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 |
1,606,933 |
C→A |
31.0% |
V217V (GTC→GTA) |
hemF → |
coproporphyrinogen III oxidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,606,933 | 0 | C | A | 31.0%
| 117.6
/ 53.0
| 90 | V217V (GTC→GTA) | hemF | coproporphyrinogen III oxidase |
| Reads supporting (aligned to +/- strand): ref base C (31/31); new base A (17/11); total (48/42) |
| Fisher's exact test for biased strand distribution p-value = 3.71e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TTGCCTTTATGCAGGCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTCCAGTTATATCGTCGCGGTCGT > minE/1606878‑1606999
|
ttGCCTTTATGCAGGCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAg < 1:2283270/69‑1 (MQ=255)
ttGCCTTTATGCAGGCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAg < 1:66009/69‑1 (MQ=255)
gCCTTTATGCAGGCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGc < 1:351703/68‑1 (MQ=255)
gCCTTTATGCAGGCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGc < 1:543176/68‑1 (MQ=255)
gCCTTTATGCAGGCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGc < 1:957913/68‑1 (MQ=255)
gCCTTTATGCAGGCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGc < 1:633288/68‑1 (MQ=255)
gCCTTTATGCAGGCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGc < 1:81126/68‑1 (MQ=255)
gCCTTTATGCAGGCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGc < 1:1994661/68‑1 (MQ=255)
gCCTTTATGCAGGCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGc < 1:757944/68‑1 (MQ=255)
ccTTTATGCAGGCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTAGAGCGACGAAAAGCg < 1:1030197/68‑1 (MQ=255)
ccTTTATGCAGGCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTAGAGCGACGAAAAGCg < 1:290982/68‑1 (MQ=255)
ccTTTATGCAGGCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTAGAGCGACGAAAAGCg < 1:3222704/68‑1 (MQ=255)
ccTTTATGCAGGCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTAGAGCGACGAAAAGCg < 1:2820939/68‑1 (MQ=255)
ccTTTATGCAGGCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTAGAGCGACGAAAAGCg < 1:2816897/68‑1 (MQ=255)
ccTTTATGCAGGCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTAGAGCGACGAAAAGCg < 1:608437/68‑1 (MQ=255)
ccTTTATGCAGGCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTAGAGCGACGAAAAGCg < 1:707578/68‑1 (MQ=255)
ccTTTATGCAGGCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTAGAGCGACGAAAAGCg < 1:1858331/68‑1 (MQ=255)
ccTTTATGCAGGCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTAGAGCGACGAAAAGCg < 1:1284505/68‑1 (MQ=255)
ccTTTATGCAGGCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTAGAGCGACGAAAAGCg < 1:890757/68‑1 (MQ=255)
ccTTTATGCAGGCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTAGAGCGAAGAAAAGCg < 1:3341400/68‑1 (MQ=255)
tGCAGGCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGCGATGGcc < 1:3170365/68‑1 (MQ=255)
tGCAGGCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGCGATGGcc < 1:3377101/68‑1 (MQ=255)
tGCAGGCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGCGATGGcc < 1:2707726/68‑1 (MQ=255)
tGCAGGCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGCGATGGcc < 1:135271/68‑1 (MQ=255)
tGCAGGCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGCGATGGcc < 1:3104179/68‑1 (MQ=255)
tGCAGGCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGCGATGGcc < 1:1691117/68‑1 (MQ=255)
ggCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGCGATGGCCTACg > 1:2246983/1‑68 (MQ=255)
ggCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGCGATGGCCTACg > 1:2173394/1‑68 (MQ=255)
ggCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGCGATGGCCTACg > 1:1512528/1‑68 (MQ=255)
ggCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGCGATGGCCTACg > 1:1615759/1‑68 (MQ=255)
ggCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGCGATGGCCTACg > 1:2772788/1‑68 (MQ=255)
ggCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGCGATGGCCTACg > 1:2439202/1‑68 (MQ=255)
ggCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGCGATGGCCTACg > 1:384107/1‑68 (MQ=255)
ggCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGCGATGGCCTACg > 1:2766688/1‑68 (MQ=255)
ggCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGCGATGGCCTACg > 1:2938385/1‑68 (MQ=255)
aGGCAAAGGCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGCGATGGcc < 1:2104927/58‑1 (MQ=255)
aGGCAAAGGCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGCGATGGCCTACGgcgagc > 1:3399082/1‑68 (MQ=255)
ggCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGCGAt > 1:731846/1‑47 (MQ=255)
ggCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGCGATGGCCTACGGCgagcgcgagcgc > 1:3314931/1‑69 (MQ=255)
ggCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGCGATGGCCTACGGCgagcgcgagcgc > 1:2048872/1‑69 (MQ=255)
ggCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGCGATGGCCTACGGCgagcgcgagcgc > 1:2898975/1‑69 (MQ=255)
ggCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGCGATGGCCTACGGCgagcgcgagcgc > 1:2835993/1‑69 (MQ=255)
ggCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGCGATGGCCTACGGCgagcgcgagcgc > 1:3392070/1‑69 (MQ=255)
ggCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGCGATGGCCTACGGCgagcgcgagcgc > 1:1304658/1‑69 (MQ=255)
ggCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGCGATGGCCTACGGCgagcgcgagcgc > 1:2816007/1‑69 (MQ=255)
ggCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGCGATGGCCTACGGCgagcgcgagcgc > 1:2471499/1‑69 (MQ=255)
ggCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGCGATGGCCTACGGCgagcgcgagcgc > 1:2550784/1‑69 (MQ=255)
ggCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGCGATGGCCTACGGCgagcgcgagcgc > 1:2575324/1‑69 (MQ=255)
gCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGc < 1:2763496/43‑1 (MQ=255)
ccGACGCTTATTTACCAATTGTCGAGCGACGGAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTcc < 1:928440/69‑1 (MQ=255)
ccGACGCTTATTTACCAATTGTCGAGCGACGGAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTcc < 1:1157445/69‑1 (MQ=255)
tATTTACCAATTGTCGAGCGACGGAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTCCAGTTatat > 1:1668813/1‑69 (MQ=255)
tACCAATTGTCGAGCGACGGAAAGGGATGGCCTACGGCGAGCGCGAGCGCAATTTCCAGTtat > 1:138293/1‑63 (MQ=255)
tACCAATTGTCGAGCGACGGAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTCCAGTtat > 1:1076341/1‑63 (MQ=255)
tACCAATTGTCGAGCGACGGAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTCCAGTtat > 1:1980072/1‑63 (MQ=255)
tACCAATTGTCGAGCGACGGAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTCCAGTtat > 1:2452398/1‑63 (MQ=255)
tACCAATTGTCGAGCGACGGAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTCCAGTtat > 1:2638562/1‑63 (MQ=255)
cAATTGTAGAGCGATGAAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTTCAGCTCTACCGTcgcg > 1:2667783/1‑69 (MQ=255)
cAATTGTAGAGCGACGAAAAGCGATGGCCTACGGCGAGCGCTAGCGCAATTTTCAGCTCTACCGTcgct > 1:489594/1‑68 (MQ=255)
cAATTGTAGAGCGACGAAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTTCAGCTCTAccgtcg > 1:235110/1‑67 (MQ=255)
cAATTGTAGAGCGACGAAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTTCAGCTCTAccgtcg > 1:2476730/1‑67 (MQ=255)
cAATTGTAGAGCGACGAAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTTCAGCTCTAccgtcg > 1:883392/1‑67 (MQ=255)
cAATTGTAGAGCGACGAAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTTCAGCTCTAccgtcg > 1:2841887/1‑67 (MQ=255)
cAATTGTAGAGCGACGAAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTTCAGCTCTACCGTcgcg > 1:149185/1‑69 (MQ=255)
cAATTGTAGAGCGACGAAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTTCAGCTCTACCGTcgcg > 1:321740/1‑69 (MQ=255)
cAATTGTAGAGCGACGAAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTTCAGCTCTACCGTcgc > 1:1513662/1‑68 (MQ=255)
cAATTGTAGAGCGACGAAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTTCAGCTCTACCGTcgc > 1:917050/1‑68 (MQ=255)
cAATTGTAGAGCGACGAAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTTCAGCTCTACCGTcgc > 1:3342627/1‑68 (MQ=255)
cAATTGTAGAGCGACGAAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTTCAGCTCTACCGTcgc > 1:1929518/1‑68 (MQ=255)
cAATTGTAGAGCGACGAAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTTCAGCTCTACCGTcgc > 1:940783/1‑68 (MQ=255)
cAATTGTAGAGCGACGAAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTTCAGCTCTACCGTcgc > 1:2163848/1‑68 (MQ=255)
cAATTGTAGAGCGACGAAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTTCAGCTCTACCGTcgc > 1:654318/1‑68 (MQ=255)
cAATTGTAGAGCGACGAAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTTCAGCTCTACAGTcgc > 1:1403978/1‑68 (MQ=255)
cAATTGTAGAGCGACGAAAAGCGATGCCCTACGGCGAGCGCGAGCGCAATTTTCAGCTCTAccgtcg > 1:862146/1‑67 (MQ=255)
tGTCGAGCGACGGAAAGCGATGGGCTACGGCGAGCGAGAGCGCAATTTCCAGTta < 1:3344267/55‑1 (MQ=255)
tGTCGAGCGACGGAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTCCAGTta < 1:2818768/55‑1 (MQ=255)
tGTCGAGCGACGGAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTCCAGTta > 1:447697/1‑55 (MQ=255)
tGTCGAGCGACGGAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTCCAGTta < 1:337501/55‑1 (MQ=255)
tGTCGAGCGACGGAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTCCAGTta < 1:2616822/55‑1 (MQ=255)
gTCGAGCGACGGAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTCCAGTTATATCGTCGCGGTCGt > 1:1596271/1‑69 (MQ=255)
gTCGAGCGACGGAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTCCAGTTATATCGTCGCGGTCGt < 1:3132332/69‑1 (MQ=255)
gTCGAGCGACGGAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTCCAGTTATATCGTCGCGGTCGt < 1:2739858/69‑1 (MQ=255)
gTCGAGCGACGGAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTCCAGTTATATCGTCGCGGTCGt > 1:833656/1‑69 (MQ=255)
gTCGAGCGACGGAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTCCAGTTATATCGTCGCGGTCGt < 1:558027/69‑1 (MQ=255)
gTCGAGCGACGGAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTCCAGTTATATCGTCGCGGTCGt < 1:803262/69‑1 (MQ=255)
gTCGAGCGACGGAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTCCAGTTATATCGTCGCGGTCGt > 1:1896534/1‑69 (MQ=255)
gTCGAGCGACGGAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTCCAGTTATATCGTCGCGGTCGt < 1:358077/69‑1 (MQ=255)
gTCGAGCGACGGAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTCCAGTTATATCGTCGCGGTCGt < 1:398538/69‑1 (MQ=255)
gTCGAGCGACGGAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTCCAGTTATATCGTCGCGGTCGt < 1:2375599/69‑1 (MQ=255)
gTCGAGCGACGGAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTCCAGTTATATCGTCGCGGTCGt < 1:2279279/69‑1 (MQ=255)
|
TTGCCTTTATGCAGGCGGTAGGCAAAGGCTACACCGACGCTTATTTACCAATTGTCGAGCGACGGAAAGCGATGGCCTACGGCGAGCGCGAGCGCAATTTCCAGTTATATCGTCGCGGTCGT > minE/1606878‑1606999
|
| 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
