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 |
471,384 |
C→G |
57.1% |
A250A (GCC→GCG) |
sucD → |
succinyl‑CoA synthetase, NAD(P)‑binding, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 471,384 | 0 | C | G | 57.1%
| 15.1
/ 49.9
| 49 | A250A (GCC→GCG) | sucD | succinyl‑CoA synthetase, NAD(P)‑binding, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base C (15/6); new base G (8/20); total (23/26) |
| Fisher's exact test for biased strand distribution p-value = 4.13e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.13e-01 |
CCAGTTGTGGGTTACATCGCTGGTGTGACTGCGCCGAAAGGCAAACGTATGGGCCACGCGGGTGCCATCATTGCCGGTGGGAAAGGGACTGCGGATGAGAAATTCGCTGCTCTGGAAGCCGCAGGCGTG > minE/471319‑471447
|
ccAGTTGTGGGTTACATCGCTGGTGTGACTGCGCCGAAAGGCAAACGTATGGGCCACGCGGGTGCcatc < 1:2645137/69‑1 (MQ=255)
gtgGGTTACATCGCTGGTGTGACTGCGCCGAAAGGCAAACGTATGGGCCACGCGGGTTCCATCATTGcc > 1:804620/1‑69 (MQ=255)
gtgGGTTACATCGCTGGTGTGACTGCGCCGAAAGGCAAACGTATGGGCCACGCGGGTGCCATCATTGc > 1:528124/1‑68 (MQ=255)
aCATCGCTGGTGTGACTGCGCCGAAAGGCAAACGTATGGGCCACGCGGGTGCCATCATTGCCGGTGGGa < 1:2957823/69‑1 (MQ=255)
aCATCGCTGGTGTGACTGCGCCGAAAGGCAAACGTATGGGCCACGCGGGTGCCATCATTGCCGGTGGGa < 1:747768/69‑1 (MQ=255)
gCTGGTGTGACTGCGCCGAAAGGCAAACGTATGGGCCACGCGGGTGCCATCATTGCCGGTGGGAAAggg < 1:1935498/69‑1 (MQ=255)
tgACTGCGCCGAAAGGCAACCGTATGGGTCACGCAGGTGCGATCATTGCCGGTGGTAAAgg < 1:3352873/61‑1 (MQ=255)
tgACTGCGCCGAAAGGCAAACGTATGGGTCACGCAGGTGCGATCATTGCCGGTGGTAAAgg < 1:1116057/61‑1 (MQ=255)
tgACTGCGCCGAAAGGCAAACGTATGGGTCACGCAGGTGCGATCATTGCCGGTGGTAAAgg < 1:406810/61‑1 (MQ=255)
tgACTGCGCCGAAAGGCAAACGTATGGGTCACGCAGGTGCGATCATTGCCGGTGGTAAAgg < 1:2860504/61‑1 (MQ=255)
tgACTGCGCCGAAAGGCAAACGTATGGGTCACGCAGGTGCGATCATTGCCGGTGGTAAAgg < 1:2562016/61‑1 (MQ=255)
tgACTGCGCCGAAAGGCAAACGTATGGGTCACGCAGGTGCGATCATTGCCGGTGGTAAAgg < 1:2516445/61‑1 (MQ=255)
tgACTGCGCCGAAAGGCAAACGTATGGGTCACGCAGGTGCGATCATTGCCGGTGGTAAAgg < 1:639342/61‑1 (MQ=255)
tgACTGCGCCGAAAGGCAAACGTATGGGTCACGCAGGTGCGATCATTGCCGGTGGTAAAgg < 1:2304636/61‑1 (MQ=255)
tgACTGCGCCGAAAGGCAAACGTATGGGTCACGCAGGTGCGATCATTGCCGGTGGTAAAgg < 1:2170954/61‑1 (MQ=255)
tgACTGCGCCGAAAGGCAAACGTATGGGTCACGCAGGTGCGATCATTGCCGGTGGTAAAgg < 1:1986798/61‑1 (MQ=255)
tgACTGCGCCGAAAGGCAAACGTATGGGTCACGCAGGTGCGATCATTGCCGGTGGTAAAgg < 1:1800720/61‑1 (MQ=255)
tgACTGCGCCGAAAGGCAAACGTATGGGTCACGCAGGTGCGATCATTGCCGGTGGTAAAgg < 1:1632753/61‑1 (MQ=255)
tgACTGCGCCGAAAGGCAAACGTATGGGTCACGCAGGTGCGATCATTGCCGGTGGTAAAgg < 1:3212442/61‑1 (MQ=255)
tgACTGCGCCGAAAGGCAAACGTATGGGTCACGCAGGTGCGATCATTGCCGGTGGTAAAgg < 1:3295216/61‑1 (MQ=255)
tgACTGCGCCGAAAGGCAAACGTATGGGTCACGCAGGTGCGATCATTGCCGGTGGTAAAgg < 1:1504709/61‑1 (MQ=255)
tgACTGCGCCGAAAGGCAAACGTATGGGTCACGCAGGTGCGATCATTGCCGGTGGTAAAgg < 1:1410580/61‑1 (MQ=255)
tgACTGCGCCGAAAGGCAAACGTATGGGTCACGCAGGTGCGATCATTGCCGGTGGTAAAgg < 1:1170156/61‑1 (MQ=255)
tgACTGCGCCGAAAGGCAAACGTATGGGTCACGCAGGTGCGATCATTGACGGTGGTAAAgg < 1:300281/61‑1 (MQ=255)
tgACTGCCCCGAAAGGCAAACGTATGGGTCACGCAGGTGCGATCATTGCCGGTGGTAAAgg < 1:1624947/61‑1 (MQ=255)
aCTGCGCCGAAAGGCAAACGTATGGGCCACGCGGGTGCCATCATTGCCGGTGGGAAAGGGACTGCgg > 1:1720646/1‑67 (MQ=255)
aCTGCGCCGAAAGGCAAACGTATGGGCCACGCGGGTGCCATCATTGCCGGTGGGAAAGGGAATGCgg > 1:2989167/1‑67 (MQ=255)
tGCGCCGAAAGGCAAACGTATGGGCCCCGCGGGTGCCATCATTGCCGGTGGGAAAgg > 1:1253324/1‑57 (MQ=255)
tGCGCCGAAAGGCAAACGTATGGGCCACGCGGGTGCCATCATTGCCGGTGGGAAAgg > 1:3180582/1‑57 (MQ=255)
tGCGCCGAAAGGCAAACGTATGGGCCACGCGGGTGCCATCATTGCCGGTGGGAAAgg > 1:3005435/1‑57 (MQ=255)
tGCGCCGAAAGGCAAACGTATGGGCCACGCGGGTGCCATCATTGCCGGTGGGAAAgg > 1:3305094/1‑57 (MQ=255)
tGCGCCGAAAGGCAAACGTATGGGCCACGCGGGTGCCATCATTGCCGGTGGGAAAgg > 1:3408655/1‑57 (MQ=255)
tGCGCCGAAAGGCAAACGTATGGGCCACGCGGGTGCCATCATTGCCGGTGGGAAAgg > 1:2282614/1‑57 (MQ=255)
tGCGCCGAAAGGCAAACGTATGGGCCACGCGGGTGCCATCATTGCCGGTGGGAAAgg > 1:928445/1‑57 (MQ=255)
tGCGCCGAAAGGCAAACGTATGGGCCACGCGGGTGCCATCATTGCCGGTGGGAAAgg > 1:1526112/1‑57 (MQ=255)
tGCGCCGAAAGGCAAACGTATGGGCCACGCGGGTGCCATCATTGCCGGTGGGAAAgg > 1:956448/1‑57 (MQ=255)
tGCGCCGAAAGGCAAACGTATGGGCCACGCGGGTGCCAACATTGCCGGTGGGAAAgg > 1:1185660/1‑57 (MQ=255)
aaaGGCAAACGTATGGGTCACGCAGGTGCGATCATTGCCGGTGGTAAAgg < 1:1880251/50‑1 (MQ=255)
gCAAACGTATGGGTCACGCAGGTGCGATCATTGCCGGTGGTAAAGGGACTGCGGATGAGAAATTCgctg > 1:372042/1‑69 (MQ=255)
gCAAACGTATGGGTCACGCAGGTGCGATCATTGCCGGTGGTAAAGGGACTGCGGATGAGAAATTCgctg > 1:968694/1‑69 (MQ=255)
gCAAACGTATGGGTCACGCAGGTGCGATCATTGCCGGTGGTAAAGGGACTGCGGATGAGAAATTCgctg > 1:2989555/1‑69 (MQ=255)
gCAAACGTATGGGTCACGCAGGTGCGATCATTGCCGGTGGTAAAGGGACTGCGGATGAGAAATTCgctg > 1:2754468/1‑69 (MQ=255)
gCAAACGTATGGGTCACGCAGGTGCGATCATTGCCGGTGGTAAAGGGACTGCGGATGAGAAATTCgctg > 1:2305955/1‑69 (MQ=255)
gCAAACGTATGGGTCACGCAGGTGCGATCATTGCCGGTGGTAAAGGGACTGCGGATGAGAAATTCgctg > 1:1327608/1‑69 (MQ=255)
gCAAACGTATGGGTCACGCAGGTGCGATCATTGCCGGTGGTAAAGGGACTGCGGATGAGAAATTCgctg > 1:1161576/1‑69 (MQ=255)
gCAAACGTATGGGTCACGCAGGTGCGATCATTGCCGGTGGTAAAGGGACTGCGGATGAGAAATTCgct > 1:2999487/1‑68 (MQ=255)
cACGCGGGTGCCATCATTGCCGGTGGGAAAGGGACTGCGGATGAGAAATTCGCTGCTCTGGAAGCCGCa > 1:599261/1‑69 (MQ=255)
ggTGCCATCATTGCCGGTGGGAAAGGGACTGCGGATGAGAAATTCGCTGCTCTGGAAGCCGCAGGCGTg < 1:2093062/69‑1 (MQ=255)
ggTGCCATCATTGCCGGTGGGAAAGGGACTGCGGATGAGAAATTCGCTGCTCTGGAAGCCGCAGGCGTg < 1:2089071/69‑1 (MQ=255)
ggTGCCATCATTGCCGGTGGGAAAGGGACTGCGGATGAGAAATTCGCTGCTCTGGAAGCCGCAGGCGTg < 1:1577045/69‑1 (MQ=255)
|
CCAGTTGTGGGTTACATCGCTGGTGTGACTGCGCCGAAAGGCAAACGTATGGGCCACGCGGGTGCCATCATTGCCGGTGGGAAAGGGACTGCGGATGAGAAATTCGCTGCTCTGGAAGCCGCAGGCGTG > minE/471319‑471447
|
| 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
