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 F21 I0 R1
|
476 |
35.3 |
2812105 |
96.7% |
2719305 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,958,682 |
C→T |
12.2% |
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 | 12.2%
| 115.7
/ 6.1
| 41 | A69V (GCC→GTC) | yhjJ | predicted zinc‑dependent peptidase |
| Reads supporting (aligned to +/- strand): ref base C (17/19); new base T (2/3); total (19/22) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CTGACCACCCCCCAGCGTCCCAGCGATCGTGTTGAAATTCGCCTGCTGGTT‑AATACCGGTTCGCTCGCCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATCCCTCGTATTGCGCTAACGCAAAGCGGTGGCC > W3110S.gb/3958615‑3958750
|
cTGACCACCCCCCAGCGTCCCAGCGATCGTGTTGAAATTCGCCTGCTGGTT‑AATACCGGTTCGCTCGCCGa < 1:2140372/71‑1 (MQ=255)
tGACCACCCCCCAGCGTCCCAGCGATCGTGTTGAAATTCGCCTGCTGGTT‑AATACCGGTTCGCTCGCCGa < 1:2405611/70‑1 (MQ=255)
accaccCCCCAGCGTCCCAGCGATCGTGTTGAAATTCGCCTGCTGGTT‑AATACCGGTTCGCTCGCCGaa < 1:2236632/69‑1 (MQ=255)
cccccAGCGTCCCAGCGATCGTGTTGAAATTCGCCTGCTGGTT‑AATACCGGTTCGCTCGCCGAAAGTacac < 1:1263939/71‑1 (MQ=255)
gCGTCCCAGCGATCGTGTTGAAATTCGCCTGCTGGTT‑AATACCGGTTCGCTCGCCGAAAGTACacaaca > 1:2192850/1‑69 (MQ=255)
gCGTCCCAGCGATCGTGTTGAAATTCGCCTGCTGGTT‑AATACCGGTTCGCTCGCCGAAAGTACacaaca > 1:2263816/1‑69 (MQ=255)
gTCCCAGCGATCGTGTTGAAATTCGCCTGCTGGTT‑AATACCGGTTCGCTCGCCGAAAGTACACAACAGAGc > 1:1635701/1‑71 (MQ=255)
gTCCCAGCGATCGTGTTGAAATTCGCCTGCTGGTT‑AATACCGGTTCGCTCGCCGAAAGTACACAACAGAGc > 1:140725/1‑71 (MQ=255)
tCCCAGCGATCGTGTTGAAATTCGCCTGCTGGTT‑AATACCGGTTCGCTCGCCGAAAGTACACAACAGAGCg < 1:1470319/71‑1 (MQ=255)
tCCCAGCGATCGTGTTGAAATTCGCCTGCTGGTT‑AATACCGGTTCGCTCGCCGAAAGTACACAACAGAGCg < 1:386049/71‑1 (MQ=255)
cGATCGTGTTGAAATTCGCCTGCTGGTT‑AATACCGGTTCGCTCGCCGAAAGTACACAACAGAGCGGTTa > 1:2388364/1‑69 (MQ=255)
cGTGTTGAAATTCGCCTGCTGGTT‑AATACCGGTTCGCTCGTCGAAAGTACACAACAGAGCGGTTACAGTCa > 1:2126181/1‑71 (MQ=255)
tgtTGAAATTCGCCTGCTGGTT‑AATACCGGTTCGCTCGCCGAAAGTACACAACAGAGCGGTTACAGTCACg < 1:1611095/71‑1 (MQ=255)
ttGAAATTCGCCTGCTGGTT‑AATACCGGTTCGCTCGCCGa < 1:1157347/40‑1 (MQ=255)
ttGAAATTCGCCTGCTGGTT‑AATACCGGTTCGCTCGCCGAAAGTACACAACAGAGCGGTTACAGTCACGc < 1:1392364/70‑1 (MQ=255)
ttGAAATTCGCCTGCTCGTT‑AATACCGGTTCGCTCGCCGAAAGTACACAACAGAGCGGTTACAGTCACGc < 1:1348158/70‑1 (MQ=255)
gAAATTCGCCTGCTGGTT‑AATACCGGTTCGCTCGCCGAAAGTACACAACAGAGCGGTTACAGTCACGCCAt > 1:2485462/1‑71 (MQ=255)
gAAATTCGCCTGCTGGTT‑AATACCGGTTCGCTCGCCGAAAGTACACAACAGAGCGGTTACAGTCACGCCAt > 1:200406/1‑71 (MQ=255)
aaaTTCGCCTGCTGGTT‑AATACCGGTTCGCTCGCCGAAAGTACACAACAGAGCGGTTACAg > 1:1661711/1‑61 (MQ=255)
aaaTTCGCCTGCTGGTT‑AATACCGGTTCGCTCGCCGAAAGTACACAACAGAGCGGTTACAg > 1:1658513/1‑61 (MQ=255)
cGCCTGCTGGTT‑AATACCGGTTCGCTCGCCGAAAGTACACAACAGAGCGGTTACa > 1:1904859/1‑55 (MQ=255)
ccTGCTGGTTAAATACCGGTTCGCTCGCCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATCCCTCg < 1:988793/70‑1 (MQ=255)
ccTGCTGGTT‑AATACCGGTTCGCTCGCCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATCCCTCg < 1:2209205/69‑1 (MQ=255)
ccTGCTGGTT‑AATACCGGTTCGCTCGCCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATCCCTCg < 1:1894278/69‑1 (MQ=255)
ccTGCTGGTT‑AATACCGGTTCGCTCGCCGAAAGTACACAACAGAGCCGTAACAGTCACGCCATCCCTCGTa > 1:1721120/1‑71 (MQ=255)
ggTT‑AATACCGGTTCGCTCGCCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATCCCTCGTATTgcg > 1:465394/1‑70 (MQ=255)
gTT‑AATACCGGTTCGCTCGTCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATc < 1:2241334/57‑1 (MQ=255)
gTT‑AATACCGGTTCGCTCGTCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATc < 1:2761439/57‑1 (MQ=255)
tt‑AATACCGGTTCCCTCGCCGAAAGTACACAACaga < 1:1220298/36‑1 (MQ=255)
aaTACCGGTTCGCTCGCCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATCCCTCGTATTGCGCTAAc > 1:941834/1‑71 (MQ=255)
aTACCGGTTCGCTCGTCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATCCCTCGTATTGCGCTAACg > 1:294849/1‑71 (MQ=255)
tACCGGTTCGCTCGCCGAAAGTACACAACAGAGCGGtt < 1:2224328/38‑1 (MQ=255)
tACCGGTTCGCTCGCCGAAAGTACACAACAGAGCGGtt < 1:2227399/38‑1 (MQ=255)
tACCGGTTCGCTCGCCGAAAGTACACAACAGAGCGGTTACAGTCACGc < 1:887385/48‑1 (MQ=255)
aCCGGTTCGCTCGCCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATCCCTCGTATTGCGCTAACg > 1:557493/1‑69 (MQ=255)
ccGGTTCGCTCGCCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATCCCTCGTAt > 1:2505073/1‑58 (MQ=255)
ccGGTTCGCTCGCCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATCCCTCGTAt > 1:2305572/1‑58 (MQ=255)
ggTTCGCTCGCCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATCCCTCGTATCGCGCTAAc > 1:566787/1‑65 (MQ=255)
gTTCGCTCGTCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATc < 1:2587256/47‑1 (MQ=255)
ttCGCTCGCCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATCCCTCGTATTGCGCTAACGCAAAGc < 1:2721912/70‑1 (MQ=255)
ttCGCTCGCCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATCCCTCGTATTGCGCTAACGCAAAGc < 1:1246665/70‑1 (MQ=255)
tcgctcgcCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATCCCTCGTa > 1:1713211/1‑52 (MQ=255)
tcgctcgcCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATCCCTCGTa > 1:176130/1‑52 (MQ=255)
cgctcgtCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATcc > 1:1926570/1‑45 (MQ=255)
cgctcgcCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATCCCTCGTAtt > 1:1712396/1‑53 (MQ=255)
ctcgtCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATCCCTCGTATTGCGCTAACGCAAAGCGGTgg < 1:678802/71‑1 (MQ=255)
cgcCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATCCCTCGTATTGCGCTAACGCAAAGCGGTGGcc > 1:2400685/1‑71 (MQ=255)
|
CTGACCACCCCCCAGCGTCCCAGCGATCGTGTTGAAATTCGCCTGCTGGTT‑AATACCGGTTCGCTCGCCGAAAGTACACAACAGAGCGGTTACAGTCACGCCATCCCTCGTATTGCGCTAACGCAAAGCGGTGGCC > W3110S.gb/3958615‑3958750
|
| 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
