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
A2 F1 I0 R1	4577	57.4	3436498	77.7%	2670158	63.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	418,917	G→A	55.6%	R172R (CGG→CGA)	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
*	minE	418,917	0	G	A	55.6%	16.6 / 73.4	90	R172R (CGG→CGA)	ubiF	2‑octaprenyl‑3‑methyl‑6‑methoxy‑1,4‑benzoquinol oxygenase
Reads supporting (aligned to +/- strand): ref base G (17/23); new base A (16/34); total (33/57)
Fisher's exact test for biased strand distribution p-value = 3.80e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GAAGTGATTCGCGCGAAGCTGGTGATTGGTGCCGACGGCGCAAATTCGCAGGTGCGGCAGATGGCGGGAATTGGCGTTCATGCATGGCAGTATGCGCAGTCGTGCATGTTGATTAGCGTCCA  >  minE/418861‑418982

gAAGTGATTCGCGCGAAGCTGGTGATTGGTGCCGACGGCGCAAATTCGCAGGTGCGGCAGATGGCggg                                                        <  1:3303931/68‑1 (MQ=255)

    tGATTCGCGCGAAGCTGGTGATTGGTGCCGACGGCGCAAATTCGCAGGTGCGGCAGATGGCGGGAATTg                                                   >  1:2973923/1‑69 (MQ=255)

    tGATTCGCGCGAAGCTGGTGATTGGTGCCGACGGCGCAAATTCGCAGGTGCGGCAGATGGCGGGAATTg                                                   >  1:1532079/1‑69 (MQ=255)

    tGATTCGCGCGAAGCTGGTGATTGGTGCCGACGGCGCAAATTCGCAGGTGCGGCAGATGGCGGGAATTg                                                   >  1:3175476/1‑69 (MQ=255)

     gATTCGCGCGAAGCTGGTGATTGGTGCCGACGGCGCAAATTCGCAGGTGCGGCAGATGGCGGGAATTgg                                                  >  1:243586/1‑69 (MQ=255)

     gATTCGCGCGAAGCTGGTGATTGGTGCCGACGGCGCAAATTCGCAGGTGCGGCAGATGGCGGGAATTgg                                                  >  1:1750887/1‑69 (MQ=255)

     gATTCGCGCGAAGCTGGTGATTGGTGCCGACGGCGCAAATTCGCAGGTGCGGCAGATGGCGGGAATTgg                                                  >  1:2969498/1‑69 (MQ=255)

     gATTCGCGCGAAGCTGGTGATTGGTGCCGACGGCGCAAATTCGCAGGTGCGGCAGATGGCGGGAATTgg                                                  >  1:1222138/1‑69 (MQ=255)

     gATTCGCGCGAAGCTGGTGATTGGTGCCGACGGCGCAAATTCGCAGGTGCGGCAGATGGCGGGAATTgg                                                  >  1:1636377/1‑69 (MQ=255)

         cgcgcgAAGCTGGTGATTGGTGCCGACGGCGCAAATTCGCAGGTGCGGCAGATGGCGGGAATTGGCGtt                                              >  1:906723/1‑69 (MQ=255)

         cgcgcgAAGCTGGTGATTGGTGCCGACGGCGCAAATTCGCAGGTGCGGCAGATGGCGGGAATTGGCGtt                                              >  1:1314855/1‑69 (MQ=255)

         cgcgcgAAGCTGGTGATTGGTGCCGACGGCGCAAATTCGCAGGTGCGGCAGATGGCGGGAATTGGCGtt                                              >  1:1562246/1‑69 (MQ=255)

         cgcgcgAAGCTGGTGATTGGTGCCGACGGCGCAAATTCGCAGGTGCGGCAGATGGCGGGAATTGGCGtt                                              >  1:751638/1‑69 (MQ=255)

         cgcgcgAAGCTGGTGATTGGTGCCGACGGCGCAAATTCGCAGGTGCGGCAGATGGCGGGAATTGGCGtt                                              >  1:1623563/1‑69 (MQ=255)

            gcgAAGCTGGTGATTGGTGCCGACGGCGCAAATTCGCAGGTGCGACAGATGGCggg                                                        >  1:2636401/1‑56 (MQ=255)

            gcgAAGCTGGTGATTGGTGCCGACGGCGCAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTcat                                           >  1:1913705/1‑69 (MQ=255)

            gcgAAGCTGGTGATTGGTGCCGACGGCGCAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTcat                                           >  1:3432885/1‑69 (MQ=255)

            gcgAAGCTGGTGATTGGTGCCGACGGCGCAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTcat                                           >  1:566343/1‑69 (MQ=255)

            gcgAAGCTGGTGATTGGTGCCGACGGCGCAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTcat                                           >  1:3273710/1‑69 (MQ=255)

            gcgAAGCTGGTGATTGGTGCCGACGGCGCAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTcat                                           >  1:424924/1‑69 (MQ=255)

            gcgAAGCTGGTGATTGGTGCCGACGGCGCAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTcat                                           >  1:3301457/1‑69 (MQ=255)

            gcgAAGCTGGTGATTGGTGCCGACGGCGCAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTcat                                           >  1:2467998/1‑69 (MQ=255)

            gcgAAGCTGGTGATTGGTGCCGACGGCGCAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTcat                                           >  1:1702527/1‑69 (MQ=255)

            gcgAAGCTGGTGATTGGTGCCGACGGCGCAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTcat                                           >  1:70419/1‑69 (MQ=255)

            gcgAAGCTGGTGATTGGTGCCGACGGCGCAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTcat                                           >  1:3262137/1‑69 (MQ=255)

            gcgAAGCTGGTGATTGGTGCCGACGGCGCAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTcat                                           >  1:837497/1‑69 (MQ=255)

            gcgAAGCTGGTGATTGGTGCCGACGGCGCAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTcat                                           >  1:1457323/1‑69 (MQ=255)

            gcgAAGCTGGTGATTGGTGCCGACGGCGCAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTcat                                           >  1:1386777/1‑69 (MQ=255)

            gcgAAGCTGGTGATTGGTGCCGACGGCGCAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTcat                                           >  1:902578/1‑69 (MQ=255)

            gcgAAGCTGGTGATTGGTGCCGACGGCGCAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTcat                                           >  1:1270740/1‑69 (MQ=255)

             cgAAGCTGGTGATTGGTGCCGACGGCGCAAATTCGCAGGTGCGGCAGATGGCGGGAATTGGCGTTcatg                                          <  1:502127/69‑1 (MQ=255)

                       gATTGGTGCCGACGGCGCAAATTCGCAGGTGCGGCAGATGGCGGGAATTGGCGTTCATGCATGGCAg                                  <  1:3028754/67‑1 (MQ=255)

                       gATTGGTGCCGACGGCGCAAATTCGCAGGTGCGGCAGATGGCGGGAATTGGCGTTCATGCATGGCAg                                  <  1:178168/67‑1 (MQ=255)

                       gATTGGTGCCGACGGCGCAAATTCGCAGGTGCGGCAGATGGCGGGAATTGGCGTTCATGCATGGCAg                                  <  1:2009084/67‑1 (MQ=255)

                       gATTGGTGCCGACGGCGCAAATTCGCAGGTGCGGCAGATGGCGGGAATTGGCGTTCATGCATGGCAg                                  <  1:2165131/67‑1 (MQ=255)

                        aTTGGTGCCGACGGCGCAAATTCGCAGGTGCGGCAGATGGCGGGAATTGGCGTTCATGCATGGCAg                                  <  1:2753010/66‑1 (MQ=255)

                               ccGACGGCGCAAATTCGCAGGTGCGGCAGATGGCGGGAATTGGCGTTCATGCATGGCAGTATGCGCAGt                        >  1:844543/1‑69 (MQ=255)

                                   cGGCGCAAATTCGCAGGTGCGGCAGATGGCGGGAATTGGCGTTCATGCATGGCAGTATGCGCAGTCGTg                    <  1:2993140/69‑1 (MQ=255)

                                   cGGCGCAAATTCGCAGGTGCGGCAGATGGCGGGAATTGGCGTTCATGCATGGCAGTATGCGCAGTCGTg                    <  1:2486500/69‑1 (MQ=255)

                                   cGGCGCAAATTCGCAGGTGCGGCAGATGGCGGGAATTGGCGTTCATGCATGGCAGTATGCGCAGTCGTg                    <  1:3256898/69‑1 (MQ=255)

                                   cGGCGCAAATTCGCAGGTGCGGCAGATGGCGGGAATTGGCGTTCATGCATGGCAGTATGCGCAGTCGTg                    <  1:3193650/69‑1 (MQ=255)

                                   cGGCGCAAATTCGCAGGTGCGGCAGATGGCGGGAATTGGCGTTCATGCATGGCAGTATGCGCAGTCGTg                    <  1:334824/69‑1 (MQ=255)

                                   cGGCGCAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTCATGCCTGGCAGTATGCGCAGTCGTg                    <  1:3413404/69‑1 (MQ=255)

                                   cGGCGCAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTCATGCCTGGCAGTATGCGCAGTCGTg                    <  1:1155079/69‑1 (MQ=255)

                                   cGGCGCAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTCATGCCTGGCAGTATGCGCAGTCGTg                    <  1:1510387/69‑1 (MQ=255)

                                   cGGCGCAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTCATGCCTGGCAGTATGCGCAGTCGTg                    <  1:1669922/69‑1 (MQ=255)

                                   cGGCGCAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTCATGCCTGGCAGTATGCGCAGTCGTg                    <  1:655059/69‑1 (MQ=255)

                                   cGGCGCAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTCATGCCTGGCAGTATGCGCAGTCGTg                    <  1:193320/69‑1 (MQ=255)

                                   cGGCGCAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTCATGCCTGGCAGTATGCGCAGTCGTg                    <  1:293838/69‑1 (MQ=255)

                                   cGGCGCAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTCATGCCTGGCAGTATGCGCAGTCGTg                    <  1:1942828/69‑1 (MQ=255)

                                   cGGCGCAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTCATGCCTGGCAGTATGCGCAGTCGTg                    <  1:488042/69‑1 (MQ=255)

                                   cGGCGCAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTCATGCCTGGCAGTATGCGCAGTCGTg                    <  1:2733492/69‑1 (MQ=255)

                                   cGGCGCAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTCATGCCTGGCAGTATGCGCAGTCGTg                    <  1:260544/69‑1 (MQ=255)

                                   cGGCGCAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTCATGCCTGGCAGTATGCGCAGTCGTg                    <  1:2078446/69‑1 (MQ=255)

                                   cGGCGCAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTCATGCCTGGCAGTATGCGCAGTCGTg                    <  1:2482305/69‑1 (MQ=255)

                                    ggCGCAAATTCGCAGGTGCGGCAGATGGCGGGAATTGGCGTTCATGCATGGCAGTATGCGCAGTCGTg                    <  1:2960497/68‑1 (MQ=255)

                                    ggCGCAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTCATGCCTGGCAGTATGCGCAGTCGTg                    <  1:375779/68‑1 (MQ=255)

                                      cgcAAATTCGCTGGTGCGACTGATGGCGGGAATTGGCGTTCATGCCTGGCAGTATGCGCAGTCGTGTAt                 <  1:65555/69‑1 (MQ=255)

                                      cgcAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTCATGCCTGGCAGTATGCGCAGTCGTGTAt                 <  1:328986/69‑1 (MQ=255)

                                      cgcAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTCATGCCTGGCAGTATGCGCAGTCGTGTAt                 <  1:3267748/69‑1 (MQ=255)

                                      cgcAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTCATGCCTGGCAGTATGCGCAGTCGTGTAt                 <  1:368830/69‑1 (MQ=255)

                                      cgcAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTCATGCCTGGCAGTATGCGCAGTCGTGTAt                 <  1:916559/69‑1 (MQ=255)

                                      cgcAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTCATGCCTGGCAGTATGCGCAGTCGTGTAt                 <  1:2528147/69‑1 (MQ=255)

                                      cgcAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTCATGCCTGGCAGTATGCGCAGTCGTGTAt                 <  1:3002952/69‑1 (MQ=255)

                                      cgcAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTCATGCCTGGCAGTATGCGCAGTCGTGTAt                 <  1:1127622/69‑1 (MQ=255)

                                      cgcAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTCATGCCTGGCAGTATGCGCAGTCGTGTAt                 <  1:1349616/69‑1 (MQ=255)

                                      cgcAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTCATGCCTGGCAGTATGCGCAGTCGTGTAt                 <  1:141950/69‑1 (MQ=255)

                                      cgcAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTCATGCCTGGCAGTATGCGCAGTCGTGTAt                 <  1:1475688/69‑1 (MQ=255)

                                      cgcAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTCATGCCTGGCAGTATGCGCAGTCGTGTAt                 <  1:166065/69‑1 (MQ=255)

                                      cgcAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTCATGCCTGGCAGTATGCGCAGTCGTGTAt                 <  1:1676606/69‑1 (MQ=255)

                                      cgcAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTCATGCCTGGCAGTATGCGCAGTCGTGTAt                 <  1:1939928/69‑1 (MQ=255)

                                      cgcAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTCATGCCTGGCAGTATGCGCAGTCGTGTAt                 <  1:1985787/69‑1 (MQ=255)

                                      cgcAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTCATGCCTGGCAGTATGCGCAGTCGTGTAt                 <  1:3077803/69‑1 (MQ=255)

                                      cgcAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTCATGCCTGGCAGTATGCGCAGTCGTGTAt                 <  1:2905554/69‑1 (MQ=255)

                                      cgcAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTCATGCCTGGCAGTATGCGCAGTCGTGTAt                 <  1:2315422/69‑1 (MQ=255)

                                      cgcAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTCATGCCTGGCAGTATGCGCAGTCGTGTAt                 <  1:100272/69‑1 (MQ=255)

                                      cgcAAATTCGCAGGTGCGACAGATGGCGGGAATTGGCGTTCATGCCTGGCAGTATGCGCAGTCGTGTAt                 <  1:2437518/69‑1 (MQ=255)

                                           aTTCGCAGGTGCGGCAGATGGCGGGAATTGGCGTTCATGCATGGCAg                                  <  1:481141/47‑1 (MQ=255)

                                           aTTCGCAGGTGCGGCAGATGGCGGGAATTGGCGTTCATGCATGGCAGTATGCGCAGTCGTg                    <  1:481648/61‑1 (MQ=255)

                                             tCGCAGGTGCGGCAGATGGCGGGAATTGGCGTTCATGCATGGCAGTATGCGCAGTCGTGCATGTTGAtt          <  1:1675222/69‑1 (MQ=255)

                                             tCGCAGGTGCGGCAGATGGCGGGAATTGGCGTTCATGCATGGCAGTATGCGCAGTCGTGCATGTTGAtt          <  1:812363/69‑1 (MQ=255)

                                             tCGCAGGTGCGGCAGATGGCGGGAATTGGCGTTCATGCATGGCAGTATGCGCAGTCGTGCATGTTGAtt          <  1:1569258/69‑1 (MQ=255)

                                              cGCAGGTGCGGCAGATGGCGGGAATTGGCGTTCATGCATGGCAGTATGCGCAGTCGTGCATGTTGATTa         <  1:2451478/69‑1 (MQ=255)

                                              cGCAGGTGCGGCAGATGGCGGGAATTGGCGTTCATGCATGGCAGTATGCGCAGTCGTGCATGTTGATTa         <  1:1812671/69‑1 (MQ=255)

                                              cGCAGGTGCGGCAGATGGCGGGAATTGGCGTTCATGCATGGCAGTATGCGCAGTCGTGCATGTTGATTa         <  1:238704/69‑1 (MQ=255)

                                              cGCAGGTGCGGCAGATGGCGGGAATTGGCGTTCATGCATGGCAGTATGCGCAGTCGTGCATGTTGATTa         <  1:2009400/69‑1 (MQ=255)

                                              cGCAGGTGCGGCAGATGGCGGGAATTGGCGTTCATGCATGGCAGTATGCGCAGTCGTGCATGTTGATTa         <  1:1302980/69‑1 (MQ=255)

                                                     gCGGCAGATGGCGGGAATTGGCGTTCATGCATGGCAGTATGCGCAGTCGTGCATGTTGATTAGCGTCCa  >  1:219995/1‑69 (MQ=255)

                                                     gCGGCAGATGGCGGGAATTGGCGTTCATGCATGGCAGTATGCGCAGTCGTGCATGTTGATTAGCGTCCa  >  1:2867769/1‑69 (MQ=255)

                                                     gCGGCAGATGGCGGGAATTGGCGTTCATGCATGGCAGTATGCGCAGTCGTGCATGTTGATTAGCGTCCa  >  1:2054859/1‑69 (MQ=255)

GAAGTGATTCGCGCGAAGCTGGTGATTGGTGCCGACGGCGCAAATTCGCAGGTGCGGCAGATGGCGGGAATTGGCGTTCATGCATGGCAGTATGCGCAGTCGTGCATGTTGATTAGCGTCCA  >  minE/418861‑418982

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A