACCTTACAACATTGCCGGATGCGTGCCAACCGTAGGTCGGATAAGACGCGGCAGCGTCGCATCCGACATTGAAGGAt                                             >  1:212122/1‑139 (MQ=255)

                                                                           ggcggcGGAGCGTGCTGGCGTGTTGAAACGTCAGGCGCTGAAATATGCGTTAGGGTTGTAACCTTACAACATTGCCGGATGCGTGCCAACCGTAGGTCGGATAAGACGCGGCAGCGTCGCATCCGACATTGAAGGATaa                                           <  2:685415/139‑1 (MQ=255)

                                                                               gcggAGCGTGCTGGCGTGTTGAAACGTCAGGCGCTGAAATATGCGTTAGGGTTGTAACCTTACAACATTGCCGGATGCGTGCCAACCGTAGGTCGGATAAGACGCGGCAGCGTCGCATCCGACATTGAAGGATAAGACg                                       >  2:546185/1‑139 (MQ=255)

                                                                                               tgtTGAAACGTCAGGCGCTGAAATATGCGTTAGGGTTGTAACCTTACAACATTGCCGGATGCGTGCCAACCGTAGGTCGGa                                                                                 <  1:561355/81‑1 (MQ=255)

                                                                                               tgtTGAAACGTCAGGCGCTGAAATATGCGTTAGGGTTGTAACCTTACAACATTGCCGGATGCGTGCCAACCGTAGGTCGGa                                                                                 >  2:561355/1‑81 (MQ=255)

                                                                                               tgtTGAAACGTCAGGCGCTGAAATATGCGTTAGGGTTGTAACCTTACAACATTGCCGGATGCGTGCCAACCGTAGGTCGGATAAGACGCGGCAGCGTCGCATCCGACATTGAAGGATAAGACGTGTCAACATCGCATTc                       <  2:212122/139‑1 (MQ=255)

                                                                                                 ttGAAACGTCAGGCGCTGAAATATGCGTTAGGGTTGTAACCTTACAACATTGCCGGATGCGTGCCAACCGTAGGTCGGATAAGACGCGGCAGCGTCGCATCCGACATTGAAGGATAAGACGTGTCAACATCGCATTCGa                     >  2:385683/1‑139 (MQ=255)

                                                                                                           aGGCGCTGAAATATGCGTTAGGGTTGTAACCTTACAACATTGCCGGATGCGTGCCAACCGTAGGTCGGATAAGACGCGGCAGCGTCGCATCCGACATTGAAGGATAAGACGTGTCAACATCGCATTCGACATtgaatga           >  2:1081974/1‑139 (MQ=255)

                                                                                                                  gAAATATGCGTTAGGGTTGTAACCTTACAACATTGCCGGATGCGTGCCAACCGTAg                                                                                       <  2:1060558/56‑1 (MQ=255)

                                                                                                                  gAAATATGCGTTAGGGTTGTAACCTTACAACATTGCCGGATGCGTGCCAACCGTAg                                                                                       >  1:1060558/1‑56 (MQ=255)

                                                                                                                    aaTATGCGTTAGGGTTGTAACCTTACAACATTGCCGGATGCGTGCCAACCGTAGGTCGGATAAGACGCGGCAGCGTCGCATCCGACATTGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGaaa  <  2:959921/139‑1 (MQ=255)

                                                                                                                             tAGGGTTGTAACCTTACAACATTGCCGGATGCGTGCCAACCGTAGGTCGGATAAGACGCGGCAGCGTCGCATCCGACATTGAAGGATAAGACGTGTCAACATCGCATTCGACATtgaatgaa          <  2:472543/122‑1 (MQ=255)

                                                                                                                             tAGGGTTGTAACCTTACAACATTGCCGGATGCGTGCCAACCGTAGGTCGGATAAGACGCGGCAGCGTCGCATCCGACATTGAAGGATAAGACGTGTCAACATCGCATTCGACATtgaatgaa          >  1:472543/1‑122 (MQ=255)

                                                                                                                                    gTAACCTTACAACATTGCCGGATGCGTGCCAACCGTAGGTCGGATAAGACGCGGCAGCGTCGCATCCGACATTg                                                   >  1:95234/1‑74 (MQ=255)

                                                                                                                                    gTAACCTTACAACATTGCCGGATGCGTGCCAACCGTAGGTCGGATAAGACGCGGCAGCGTCGCATCCGACATTg                                                   <  2:95234/74‑1 (MQ=255)

CGGTATGGATCTGTTTTATGCCGGATTCAGCAATAATCTGCCACCACTGCGTTTTATGCGTAATCTCGGGTTAATGGCGGCGGAGCGTGCTGGCGTGTTGAAACGTCAGGCGCTGAAATATGCGTTAGGGTTGTAGCCTTACAACATTGCCGGATGCGTGCCAACCGTAGGTCGGATAAGACGCGGCAGCGTCGCATCCGACATTGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAA  >  NC_000913/696141‑696395

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A