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	994,037	C→A	45.9%	F344L (TTC→TTA)	clcB →	predicted voltage‑gated chloride channel

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	994,037	0	C	A	45.9%	26.6 / 87.6	85	F344L (TTC→TTA)	clcB	predicted voltage‑gated chloride channel
Reads supporting (aligned to +/- strand): ref base C (37/9); new base A (8/31); total (45/40)
Fisher's exact test for biased strand distribution p-value = 2.77e-08
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.68e-01

TTTACACCGACGCTATTTATCGGTCTTGCCATTGGCATGTTGTATGGTCGTAGCCTGGGATTATGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGATTGACCGGGATGGCGACACTGTTGGCGGC  >  minE/993969‑994099

tttACACCGACGCTATTTATCGGTCTTGCCATTGGCATGTTGTATGGTCGTAGCCTGGGATTATGGTTc                                                                >  1:1053372/1‑69 (MQ=255)

tttACACCGACGCTATTTATCGGTCTTGCCATTGGCATGTTGTATGGTCGTAGCCTGGGATTATGGTTc                                                                >  1:2422546/1‑69 (MQ=255)

tttACACCGACGCTATTTATCGGTCTTGCCATTGGCATGTTGTATGGTCGTAGCCTGGGATTATGGTTc                                                                >  1:2348452/1‑69 (MQ=255)

tttACACCGACGCTATTTATCGGTCTTGCCATTGGCATGTTGTATGGTCGTAGCCTGGGATTATGGTTc                                                                >  1:1464277/1‑69 (MQ=255)

tttACACCGACGCTATTTATCGGTCTTGCCATTGGCATGTTGTATGGTCGTAGCCTGGGATTATGGTTc                                                                >  1:682237/1‑69 (MQ=255)

tttACACCGACGCTATTTATCGGTCTTGCCATTGGCATGTTGTATGGTCGTAGCCTGGGATTATGGTTc                                                                >  1:1651850/1‑69 (MQ=255)

tttACACCGACGCTATTTATCGGTCTTGCCATTGGCATGTTGTATGGTCGTAGCCTGGGATTATGGTTc                                                                >  1:523410/1‑69 (MQ=255)

    cacCGACGCTATTTATCGGTCTTGCCATTGGCATGTTGTATGGTCGTAGCCTGGGATTATGGTTCCCt                                                             <  1:3040214/68‑1 (MQ=255)

    cacCGACGCTATTTATCGGTCTTGCCATTGGCATGTTGTATGGTCGTAGCCTGGGATTATGGTTCCCt                                                             <  1:787780/68‑1 (MQ=255)

      ccGACGCTATTTATCGGTCTTGCCATTGGCATGTTGTATGGTCGTAGCCTGGGATTATGGTTACCTGAt                                                          <  1:3233572/69‑1 (MQ=255)

      ccGACGCTATTTATCGGTCTTGCCATTGGCATGTTGTATGGTCGTAGCCTGGGATTATGGTTACCTGAt                                                          <  1:2915885/69‑1 (MQ=255)

      ccGACGCTATTTATCGGTCTTGCCATTGGCATGTTGTATGGTCGTAGCCTGGGATTATGGTTACCTGAt                                                          <  1:2767152/69‑1 (MQ=255)

      ccGACGCTATTTATCGGTCTTGCCATTGGCATGTTGTATGGTCGTAGCCTGGGATTATGGTTACCTGAt                                                          <  1:2114323/69‑1 (MQ=255)

      ccGACGCTATTTATCGGTCTTGCCATTGGCATGTTGTATGGTCGTAGCCTGGGATTATGGTTACCTGAt                                                          <  1:1871887/69‑1 (MQ=255)

      ccGACGCTATTTATCGGTCTTGCCATTGGCATGTTGTATGGTCGTAGCCTGGGATTATGGTTACCTGAt                                                          <  1:1804222/69‑1 (MQ=255)

      ccGACGCTATTTATCGGTCTTGCCATTGGCATGTTGTATGGTCGTAGCCTGGGATTATGGTTACCTGAt                                                          <  1:349701/69‑1 (MQ=255)

      ccGACGCTATTTATCGGTCTTGCCATTGGCATGTTGTATGGTCGTAGCCTGGGATTATGGTTACCTGAt                                                          <  1:1533161/69‑1 (MQ=255)

      ccGACGCTATTTATCGGTCTTGCCATTGGCATGTTGTATGGTCGTAGCCTGGGATTATGGTTACCTGAt                                                          <  1:1397057/69‑1 (MQ=255)

         aCGCTATTTATCGGTCTTGCCATTGGCATGTTGTATGGTCGTAGCCTGGGATTATGGTTacc                                                              >  1:3094441/1‑62 (MQ=255)

         aCGCTATTTATCGGTCTTGCCATTGGCATGTTGTATGGTCGTAGCCTGGGATTATGGTTACCTGATgg                                                        >  1:2936225/1‑68 (MQ=255)

         aCGCTATTTATCGGTCTTGCCATTGGCATGTTGTATGGTCGTAGCCTGGGATTATGGTTACCTGATgg                                                        >  1:1720665/1‑68 (MQ=255)

         aCGCTATTTATCGGTCTTGCCATTGGCATGTTGTATGGTCGTAGCCTGGGATTATGGTTACCTGATgg                                                        >  1:997487/1‑68 (MQ=255)

         aCGCTATTTATCGGTCTTGCCATTGGCATGTTGTATGGTCGTAGCCTGGGATTATGGTTACCTGATgg                                                        >  1:678317/1‑68 (MQ=255)

         aCGCTATTTATCGGTCTTGCCATTGGCATGTTGTATGGTCGTAGCCTGGGATTATGGTTACCTGATgg                                                        >  1:2975456/1‑68 (MQ=255)

         aCGCTATTTATCGGTCTTGCCATTGGCATGTTGTATGGTCGTAGCCTGGGATTATGGTTACCTCATgg                                                        >  1:812400/1‑68 (MQ=255)

                 tATCGGTCTTGCCATTGGCATGTTGTATGGTCGTAGCCTGGGATTATGGTTCCCTGATGGCGAAGAAAt                                               <  1:2533325/69‑1 (MQ=255)

                 tATCGGTCTTGCCATTGGCATGTTGTATGGTCGTAGCCTGGGATTATGGTTCCCTGATGGCGAAGAAAt                                               <  1:149408/69‑1 (MQ=255)

                 tATCGGTCTTGCCATTGGCATGTTGTATGGTCGTAGCCTGGGATTATGGTTCCCTGATGGCGAAGAAAt                                               <  1:1962051/69‑1 (MQ=255)

                 tATCGGTCTTGCCATTGGCATGTTGTATGGTCGTAGCCTGGGATTATGGTTCCCTGATGGCGAAGAAAt                                               <  1:884911/69‑1 (MQ=255)

                 tATCGGTCTTGCCATTGGCATGTTGTATGGTCGTAGCCTGGGATTATGGTTCCCTGATGGCGAAGAAAt                                               <  1:2279044/69‑1 (MQ=255)

                            ccATTGGCATGTTGTATGGTCGTAGCCTGGGATTATGGTTACCTGATGGCGAAGAAATTACGCTTTTAc                                    >  1:193806/1‑69 (MQ=255)

                            ccATTGGCATGTTGTATGGTCGTAGCCTGGGATTATGGTTACCTGATGGCGAAGAAATTACGCTTTTAc                                    >  1:1822003/1‑69 (MQ=255)

                                 ggCATGTTGTATGGTCGTAGCCTGGGATTATGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGa                               >  1:1425821/1‑69 (MQ=255)

                                 ggCATGTTGTATGGTCGTAGCCTGGGATTATGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGa                               >  1:3200021/1‑69 (MQ=255)

                                 ggCATGTTGTATGGTCGTAGCCTGGGATTATGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGa                               >  1:2873284/1‑69 (MQ=255)

                                   cATGTTGTATGGTCGTAGCCTGGGATTATGGTTACCTgtt                                                          <  1:3398379/40‑3 (MQ=255)

                                    aTGTTGTATGGTCGTAGCCTGGGATTATGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGATTg                            <  1:3225273/69‑1 (MQ=255)

                                       ttgtATTGTCGTAGCCTGGGATTATGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGATTGAcc                         >  1:1144542/1‑69 (MQ=255)

                                       ttgtATGGTCGTAGCCTGGGATTATGGTTCCCTGATg                                                         >  1:3188369/1‑37 (MQ=255)

                                       ttgtATGGTCGTAGCCTGGGATTATGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGAt                              >  1:2181382/1‑64 (MQ=255)

                                       ttgtATGGTCGTAGCCTGGGATTATGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGATTGAcc                         >  1:318962/1‑69 (MQ=255)

                                       ttgtATGGTCGTAGCCTGGGATTATGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGATTGAcc                         >  1:2730804/1‑69 (MQ=255)

                                       ttgtATGGTCGTAGCCTGGGATTATGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGATTGAcc                         >  1:2589262/1‑69 (MQ=255)

                                       ttgtATGGTCGTAGCCTGGGATTATGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGATTGAcc                         >  1:2978255/1‑69 (MQ=255)

                                       ttgtATGGTCGTAGCCTGGGATTATGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGATTGAcc                         >  1:2403881/1‑69 (MQ=255)

                                       ttgtATGGTCGTAGCCTGGGATTATGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGATTGAcc                         >  1:847561/1‑69 (MQ=255)

                                       ttgtATGGTCGTAGCCTGGGATTATGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGATTGAcc                         >  1:652709/1‑69 (MQ=255)

                                         gtATGGTCGTAGCCTGGGATTATGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGATTGACCgg                       <  1:1071666/69‑1 (MQ=255)

                                              gTCGTAGCCTGGGATTATGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGATTGACCGGGATg                   >  1:3208219/1‑68 (MQ=255)

                                              gTCGTAGCCTGGGATTATGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGATTGACCGGGATg                   >  1:2107634/1‑68 (MQ=255)

                                              gTCGTAGCCTGGGATTATGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGATTGACCGGGATg                   >  1:2911783/1‑68 (MQ=255)

                                              gTCGTAGCCTGGGATTATGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGATTGACCGGGATg                   >  1:279399/1‑68 (MQ=255)

                                              gTCGTAGCCTGGGATTATGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGATTGACCGGGATg                   >  1:2305140/1‑68 (MQ=255)

                                              gTCGTAGCCTGGGATTATGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGATTGACCGGGATg                   >  1:3188417/1‑68 (MQ=255)

                                              gTCGTAGCCTGGGATTATGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGA‑TGACCGGGATGGc                 >  1:1577411/1‑69 (MQ=255)

                                                             tATGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcg    >  1:3264866/1‑68 (MQ=255)

                                                             tATGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGATTGACAGGGATGGCGACACTGTTggcg    >  1:2318898/1‑68 (MQ=255)

                                                              aTGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcggc  >  1:3001598/1‑69 (MQ=255)

                                                              aTGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcggc  >  1:2350653/1‑69 (MQ=255)

                                                              aTGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcggc  >  1:2472398/1‑69 (MQ=255)

                                                              aTGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcggc  >  1:1802395/1‑69 (MQ=255)

                                                              aTGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcggc  >  1:1372221/1‑69 (MQ=255)

                                                              aTGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcggc  >  1:3324678/1‑69 (MQ=255)

                                                              aTGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcggc  >  1:1260195/1‑69 (MQ=255)

                                                              aTGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcggc  >  1:2822616/1‑69 (MQ=255)

                                                              aTGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcggc  >  1:2853735/1‑69 (MQ=255)

                                                              aTGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcggc  >  1:2042201/1‑69 (MQ=255)

                                                              aTGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcggc  >  1:3314580/1‑69 (MQ=255)

                                                              aTGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcgg   >  1:448499/1‑68 (MQ=255)

                                                              aTGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcg    >  1:1523985/1‑67 (MQ=255)

                                                              aTGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcc    >  1:3083059/1‑66 (MQ=255)

                                                              aTGGTTCCCGGATGGCGAAGAAATTACACTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcgg   >  1:2870223/1‑68 (MQ=255)

                                                                ggTTACCTTATGGCGAAGAAATTACGCTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcggc  <  1:3146514/67‑1 (MQ=255)

                                                                ggTTACCTGATGGCTAAGAAATTACGCTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcggc  <  1:1840080/67‑1 (MQ=255)

                                                                ggTTACCTGATGGCGAAGAAATTACGCTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcggc  <  1:3099246/67‑1 (MQ=255)

                                                                ggTTACCTGATGGCGAAGAAATTACGCTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcggc  <  1:2619627/67‑1 (MQ=255)

                                                                ggTTACCTGATGGCGAAGAAATTACGCTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcggc  <  1:958844/67‑1 (MQ=255)

                                                                ggTTACCTGATGGCGAAGAAATTACGCTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcggc  <  1:930959/67‑1 (MQ=255)

                                                                ggTTACCTGATGGCGAAGAAATTACGCTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcggc  <  1:2568093/67‑1 (MQ=255)

                                                                ggTTACCTGATGGCGAAGAAATTACGCTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcggc  <  1:1384318/67‑1 (MQ=255)

                                                                ggTTACCTGATGGCGAAGAAATTACGCTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcggc  <  1:717575/67‑1 (MQ=255)

                                                                ggTTACCTGATGGCGAAGAAATTACGCTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcggc  <  1:712064/67‑1 (MQ=255)

                                                                ggTTACCTGATGGCGAAGAAATTACGCTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcggc  <  1:1928810/67‑1 (MQ=255)

                                                                ggTTACCTGATGGCGAAGAAATTACGCTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcggc  <  1:1705177/67‑1 (MQ=255)

                                                                ggTTACCTGATGGCGAAGAAATTACGCTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcggc  <  1:1783472/67‑1 (MQ=255)

                                                                ggTTACCTGATGGCGAAGAAATTACGCTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcggc  <  1:3124136/67‑1 (MQ=255)

                                                                ggTTACCTGATGGCGAAGAAATTACGCTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcggc  <  1:335757/67‑1 (MQ=255)

                                                                ggTTACCTGATGGCGAAGAAATTACGCTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcggc  <  1:3188933/67‑1 (MQ=255)

                                                                 gTTACCTGATGGCGAAGAAATTACGCTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcggc  <  1:730870/66‑1 (MQ=255)

                                                                 gTTACCTGATGGCGAAGAAATTACGCTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcggc  <  1:1573769/66‑1 (MQ=255)

                                                                 gTTACCTGATGGCGAAGAAATTACGCTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcggc  <  1:2348222/66‑1 (MQ=255)

                                                                 gTTACCTGATGGCGAAGAAATTACGCTTTTACTCGGATTGACCGGGATGGCGACACTGTTggcggc  <  1:40328/66‑1 (MQ=255)

                                                                 gTTACCTGATGGCGAAGAAATTACGCTTTTACTCGGATTGACCGGAATGGCGACACTGTTggcggc  <  1:1798546/66‑1 (MQ=255)

TTTACACCGACGCTATTTATCGGTCTTGCCATTGGCATGTTGTATGGTCGTAGCCTGGGATTATGGTTCCCTGATGGCGAAGAAATTACACTTTTACTCGGATTGACCGGGATGGCGACACTGTTGGCGGC  >  minE/993969‑994099

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 21 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A