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 F3 I0 R2	232	76.3	4135488	90.9%	3759158	60.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	1,598,488	C→T	37.2%	A60A (GCG→GCA)	yfeT ←	predicted DNA‑binding transcriptional regulator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	1,598,488	0	C	T	37.2%	84.1 / 89.0	86	A60A (GCG→GCA)	yfeT	predicted DNA‑binding transcriptional regulator
Reads supporting (aligned to +/- strand): ref base C (30/24); new base T (22/10); total (52/34)
Fisher's exact test for biased strand distribution p-value = 2.60e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GGCATTCGTTTTCTCCCGGCTGGCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAGCTGTTTCGCCATCTGCCGT  >  minE/1598419‑1598557

ggCATTCGTTTTCTCCCGGCTGGCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTgcg                                                                      >  1:854119/1‑71 (MQ=255)

ggCATTCGTTTTCTCCCGGCTGGCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTgcg                                                                      >  1:2841592/1‑71 (MQ=255)

ggCATTCGTTTTCTCCCGGCTGGCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTgcg                                                                      >  1:2378542/1‑71 (MQ=255)

 gCATTCGTTTTCTCCCGGCTGGCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTgcgc                                                                     >  1:2092610/1‑71 (MQ=255)

  cATTCGTTTTCTCCCGGCTGGCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTgcgc                                                                     <  1:3011036/70‑1 (MQ=255)

     tCGTTTTCTCCCGGCTGGCACTGTATTCGCCTATTAACGCCATACGCATTTCAGTAAATCCTTGCGCGcc                                                                  >  1:1503169/1‑70 (MQ=255)

     tCGTTTTCTCCCGGCTGGCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGCGCGcc                                                                  >  1:2732264/1‑70 (MQ=255)

      cGTTTTCTCCCGGCTGGCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGTGCGcc                                                                  >  1:1935228/1‑69 (MQ=255)

      cGTTTTCTCCCGGCTGGCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGCGCGcc                                                                  >  1:1051660/1‑69 (MQ=255)

      cGTTTTCTCCCGGCTGGCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGCGCGcc                                                                  >  1:1013199/1‑69 (MQ=255)

      cGTTTTCTCCCGGCTGGCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGCGCGcc                                                                  >  1:1062061/1‑69 (MQ=255)

          ttCTCCCGGCTGGCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGttt                                                            >  1:2269885/1‑71 (MQ=255)

          ttCTCCCGGCTGGCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGttt                                                            >  1:2311859/1‑71 (MQ=255)

          ttCTCCCGGCTGGCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGttt                                                            >  1:2819367/1‑71 (MQ=255)

          ttCTCCCGGCTGGCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGttt                                                            >  1:3837972/1‑71 (MQ=255)

          ttCTCCCGGCTGGCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGCGCGCCGAGttt                                                            >  1:3310052/1‑71 (MQ=255)

          ttCTCCCGGCTGGCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGCGCGCCGAGttt                                                            >  1:47175/1‑71 (MQ=255)

          ttCTCCCGGCTGGCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGCGCGCCGAGttt                                                            >  1:751194/1‑71 (MQ=255)

          ttCTCCCGGCTGGCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGCGCGCCGAGtt                                                             <  1:3868025/70‑1 (MQ=255)

          ttCTCCCGGCTGGCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGCGCGCCGAGtt                                                             <  1:4059001/70‑1 (MQ=255)

          ttCTCCCGGCTGGCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGCGCGCCGAGtt                                                             <  1:1207743/70‑1 (MQ=255)

          ttCTCCAGGCTGGCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGttt                                                            >  1:3150084/1‑71 (MQ=255)

               ccGGCTGGCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTg                                                         <  1:1803635/69‑1 (MQ=255)

                 ggCTGGCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCa                                                     <  1:3907492/71‑1 (MQ=255)

                       cACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTc                                               <  1:2864215/71‑1 (MQ=255)

                         cTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCAc                                             <  1:1785529/71‑1 (MQ=255)

                         cTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCAc                                             <  1:3318668/71‑1 (MQ=255)

                          tGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCAc                                             >  1:3417114/1‑70 (MQ=255)

                           gTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCACTa                                           >  1:975141/1‑71 (MQ=255)

                           gTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCACTa                                           >  1:1748950/1‑71 (MQ=255)

                                      ttAACGCCATACGCAATTCAGTAAATCCTTGTGTGCCGAGTTTTTGGGCa                                                     <  1:637725/50‑1 (MQ=255)

                                      ttAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCa                                                     <  1:123659/50‑1 (MQ=255)

                                      ttAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCa                                                     <  1:851640/50‑1 (MQ=255)

                                      ttAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCa                                                     <  1:2594286/50‑1 (MQ=255)

                                      ttAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCAc                                             <  1:341487/58‑1 (MQ=255)

                                      ttAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCAc                                             >  1:965180/1‑58 (MQ=255)

                                      ttAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCAc                                             >  1:761562/1‑58 (MQ=255)

                                      ttAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCAc                                             >  1:567685/1‑58 (MQ=255)

                                      ttAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCAc                                             <  1:2846128/58‑1 (MQ=255)

                                      ttAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCAc                                             >  1:26601/1‑58 (MQ=255)

                                      ttAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCAc                                             >  1:2566435/1‑58 (MQ=255)

                                      ttAACGCCATACGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTg                                                         >  1:730725/1‑46 (MQ=255)

                                      ttAACGCCATACGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTgg                                >  1:1772406/1‑71 (MQ=255)

                                      atAACGCCATACGCAAATCAGTAAAACCTAGTGCGcc                                                                  >  1:199193/2‑37 (MQ=19)

                                       tAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCAc                                             <  1:3313894/57‑1 (MQ=255)

                                        aaCGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAg                                                               >  1:2899463/1‑38 (MQ=255)

                                        aaCGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAg                                                               >  1:3170320/1‑38 (MQ=255)

                                         aCGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTa                             <  1:3134633/71‑1 (MQ=255)

                                         aCGCCATACGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCt                              <  1:1674767/70‑1 (MQ=255)

                                            ccATACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCACTATGc                                        <  1:583911/57‑1 (MQ=255)

                                               tACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTg                                                         >  1:1499/1‑37 (MQ=255)

                                               tACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGcc                        >  1:2824440/1‑70 (MQ=255)

                                               tACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGcc                        >  1:3584824/1‑70 (MQ=255)

                                               tACGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCt                              <  1:2213776/64‑1 (MQ=255)

                                               tACGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCt                              <  1:3945580/64‑1 (MQ=255)

                                               tACGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTACACTATGCTCGACTGGCt                              <  1:2115425/64‑1 (MQ=255)

                                                 cGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGa                                    >  1:2862428/1‑56 (MQ=255)

                                                 cGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAg                     >  1:1366054/1‑71 (MQ=255)

                                                 cGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTgg                                                        >  1:3013636/1‑36 (MQ=255)

                                                 cGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTaa                            >  1:88282/1‑64 (MQ=255)

                                                 cGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTaa                            >  1:3985102/1‑64 (MQ=255)

                                                 cGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTa                             >  1:2660055/1‑63 (MQ=255)

                                                 cGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTa                             >  1:3073233/1‑63 (MQ=255)

                                                 cGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGa                      >  1:240186/1‑70 (MQ=255)

                                                   cAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAGCt                   >  1:529816/1‑71 (MQ=255)

                                                     aTTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAGCTGt                 <  1:26916/71‑1 (MQ=255)

                                                     aTTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAGCTGt                 <  1:3286214/71‑1 (MQ=255)

                                                     aTTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAGCTGt                 <  1:748561/71‑1 (MQ=255)

                                                     aTTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAGCTGt                 <  1:338944/71‑1 (MQ=255)

                                                     aTTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAGCTGt                 <  1:3281630/71‑1 (MQ=255)

                                                       tCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAAt                                                  >  1:1877779/1‑36 (MQ=255)

                                                           tAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGAc                                   <  1:793620/47‑1 (MQ=255)

                                                           tAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGAc                                   <  1:1845929/47‑1 (MQ=255)

                                                           tAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGAc                                   <  1:1625384/47‑1 (MQ=255)

                                                           tAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAGc                    <  1:2434056/62‑1 (MQ=255)

                                                           tAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAGc                    <  1:1590988/62‑1 (MQ=255)

                                                            aaaTCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGa                                    >  1:3369319/1‑45 (MQ=255)

                                                             aaTCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTaa                            >  1:1868703/1‑52 (MQ=255)

                                                             aaTCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTaa                            >  1:2697533/1‑52 (MQ=255)

                                                             aaTCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTa                             >  1:635182/1‑51 (MQ=255)

                                                             aaTCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAGCTg                  >  1:2149701/1‑62 (MQ=255)

                                                             aaTCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAGCTGTTTCGCCa          <  1:3082827/70‑1 (MQ=255)

                                                               tCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTa                                           >  1:541074/1‑35 (MQ=255)

                                                               tCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTa                                           >  1:3696438/1‑35 (MQ=255)

                                                               tCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTa                                           >  1:3606811/1‑35 (MQ=255)

                                                               tCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTa                                           >  1:3447996/1‑35 (MQ=255)

                                                               tCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTa                                           >  1:1168071/1‑35 (MQ=255)

                                                               tCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAGCTGTTTCGCCATCt       <  1:415684/71‑1 (MQ=255)

                                                                ccTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAGCTGTTTCGCCATCTg      >  1:3155910/1‑71 (MQ=255)

                                                                ccTTGCGAGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTTGCt                              <  1:955502/47‑1 (MQ=38)

                                                                 cTTGTGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAGCTGTTTCGCCATCTGc     >  1:3773038/1‑71 (MQ=255)

                                                                    gcgcgcCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAGCTGTTTCGCCATCTGCCg   <  1:1727584/70‑1 (MQ=255)

                                                                    gcgcgcCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAGCTGTTTCGCCATCTGCCg   <  1:2226334/70‑1 (MQ=255)

                                                                    gcgcgcCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAGCTGTTTCGCCATCTGCCg   <  1:2054904/70‑1 (MQ=255)

                                                                     cgcgcCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAGCTGTTTCGCCATCTGCCGt  <  1:3820740/70‑1 (MQ=255)

GGCATTCGTTTTCTCCCGGCTGGCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAGCTGTTTCGCCATCTGCCGT  >  minE/1598419‑1598557

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