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 2,337,772 G→T 29.8% G209G (GGG→GGT)  fdhE → formate dehydrogenase formation protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,337,7720GT29.8% 118.0 / 40.3 83G209G (GGG→GGT) fdhEformate dehydrogenase formation protein
Reads supporting (aligned to +/- strand):  ref base G (30/28);  new base T (8/17);  total (38/45)
Fisher's exact test for biased strand distribution p-value = 1.49e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CAATATTGCCCGGTTTGTGGTTCTATGCCGGTGTCCAGCATGGTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCACGTAGTGCGCGTAAAATGCAGC  >  minE/2337707‑2337835
                                                                 |                                                               
cAATATTGCCCGGTTTGTGGTTCTATGCCGGTGTCCAGCATGGTGCAAATTGGCACCACTCAGGGGCTa                                                              <  1:138693/69‑1 (MQ=255)
cAATATTGCCCGGTATGTGGCTCTATGCCGGTGTCCAGCATGGTGCAAATTGGCACCACTCAGGGTCtg                                                              >  1:100675/1‑68 (MQ=255)
cAATATTGCCCGGTATGTGGCTCTATGCCGGTGTCCAGCATGGTGCAAATTGGCACCACTCAGGGTCtg                                                              >  1:3422184/1‑68 (MQ=255)
cAATATTGCCCGGTATGTGGCTCTATGCCGGTGTCCAGCATGGTGCAAATTGGCACCACTCAGGGTCtg                                                              >  1:2340799/1‑68 (MQ=255)
cAATATTGCCCGGTATGTGGCTCTATGCCGGTGTCCAGCATGGTGCAAATTGGCACCACTCAGGGTCtg                                                              >  1:43993/1‑68 (MQ=255)
cAATATTGCCCGGTATGTGGCTCTATGCCGGTGTCCAGCATGGTGCAAATTGGCACCACTCAGGGTCtg                                                              >  1:502787/1‑68 (MQ=255)
cAATATTGCCCGGTATGTGGCTCTATGCCGGTGTCCAGCATGGTGCAAATTGGCACCACTCAGGGTCtg                                                              >  1:839194/1‑68 (MQ=255)
cAATATTGCCCGGTATGTGGCTCTATGCCGGTGTCCAGCATGGTGCAAATTGGCACCACTCAGGGTCtg                                                              >  1:127936/1‑68 (MQ=255)
 aaTATTGCCCGGTTTGTGGTTCTATGCCGGTGTCCAGCATGGTGCAAATTGGCACCACTCAGGGGCTAc                                                             >  1:1816969/1‑69 (MQ=255)
 aaTATTGCCCGGTTTGTGGTTCTATGCCGGTGTCCAGCATGGTGCAAATTGGCACCACTCAGGGGCTAc                                                             >  1:3355910/1‑69 (MQ=255)
 aaTATTGCCCGGTTTGTGGTTCTATGCCGGTGTCCAGCATGGTGCAAATTGGCACCACTCAGGGGCTAc                                                             >  1:38208/1‑69 (MQ=255)
 aaTATTGCCCGGTTTGTGGTTCTATGCCGGTGTCCAGCATGGTGCAAATTGGCACCACTCAGGGGCTAc                                                             >  1:914929/1‑69 (MQ=255)
 aaTATTGCCCGGTATGTGGCTCTATGCCGGTGTCCAGCATGGTGCAAATTGGCACCACTCAGGGTCtgc                                                             >  1:714726/1‑67 (MQ=255)
     ttGCCCGGTTTGTGGTTCTATGCCGGTGTCCAGCATGGTGCAAATTGGCACCACTCAGGGGCTACGTTa                                                         >  1:2662763/1‑69 (MQ=255)
     ttGCCCGGTTTGTGGTTCTATGCCGGTGTCCAGCATGGTGCAAATTGGCACCACTCAGGGGCTACGTTa                                                         >  1:2022005/1‑69 (MQ=255)
     ttGCCCGGTTTGTGGTTCTATGCCGGTGTCCAGCATGGTGCAAATTGGCACCACTCAGGGGCTACGTTa                                                         >  1:3023097/1‑69 (MQ=255)
     ttGCCCGGTTTGTGGTTCTATGCCGGTGTCCAGCATGGTGCAAATTGGCACCACTCAGGGGCTACGTTa                                                         >  1:71914/1‑69 (MQ=255)
          cGGTTTGTGGTTCTATGCCGGTGTCCAGCATGGTGCAAATTGGCACCACTCAGGGGCTACGTTACctg                                                     <  1:1752801/68‑1 (MQ=255)
          cGGTTTGTGGTTCTATGCCGGTGTCCAGCATGGTGCAAATTGGCACCACTCAGGGGCTACGTTACctg                                                     <  1:2965231/68‑1 (MQ=255)
                               tgtCCAGCATGGTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTg                               <  1:3087181/69‑1 (MQ=255)
                               tgtCCAGCATGGTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTg                               <  1:901763/69‑1 (MQ=255)
                                gtCCAGCATGGTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGa                              <  1:77430/69‑1 (MQ=255)
                                gtCCAGCATGGTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGa                              <  1:1937637/69‑1 (MQ=255)
                                gtCCAGCATGGTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGa                              <  1:3396218/69‑1 (MQ=255)
                                gtCCAGCATGGTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGa                              <  1:837194/69‑1 (MQ=255)
                                gtCCAGCATGGTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGa                              <  1:1128819/69‑1 (MQ=255)
                                gtCCAGCATGGTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGa                              <  1:1346249/69‑1 (MQ=255)
                                 tCCAGCATGGTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGaa                             >  1:3118303/1‑69 (MQ=255)
                                 tCCAGCATGGTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGaa                             >  1:3096336/1‑69 (MQ=255)
                                 tCCAGCATGGTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGaa                             >  1:2659923/1‑69 (MQ=255)
                                 tCCAGCATGGTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGaa                             >  1:2815347/1‑69 (MQ=255)
                                 tCCAGCATGGTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGaa                             >  1:2844858/1‑69 (MQ=255)
                                 tCCAGCATGGTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGaa                             >  1:3183878/1‑69 (MQ=255)
                                 tCCAGCATGGTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGaa                             >  1:300481/1‑69 (MQ=255)
                                 tCCAGCATGGTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGaa                             >  1:2309190/1‑69 (MQ=255)
                                 tCCAGCATGGTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGaa                             >  1:1378484/1‑69 (MQ=255)
                                 tCCAGCATGGTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGaa                             >  1:1564681/1‑69 (MQ=255)
                                 tCCAGCATGGTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGaa                             >  1:1745837/1‑69 (MQ=255)
                                 tCCAGCATGGTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGaa                             >  1:831655/1‑69 (MQ=255)
                                 tCCAGCATGGTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGaa                             >  1:718474/1‑69 (MQ=255)
                                 tCCAGCATGGTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGaa                             >  1:2526032/1‑69 (MQ=255)
                                   cAGCATGGTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGa                              <  1:1483065/66‑1 (MQ=255)
                                        tGGTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCa                        >  1:2800613/1‑67 (MQ=255)
                                        tGGTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCa                        >  1:747610/1‑67 (MQ=255)
                                        tGGTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCa                        >  1:2816259/1‑67 (MQ=255)
                                        tGGTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCa                        >  1:2133982/1‑67 (MQ=255)
                                        tGGTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCa                        >  1:1551458/1‑67 (MQ=255)
                                         ggTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCACGt                     <  1:3380340/69‑1 (MQ=255)
                                         ggTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCACGt                     <  1:3334246/69‑1 (MQ=255)
                                         ggTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCACGt                     <  1:589766/69‑1 (MQ=255)
                                         ggTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCACGt                     <  1:985358/69‑1 (MQ=255)
                                         ggTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCACGt                     <  1:989629/69‑1 (MQ=255)
                                         ggTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCACGt                     <  1:1058702/69‑1 (MQ=255)
                                         ggTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCACGt                     <  1:1387295/69‑1 (MQ=255)
                                          gTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGa                                    <  1:2346550/53‑1 (MQ=255)
                                          gTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGa                                    <  1:75362/53‑1 (MQ=255)
                                          gTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGa                                    <  1:2013130/53‑1 (MQ=255)
                                          gTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGa                                    <  1:558947/53‑1 (MQ=255)
                                           tGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCtgtgtca                                    <  1:1698488/52‑3 (MQ=255)
                                               aaTTGGCACCACTCAGGGTCTGCGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCACGTAGTgc                <  1:2944584/68‑1 (MQ=255)
                                               aaTTGGCACCACTCAGGGTCTGCGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCACGTAGTgc                <  1:1670749/68‑1 (MQ=255)
                                               aaTTGGCACCACTCAGGGTCTGCGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCACGTAGTgc                <  1:1814714/68‑1 (MQ=255)
                                               aaTTGGCACCACTCAGGGTCTGCGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCACGTAGTgc                <  1:1829512/68‑1 (MQ=255)
                                               aaTTGGCACCACTCAGGGTCTGCGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCACGTAGTgc                <  1:1868677/68‑1 (MQ=255)
                                               aaTTGGCACCACTCAGGGTCTGCGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCACGTAGTgc                <  1:1984703/68‑1 (MQ=255)
                                               aaTTGGCACCACTCAGGGTCTGCGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCACGTAGTgc                <  1:2092727/68‑1 (MQ=255)
                                               aaTTGGCACCACTCAGGGTCTGCGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCACGTAGTgc                <  1:2620147/68‑1 (MQ=255)
                                               aaTTGGCACCACTCAGGGTCTGCGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCACGTAGTgc                <  1:3171380/68‑1 (MQ=255)
                                               aaTTGGCACCACTCAGGGTCTGCGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCACGTAGTgc                <  1:2878978/68‑1 (MQ=255)
                                               aaTTGGCACCACTCAGGGTCTGCGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCACGTAGTgc                <  1:2698828/68‑1 (MQ=255)
                                               aaTTGGCACCACTCAGGGTCTGCGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCACGTAGTgc                <  1:3367416/68‑1 (MQ=255)
                                               aaTTGGCACCACTCAGGGTCTGCGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCACGTAGTgc                <  1:2698316/68‑1 (MQ=255)
                                               aaTTGGCACCACTCAGGGTCTGCGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCACGTAGTgc                <  1:56520/68‑1 (MQ=255)
                                               aaTTGGCACCACTCAGGGTCTGCGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCACGTAGTgc                <  1:2250502/68‑1 (MQ=255)
                                               aaTTGGCACCACTCAGGGTCTGCGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCACGTAGTgc                <  1:405874/68‑1 (MQ=255)
                                               aaTTGGCACCACTCAGGGTCTGCGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCACGTAGTgc                <  1:2152175/68‑1 (MQ=255)
                                                   ggaaccacTCAGGGGCTACGTTACCTGGACTGCAACCTGTGTGAAACTGAATGGCACGTAGTGcgcg             >  1:424898/4‑67 (MQ=255)
                                                   ggCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCACGTAGTGCGCGt            >  1:2147692/1‑68 (MQ=255)
                                                   ggCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCACGTAGTGCGCGt            >  1:117294/1‑68 (MQ=255)
                                                            cAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCACGTAGTGCGCGTAAAATgcagc  <  1:751799/69‑1 (MQ=255)
                                                            cAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCACGTAGTGCGCGTAAAATgcagc  <  1:805578/69‑1 (MQ=255)
                                                            cAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCACGTAGTGCGCGTAAAATgcagc  <  1:1776293/69‑1 (MQ=255)
                                                            cAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCACGTAGTGCGCGTAAAATgcagc  <  1:212485/69‑1 (MQ=255)
                                                                 |                                                               
CAATATTGCCCGGTTTGTGGTTCTATGCCGGTGTCCAGCATGGTGCAAATTGGCACCACTCAGGGGCTACGTTACCTGCACTGCAACCTGTGTGAAACTGAATGGCACGTAGTGCGCGTAAAATGCAGC  >  minE/2337707‑2337835

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