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 |
2,919,571 |
T→C |
54.8% |
K42R (AAA→AGA) |
argI ← |
ornithine carbamoyltransferase 1 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,919,571 | 0 | T | C | 54.8%
| 8.2
/ 40.4
| 53 | K42R (AAA→AGA) | argI | ornithine carbamoyltransferase 1 |
| Reads supporting (aligned to +/- strand): ref base T (9/15); new base C (17/12); total (26/27) |
| Fisher's exact test for biased strand distribution p-value = 1.70e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.83e-01 |
CGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTACCAGTGAGTTTGGCTTCTTCTTTACCGCTTTTCTTATCGGCTTTCAGCTTCGCGGCTAACTGCAGCAGGCTGTTG > minE/2919506‑2919636
|
cGAAAGAGCATCGGGTACGGGTCGGGTCTTTTTCGAAGATGAGCGCGATGTTTTTGCCAGTGAGTCTgg > 1:2183428/1‑69 (MQ=255)
cGAAAGAGCATCGGGTACGGGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTGCTAGTGAGTCTgg > 1:1053918/1‑69 (MQ=255)
cGAAAGAGCATCGGGTACGGGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTGCCAGTGAGTCTgg > 1:2729582/1‑69 (MQ=255)
cGAAAGAGCATCGGGTACGGGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTGCCAGTGAGTCTgg > 1:3086861/1‑69 (MQ=255)
cGAAAGAGCATCGGGTACGGGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTGCCAGTGAGTCTgg > 1:602478/1‑69 (MQ=255)
cGAAAGAGCATCGGGTACGGGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTGCCAGTGAGTCTgg > 1:1890075/1‑69 (MQ=255)
cGAAAGAGCATCGGGTACGGGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTGCCAGTGAGTCTgg > 1:715691/1‑69 (MQ=255)
cGAAAGAGCATCGGGTACGGGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTGCCAGTGAGTCTgg > 1:1666106/1‑69 (MQ=255)
cGAAAGAGCATCGGGTACGGGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTGCCAGTGAGTCTgg > 1:1296098/1‑69 (MQ=255)
aaaGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTACCAGTGAGTTTGGc < 1:1767657/68‑1 (MQ=255)
aaaGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTACCAGTGAGTTTGGc < 1:1557469/68‑1 (MQ=255)
aaGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTACCAGTGAGTTTGGc < 1:3402101/67‑1 (MQ=255)
aTCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTACCAGTGAGtt > 1:1743898/1‑57 (MQ=255)
aTCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTACCAGTGAGTTTGGcttcttctt > 1:2514961/1‑69 (MQ=255)
aTCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTACCAGTGAGTTTGGcttcttctt > 1:89145/1‑69 (MQ=255)
ggTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTACCAGTGAGTTTGGc < 1:761766/57‑1 (MQ=255)
aCGGGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCTTTACCGCt > 1:650730/1‑69 (MQ=255)
aCGGGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCTTTACCGCt > 1:403703/1‑69 (MQ=255)
aCGGGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCTTTACCGCt > 1:1213226/1‑69 (MQ=255)
aCGGGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCTTTACCGCt > 1:2271943/1‑69 (MQ=255)
aCGGGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCTTTACCGCt > 1:3374042/1‑69 (MQ=255)
aCGGGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCTTTACCGCt > 1:1200243/1‑69 (MQ=255)
aCGGGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCTTTACCGCt > 1:2909766/1‑69 (MQ=255)
aCGGGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCTTTACCGCt > 1:280330/1‑69 (MQ=255)
cgagtcgagtCTTTTTCGAAGATGAGCGCGATGTTTTTACCAGTGAGTTTGGCTTCTTCTTTACCGCtt < 1:1815701/69‑1 (MQ=255)
cgagtcTTTTTCGAAGATGAGCGCGATGTTTTTACCAGTGAGTTTGGCTTCTTCTTTACCGCTTTTCtt < 1:2038474/69‑1 (MQ=255)
gagtcTTTTTCGAAGATGAGCGCGATGTTTTTACCAGTGAGTTTGGCTTCTTCTTTACCGCTTTTCtt < 1:841454/68‑1 (MQ=255)
tttCGAAGATGAGCGCGATGTTTTTACCAGTGAGTTTGGCTTCTTCTTTACCGCTTTTCTTATCGGCt > 1:1166408/1‑68 (MQ=255)
tttCGAAGATGAGCGCGATGTTTTTACCAGTGAGTTTGGCTTCTTCTTTACCGCTTTTCTTATCGGCt > 1:437937/1‑68 (MQ=255)
tttCGAAGATGAGCGCGATGTTTTTACCAGTGAGTTTGGCTTCTTCTTTACCGCTTTTCTTATCGGCt > 1:2569552/1‑68 (MQ=255)
tttCGAAGATGAGCGCGATGTTTTTACCAGTGAGTTTGGCTTCTTCTTTACCGCTTTTCTTATCGGCt > 1:2510445/1‑68 (MQ=255)
tttCGAAGATGAGCGCGATGTTTTTACCAGTGAGTTTGGCTTCTTCTTTACCGCTTTTCTTATCGGCt > 1:194625/1‑68 (MQ=255)
tttCGAAGATGAGCGCGATGTTTTTACCAGTCAGTTTGGCTTCTTCTTTACCGCTTTTCTAATCTGc > 1:1449409/1‑67 (MQ=255)
tCGAAGATGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCTTTACCGCTTTTCTTATCGGCtt < 1:1277570/67‑1 (MQ=255)
tCGAAGATGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCTTTACCGCTTTTCTTATCGGCtt < 1:1375494/67‑1 (MQ=255)
tCGAAGATGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCTTTACCGCTTTTCTTATCGGCtt < 1:2653980/67‑1 (MQ=255)
tCGAAGATGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCTTTACCGCTTTTCTTATCGGCtt < 1:783885/67‑1 (MQ=255)
tCGAAGATGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCTTTACCGCTTTTCTTATCGGCtt < 1:177684/67‑1 (MQ=255)
tCGAAGATGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCTTTACCGCTTTTCTTATCGGCtt < 1:661562/67‑1 (MQ=255)
tCGAAGATGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCTTTACCGCTTTTCTTATCGGCtt < 1:2482426/67‑1 (MQ=255)
tCGAAGATGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCTTTACCGCTTTTCTTATCGGCtt < 1:2717360/67‑1 (MQ=255)
tCGAAGATGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCTTTACCGCTTTTCTTATCGGCtt < 1:193973/67‑1 (MQ=255)
tCGAAGATGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCTTTACCGCTTTTCTTATCGGCtt < 1:499666/67‑1 (MQ=255)
gcgATGTTTTTACCAGTGAGTTTGGCTTCTTCTTTACCGCTTTTCTTATCGGCTTTCAGCTTCGCGGCt < 1:3290114/69‑1 (MQ=255)
tttttACCAGTGAGTTTGGCTTCTTCTTTACCGCTTTTCTTATCGGCTTTCAGCTTCGCGGCTAACTgc < 1:3413708/69‑1 (MQ=255)
tttttACCAGTGAGTTTGGCTTCTTCTTTACCGCTTTTCTTATCGGCTTTCAGCTTCGCGGCTAACTgc < 1:3228571/69‑1 (MQ=255)
tttttACCAGTGAGTTTGGCTTCTTCTTTACCGCTTTTCTTATCGGCTTTCACCTTCGCGGCTAACTgc < 1:2750634/69‑1 (MQ=255)
ttttGCGAGTGAGTCTTGCTTCTTCTTTACCGGTTTTCTTATCGGCtt < 1:2108595/48‑1 (MQ=25)
aGTTTGGCTTCTTCTTTACCGCTTTTCTTATCGGCTTTCAGCTTCGCGGCTAACTGCAGCAGGCTGTTg < 1:534741/69‑1 (MQ=255)
aGTTTGGCTTCTTCTTTACCGCTTTTCTTATCGGCTTTCAGCTTCGCGGCTAACTGCAGCAGGCTGTTg > 1:2121637/1‑69 (MQ=255)
aGTTTGGCTTCTTCTTTACCGCTTTTCTTATCGGCTTTCAGCTTCGCGGCTAACTGCAGCAGGCTGTTg < 1:3070605/69‑1 (MQ=255)
aGTTTGGCTTCTTCTTTACCGCTTTTCTTATCGGCTTTCAGCTTCGCGGCTAACTGCAGCAGGCTGTTg < 1:3040356/69‑1 (MQ=255)
aGTTTGGCTTCTTCTTTACCGCTTTTCTTATCGGCTTTCAGCTTCGCGGCTAACTGCAGCAGGCTGTTg < 1:2676655/69‑1 (MQ=255)
aGTCTGGCTTCTTCTTTACCGCTTTTCTTATCGGCtt < 1:3358756/37‑1 (MQ=255)
|
CGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTACCAGTGAGTTTGGCTTCTTCTTTACCGCTTTTCTTATCGGCTTTCAGCTTCGCGGCTAACTGCAGCAGGCTGTTG > minE/2919506‑2919636
|
| 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
