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 |
|
A1 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,141,409 |
C→T |
28.6% |
A79A (GCG→GCA) |
hybC ← |
hydrogenase 2, large subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,141,409 | 0 | C | T | 28.6%
| 87.9
/ 40.7
| 56 | A79A (GCG→GCA) | hybC | hydrogenase 2, large subunit |
| Reads supporting (aligned to +/- strand): ref base C (23/17); new base T (3/13); total (26/30) |
| Fisher's exact test for biased strand distribution p-value = 1.62e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.15e-01 |
GCGTGGTGTGCGCAGCCAGAATGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACATACGCCACAGATACGTTGCAC > W3110S.gb/3141342‑3141477
|
gCGTGGTGTGCGCAGCCAGAATGATGTTACGGATGTATTGCTCGTTAACCGGAACGTCGATATTCAGCGCa > 1:3066549/1‑71 (MQ=255)
gCGTGGTGTGCGCAGCCAGAATGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCa > 1:38989/1‑71 (MQ=255)
cGTGGTGTGCGCAGCCAGAATGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCa < 1:3318166/70‑1 (MQ=255)
gtggtgTGCGCAGCCAGAATGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGTGctct < 1:3944111/71‑1 (MQ=255)
gtggtgTGCGCAGCCAGAATGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGTGCACt < 1:206333/71‑1 (MQ=255)
gtggtgTGCGCAGCCAGAATGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGTGCACt < 1:1826507/71‑1 (MQ=255)
tgtgCGCAGCCAGAATGATGTTACGGATTTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCt < 1:1564323/71‑1 (MQ=255)
tgtgCGCAGCCAGAATGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCt < 1:715083/71‑1 (MQ=255)
cgcAGCCAGAATGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCg > 1:3868178/1‑71 (MQ=255)
gCCAGAATGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACg < 1:965545/71‑1 (MQ=255)
gCCAGAATGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACg < 1:1916544/71‑1 (MQ=255)
aaTGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGTGCACTTTCTGCCGCACGAACgg < 1:183271/71‑1 (MQ=255)
aaTGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACgg < 1:1913173/71‑1 (MQ=255)
aaTGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACg > 1:2526207/1‑70 (MQ=255)
aaTGATGTTACGGATGTATTGCGCGTTAACCGGAACGTAGATATTCAGCGCACTTTCTGCCGCACGAACgg < 1:131425/71‑1 (MQ=255)
tgatgTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACgg > 1:2656165/1‑69 (MQ=255)
tgatgTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACgg > 1:2598945/1‑69 (MQ=255)
tgatgTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGaa < 1:2842338/71‑1 (MQ=255)
tgatgTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGaa < 1:2659611/71‑1 (MQ=255)
gatgTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACgg > 1:910236/1‑68 (MQ=255)
gatgTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACgg > 1:1684776/1‑68 (MQ=255)
gatgTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGaa < 1:3649702/70‑1 (MQ=255)
tgTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCt < 1:1108980/53‑1 (MQ=255)
aCGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAgcg > 1:2741870/1‑71 (MQ=255)
aCGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAgc > 1:721700/1‑70 (MQ=255)
tGTATTGCGCGTTAACCGGAACGTCGATATTCAGTGCACt < 1:665202/40‑1 (MQ=255)
tATTGCGCGTTAACCGGAACGTCGATATTCAGTGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGt < 1:1568077/71‑1 (MQ=255)
tATTGCGCGTTAACCGGAACGTCGATATTCAGTGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGt < 1:3381152/71‑1 (MQ=255)
ttGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGaa > 1:2710161/1‑55 (MQ=255)
gcgcGTTAACCGGAACGTCGATATTCAGTGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTgg > 1:1151767/1‑69 (MQ=255)
gcgcGTTAACCGGAACGTCGATATTCAGTGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTgg > 1:3209269/1‑69 (MQ=255)
gcgcGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTgg > 1:159574/1‑69 (MQ=255)
cgcgTTAACCGGAACGTCGATATTCAGCGCACTTTCTGcag > 1:3105811/1‑39 (MQ=255)
cgcgTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAg > 1:3857124/1‑65 (MQ=255)
ttAACCGGAACGTCGATATTCAGTGCACTTTCTGCCGCACGAACgg < 1:2487899/46‑1 (MQ=255)
ttAACCGGAACGTCGATATTCAGTGCACTTTCTGCCGCACGAACgg < 1:1757990/46‑1 (MQ=255)
ttAACCGGAACGTCGATATTCAGTGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACa < 1:2316352/71‑1 (MQ=255)
ttAACCGGAACGTCGATATTCAGTGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACa < 1:1245332/71‑1 (MQ=255)
ttAACCGGAACGTCGATATTCAGTGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACa < 1:544668/71‑1 (MQ=255)
tAACCGGAACGTCGATATTCAGTGCACTTTCTGCCGCACGAACgg < 1:505628/45‑1 (MQ=255)
aaCCGGAACGTCGATATTCAGTGCACTTTCTGCCGCACGAACGGaa > 1:2189148/1‑46 (MQ=255)
aaCCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGgta > 1:690787/1‑64 (MQ=255)
aaCCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGgta > 1:70025/1‑64 (MQ=255)
gTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACATACGCCACAGa < 1:240579/71‑1 (MQ=255)
ctCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACATACGCCACAGa < 1:738940/70‑1 (MQ=255)
gATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACATACGCCACAGATAc > 1:494058/1‑71 (MQ=255)
gATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACATACGCCACAGATAc < 1:3840185/71‑1 (MQ=255)
gATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACATACGCCACAGATAc > 1:817801/1‑71 (MQ=255)
atatTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACATACGCCACAGATAc < 1:3419331/70‑1 (MQ=255)
tatTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACATACGCCACAGa < 1:756591/66‑1 (MQ=255)
atTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACATACGCCACAGATACGtt > 1:4966/1‑71 (MQ=255)
atTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACATACGCCACAGATACGtt > 1:1979164/1‑71 (MQ=255)
atTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACATACGCCACAGATACGtt > 1:2565729/1‑71 (MQ=255)
cAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACATACGCCACAGATACGt > 1:3199180/1‑67 (MQ=255)
cAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACATACGCCACAGATACGTTGca > 1:815239/1‑71 (MQ=255)
aGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACATACGCCACAGATACGTTGcac < 1:1476752/71‑1 (MQ=255)
|
GCGTGGTGTGCGCAGCCAGAATGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACATACGCCACAGATACGTTGCAC > W3110S.gb/3141342‑3141477
|
| 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
