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 |
3,958,682 |
C→T |
40.4% |
A69V (GCC→GTC) |
yhjJ → |
predicted zinc‑dependent peptidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,958,682 | 0 | C | T | 40.4%
| 30.6
/ 52.7
| 47 | A69V (GCC→GTC) | yhjJ | predicted zinc‑dependent peptidase |
| Reads supporting (aligned to +/- strand): ref base C (13/15); new base T (6/13); total (19/28) |
| Fisher's exact test for biased strand distribution p-value = 3.74e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.32e-01 |
GCTGACCACCCCCCAGCGTCCCAGCGATCGTGTTGAAATTCGCCTGCTGGTTAATACCGGTTCGCTCGCCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATCCCTCGTATTGCGCTAACGCAAAGCGGT > W3110S.gb/3958614‑3958746
|
gCTGACCACCCCCCAGCGTCCCAGCGATCGTGTTGAAATTCGCCTGCTGGTTAATACCGGTTCGCTCGcc > 1:2608983/1‑70 (MQ=255)
accaccCCCCAGCGTCCCAGCGATCGTGTTGAAATTCGCCTGCTGGTTAATACCGGTTCGCTCGCCGAAAg < 1:3634018/71‑1 (MQ=255)
accaccCCCCAGCGTCCCAGCGATCGTGTTGAAATTCGCCTGCTGGTTAATACCGGTTCGCTCGCCGAAAg < 1:2452967/71‑1 (MQ=255)
aGCGTCCCAGCGATCGTGTTGAAATTCGCCTGCTGGTTAATACCGGTTCGCTCGCCGAAAGTACacaa > 1:399079/1‑68 (MQ=255)
aGCGTCCCAGCGATCGTGTTGAAATTCGCCTGCTGGTTAATACCGGTTCGCTCGCCGAAAGTACacaa > 1:1971516/1‑68 (MQ=255)
aGCGTCCCAGCGATCGTGTTGAAATTCGCCTGCTGGTTAATACCGGTTCGCTCGCCGAAAGTACacaa > 1:1911248/1‑68 (MQ=255)
ccAGCGATCGTGTTGAAATTCGCCTGCTGGTTAATACCGGTTCGCTCGCCGAAAGTACACAACAGAGCGGt < 1:3783772/71‑1 (MQ=255)
ccAGCGATCGTGTTGAAATTCGCCTGCTGGTTAATACCGGTTCGCTCGCCGAAAGTACACAACAGAGCGGt > 1:1838782/1‑71 (MQ=255)
gCGATCGTGTTGAAATTCGCCTGCTGGTTAATACCGGTTCGCTCGCCGAAAGTACACAACAGAGCGGt < 1:673089/68‑1 (MQ=255)
gCGATCGTGTTGAAATTCGCCTGCTGGTTAATACCGGTTCGCTCGCCGAAAGTACACAACAGAGCGGt < 1:1380996/68‑1 (MQ=255)
gATCGTGTTGAAATTCGCCTGCTGGTTAATACCGGTTCGCTCGTCGAAAGTACACAACAGAGCGGTTa > 1:1129123/1‑68 (MQ=255)
gATCGTGTTGAAATTCGCCTGCTGGTTAATACCGGTTCGCTCGTCGAAAGTACACAACAGAGCGGTTa > 1:2680065/1‑68 (MQ=255)
gATCGTGTTGAAATTCGCCTGCTGGTTAATACCGGTTCGCTCGTCGAAAGTACACAACAGAGCGGTTa > 1:1792594/1‑68 (MQ=255)
aTCGTGTTGAAATTCGCCTGCTGGTTAATACCGGTTCGCTCGCCGa < 1:2858129/46‑1 (MQ=255)
aTCGTGTTGAAATTCGCCTGCTGGTTAATACCGGTTCGCTCGCCGa < 1:1124078/46‑1 (MQ=255)
aTCGTGTTGAAATTCGCCTGCTGGTTAATACCGGGTCGCTCGCCGa < 1:252545/46‑1 (MQ=255)
cGTGTTGAAATTCGCCTGCTGGTTAATACCGGTTCGCTCGCCGAAAGTACACAACAGAGCGGTTACAGTCa > 1:1231340/1‑71 (MQ=255)
ttGAAATTCGCCTGCTGGTTAATACCGGTTCGCTCGCCGAAAGTACACAACAGAGCGGTTACAGTCACGcc < 1:1196195/71‑1 (MQ=255)
ttGAAATTCGCCTGCTGGTTAATACCGGTTCGCTCGCCGAAAGTACACAACAGAGCGGTTACAGTCACGc < 1:1310017/70‑1 (MQ=255)
gAAATTCGCCTGCTGGTTAATACCGGTTCGCTCGTCGAAAGTACACAACAGAGCGGTTACAGTCACGCCa > 1:1780318/1‑70 (MQ=255)
gAAATTCGCCTGCTGGTTAATACCGGTTCGCTCGCCGAAAGTACACAACAGAGCGGTTACAGTCACGGCAt > 1:2144132/1‑71 (MQ=255)
aaaTTCGCCTGCTGGTTAATACCGGTTCGCTCGTCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATc < 1:1260308/71‑1 (MQ=255)
aaaTTCGCCTGCTGGTTAATACCGGTTCGCTCGTCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATc < 1:865201/71‑1 (MQ=255)
aTTCGCCTGCTGGTTAATACCGGTTCGCTCGCCGAAAGTACACAACAGAGCGGTTa < 1:1975017/56‑1 (MQ=255)
ttCGCCTGCTGGTTAATACCGGTTCGCTCGCCGAAAGTACacaaca < 1:3528814/46‑1 (MQ=255)
tCGCCTGCTGGTTAATACCGGTTCGCTCGCCGAAAGTACACAACAGAGCGGTTACa > 1:1641349/1‑56 (MQ=255)
cGCCTGCTGGTTAATACCGGTTCGCTCGTCGAAAGTACACAACAGAGCGGTTACAGTCa > 1:803630/1‑59 (MQ=255)
cGCCTGCTGGTTAATACCGGTTCGCTCGCCGAAAGTACacaa > 1:200804/1‑42 (MQ=255)
cGCCTGCTGGTTAATACCGGTTCGCTCGCCGAAAGTACacaa > 1:165539/1‑42 (MQ=255)
gCCTGCTGGTTAATACCGGTTCGCTCGTCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATCCCTCg < 1:2806255/70‑1 (MQ=255)
gCCTGCTGGTTAATACCGGTTCGCTCGTCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATCCCTCg < 1:2343646/70‑1 (MQ=255)
gCCTGCTGGTTAATACCGGTTCGCTCGCCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATCCCTCGt < 1:2987853/71‑1 (MQ=255)
gTTAATACCGGTTCCCTCGTCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATCCCTCGTATTGCGCt < 1:1951688/71‑1 (MQ=255)
tACCGGTTCGCTCGTCGAAAGTACACAACAGAGCGGTTa < 1:1881939/39‑1 (MQ=255)
tACCGGTTCGCTCGTCGAAAGTACACAACAGAGCGGTTa < 1:2930978/39‑1 (MQ=255)
tACCGGTTCGCTCGTCGAAAGTACACAACAGAGCGGTTa < 1:593876/39‑1 (MQ=255)
tACCGGTTCGCTCGTCGAAAGTACACAACAGAGCGGTTa < 1:2388586/39‑1 (MQ=255)
tACCGGTTCGCTCGTCGAAAGTACACAACAGAGCGGTTa < 1:589058/39‑1 (MQ=255)
tACCGGTTCGCTCGTCGAAAGTACACAACAGAGCGGTTa < 1:497001/39‑1 (MQ=255)
tACCGGTTCGCTCGCCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATCCCTCGTATTgc < 1:567902/63‑1 (MQ=255)
tACCGGTTCGCTCGCCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATCCCTCGTATTgc < 1:954464/63‑1 (MQ=255)
ccGGTTCGCTCGTCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATCCCTCGTATTGCGCTaa > 1:17275/1‑66 (MQ=255)
ccGGTTCGCTCGCCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATCCCTCGTa > 1:3950941/1‑57 (MQ=255)
ccGGTTCGCTCGCCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATCCCTCGTATTgcgc > 1:2076866/1‑63 (MQ=255)
ccGGTTCGCTCGCCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATCCCTCGTATTGCGCTAACGCa > 1:1592884/1‑70 (MQ=255)
ccGGTTCGCTCGCCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATCCCTCGTATTGCGCTAACGCa > 1:1726585/1‑70 (MQ=255)
gTTCGCTCGTCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATCCCTCGTATTGCGCTAACGCAAAGc < 1:3729945/71‑1 (MQ=255)
gTTCGCTCGTCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATCCCTCGTATTGCGCTAACGCAAAGc < 1:660324/71‑1 (MQ=255)
cgctcgcCGAAAGTACACAACAGAGCGGTTACAGTCACGCCa > 1:3658607/1‑42 (MQ=255)
cgctcgcCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATCCCTCGTATTGCGCTAACGCAAAGCGGt > 1:3118707/1‑71 (MQ=255)
ctcgcCGAAAGTACACAACAGAGCGGTTACAGTCACGcc < 1:547531/39‑1 (MQ=255)
|
GCTGACCACCCCCCAGCGTCCCAGCGATCGTGTTGAAATTCGCCTGCTGGTTAATACCGGTTCGCTCGCCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATCCCTCGTATTGCGCTAACGCAAAGCGGT > W3110S.gb/3958614‑3958746
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
