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
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,984,563 |
C→T |
68.5% |
N101N (AAC→AAT) |
yggW → |
predicted oxidoreductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,984,563 | 0 | C | T | 68.5%
| 27.8
/ 16.0
| 38 | N101N (AAC→AAT) | yggW | predicted oxidoreductase |
| Reads supporting (aligned to +/- strand): ref base C (7/5); new base T (17/9); total (24/14) |
| Fisher's exact test for biased strand distribution p-value = 7.28e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.04e-01 |
CGCTGCTGGACGGCGTGCGTGCGCGTTTGCCGCTGGCAGCGGATGCAGAAATTACTATGGAAGCGAACCCTGGCACGGTAGAAGCCGATCGCTTTGTCGATTATCAGCGTGCTGGTGTGAACCGCATC > minE/1984496‑1984623
|
cGCTGCTGGACGGCGTGCGTGCGCGTTTGCCGCTGGCAGCGGATGCAGAAATTACTATGGAAGCGAAcc < 1:599404/69‑1 (MQ=255)
atacgtgcgCGTTTGCCGCTGGCAGCGGATGCAGAAATTACGATGGAAGCGAATCCTGGTACGGTTGa < 1:1684878/65‑1 (MQ=255)
gTTTGCCGCTGGCAGCGGATGCAGAAATTACGATGGAAGCGAAtcc > 1:2274733/1‑46 (MQ=38)
gTTTGCCGCTGGCAGCGGATGCAGAAATTACGATGGAAGCGAATCCTGGTACGGTTGAAGCCGATCGc > 1:1348131/1‑68 (MQ=255)
gTTTGCCGCTGGCAGCGGATGCAGAAATTACGATGGAAGCGAATCCTGGTACGGTTGAAGCCGATCGc > 1:982328/1‑68 (MQ=255)
gTTTGCCGCTGGCAGCGGATGCAGAAATTACGATGGAAGCGAATCCTGGTACGGTTGAAGCCGATCGCt > 1:2328701/1‑69 (MQ=255)
gTTTGCCGCTGGCAGCGGATGCAGAAATTACGATGGAAGCGAATCCTGGTACGGTTGAAGCCGATCGCt > 1:2986658/1‑69 (MQ=255)
gTTTGCCGCTGGCAGCGGATGCAGAAATTACGATGGAAGCGAATCCTGGTACGGTTGAAGCCGATCGCt > 1:3340718/1‑69 (MQ=255)
gTTTGCCGCTGGCAGCGGATGCAGAAATTACGATGGAAGCGAATCCTGGTACGGTTGAAGCCGATCGCt > 1:3348558/1‑69 (MQ=255)
gTTTGCCGCTGGCAGCGGATGCAGAAATTACGATGGAAGCGAATCCTGGTACGGTTGAAGCCGATCGCt > 1:3356916/1‑69 (MQ=255)
gTTTGCCGCTGGCAGCGGATGCAGAAATTACGATGGAAGCGAATCCTGGTACGGTTGAAGCCGATCGCt > 1:380003/1‑69 (MQ=255)
gTTTGCCGCTGGCAGCGGATGCAGAAATTACGATGGAAGCGAATCCTGGTACGGTTGAAGCCGATCGCt > 1:434735/1‑69 (MQ=255)
gTTTGCCGCTGGCAGCGGATGCAGAAATTACGATGGAAGCGAATCCTGGTACGGTTGAAGCCGATCGCt > 1:2714020/1‑69 (MQ=255)
gTTTGCCGCTGGCAGCGGATGCAGAAATTACGATGGAAGCGAATCCTGGTACGGTTGAAGCCGATCGCt > 1:2402524/1‑69 (MQ=255)
gTTTGCCGCTGGCAGCGGATGCAGAAATTACGATGGAAGCGAATCCTGGTACGGTTGAAGCCGATCGCt > 1:2363537/1‑69 (MQ=255)
gTTTGCCGCTGGCAGCGGATGCAGAAATTACGATGGAAGCGAATCCTGGTACGGTTGAAGCCGATCGCt > 1:2197560/1‑69 (MQ=255)
gTTTGCCGCTGGCAGCGGATGCAGAAATTACGATGGAAGCGAATCCTGGTACGGTTGAAGCCGATCGCt > 1:911447/1‑69 (MQ=255)
gTTTGCCGCTGGCAGCGGATGCAGAAATTACGATGGAAGCGAATCCTGGTACGGTTGAAGCCGATCGCt > 1:1433944/1‑69 (MQ=255)
gTTTGCCGCTGGCAGCGGATGCAGAAATTACGATGGAAGCGAATCCTGGTACGGTTGAAGCCGATCGCt > 1:1123495/1‑69 (MQ=255)
gTTTGCCGCTGGCAGCGGATGCAGAAATTACGATGGAAGCGAATCCTGGTACGGTTGAAGCCGATCGCt > 1:1058121/1‑69 (MQ=255)
aTTACTATGGAAGCGAACCCTGGCACGGTAGAAGCCGATCGCTTTGTCGATTATCAGCGTGCTGGtgtg > 1:2688569/1‑69 (MQ=255)
aTTACTATGGAAGCGAACCCTGGCACGGTAGAAGCCGATCGCTTTGTCGATTATCAGCGTGCTGGtgtg > 1:1792503/1‑69 (MQ=255)
aTTACGATGGAAGCGAATCCTGGTACGGTTGAAGCCGATCGCTTTGTTGATTATCAGCGTGCTGGtgtg < 1:1121181/69‑1 (MQ=255)
aTTACGATGGAAGCGAATCCTGGTACGGTTGAAGCCGATCGCTTTGTTGATTATCAGCGTGCTGGtgtg < 1:584979/69‑1 (MQ=255)
aTTACGATGGAAGCGAATCCTGGTACGGTTGAAGCCGATCGCTTTGTTGATTATCAGCGTGCTGGtgtg < 1:654522/69‑1 (MQ=255)
aTTACGATGGAAGCGAATCCTGGTACGGTTGAAGCCGATCGCTTTGTTGATTATCAGCGTGCTGGtgtg < 1:3361234/69‑1 (MQ=255)
aTTACGATGGAAGCGAATCCTGGTACGGTTGAAGCCGATCGCTTTGTTGATTATCAGCGTGCTGGtgtg < 1:2937181/69‑1 (MQ=255)
aTTACGATGGAAGCGAATCCTGGTACGGTTGAAGCCGATCGCTTTGTTGATTATCAGCGTGCTGGtgtg < 1:281897/69‑1 (MQ=255)
ttACGATGGAAGCGAATCCTGGTACGGTTGAAGCCGATCGCTTTGTTGATTATCAGCGTGCTGGtgtg < 1:1782563/68‑1 (MQ=255)
tACGATGGAAGCGAATCCTGGTACGGTTGAAGCCGATCGCTTTGTTGATTATCAGCGTGCTGGtgtg < 1:1998473/67‑1 (MQ=255)
aTGGAAGCGAACCCTGGCACGGTAGAAGCCGATCGCTTTGTCGATTATCAGCGTGCTGGTGTGAACCGc < 1:2954730/69‑1 (MQ=255)
aTGGAAGCGAACCCTGGCACGGTAGAAGCCGATCGCTTTGTCGATTATCAGCGTGCTGGTGTGAACCGc < 1:2903676/69‑1 (MQ=255)
aTGGAAGCGAACCCTGGCACGGTAGAAGCCGATCGCTTTGTCGATTATCAGCGTGCTGGTGTGAACCGc < 1:2439192/69‑1 (MQ=255)
aTGGAAGCGAACCCTGGCACGGTAGAAGCCGATCGCTTTGTCGATTATCAGCGTGCTGGTGTGAACCGc < 1:2198648/69‑1 (MQ=255)
aTGGAAGCGAACCCTGGCACGGTAGAAGCCGATCGCTTTGTCGATTATCAGCGTGCTGGTGTCAACCGc < 1:437877/69‑1 (MQ=255)
gAAGCGAACCCTGGCACGGTAGAAGCCGATCGCTTTGTCGATTATCAGCGTGCTGGTGTGAACCGCAtc > 1:2957307/1‑69 (MQ=255)
gAAGCGAACCCTGGCACGGTAGAAGCCGATCGCTTTGTCGATTATCAGCGTGCTGGTGTGAACCGCAtc > 1:3148886/1‑69 (MQ=255)
gAAGCGAACCCTGGCACGGTAGAAGCCGATCGCTTTGTCGATTATCAGCGTGCTGGTGTGAACCGCAtc > 1:2927444/1‑69 (MQ=255)
gAAGCGAACCCTGGCACGGTAGAAGCCGATCGCTTTGTCGATTATCAGCGTGCTGGTGTGAACCGCAtc > 1:2923588/1‑69 (MQ=255)
gAAGCGAACCCTGGCACGGTAGAAGCCGATCGCTTTGTCGATTATCAGCGTGCTGGTGTGAACCGCAtc > 1:1657898/1‑69 (MQ=255)
|
CGCTGCTGGACGGCGTGCGTGCGCGTTTGCCGCTGGCAGCGGATGCAGAAATTACTATGGAAGCGAACCCTGGCACGGTAGAAGCCGATCGCTTTGTCGATTATCAGCGTGCTGGTGTGAACCGCATC > minE/1984496‑1984623
|
| 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
