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 |
|
A6 F21 I0 R2
|
370 |
72.1 |
3738297 |
91.5% |
3420541 |
62.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,919,516 |
T→A |
10.0% |
R60R (CGA→CGT) |
argI ← |
ornithine carbamoyltransferase 1 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,919,516 | 0 | T | A | 10.0%
| 192.5
/ 12.2
| 70 | R60R (CGA→CGT) | argI | ornithine carbamoyltransferase 1 |
| Reads supporting (aligned to +/- strand): ref base T (24/39); new base A (4/3); total (28/42) |
| Fisher's exact test for biased strand distribution p-value = 4.26e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.92e-01 |
TGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTACCAGTGAGTTTGGCTTCTTCTTTAC > minE/2919448‑2919586
|
tGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCg > 1:1068306/1‑71 (MQ=255)
ggCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCgg > 1:3526600/1‑71 (MQ=255)
gCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCggg < 1:2442436/71‑1 (MQ=255)
gCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCggg < 1:1966752/71‑1 (MQ=255)
gCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCg < 1:611773/69‑1 (MQ=255)
gCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTAc > 1:2321300/1‑71 (MQ=255)
gCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTAc > 1:294372/1‑71 (MQ=255)
ccGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTa < 1:3011489/69‑1 (MQ=255)
ccGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTAc < 1:225641/70‑1 (MQ=255)
cTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTAcgagt < 1:2761645/71‑1 (MQ=255)
cGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCt < 1:3653549/71‑1 (MQ=255)
cGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCt < 1:2791414/71‑1 (MQ=255)
tAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTAcgagtcga > 1:3525748/1‑62 (MQ=255)
aaGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTaag > 1:260340/1‑53 (MQ=255)
aaGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCtttt < 1:2284979/68‑1 (MQ=255)
aGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCg < 1:2312854/70‑1 (MQ=255)
tAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAg < 1:1332328/71‑1 (MQ=255)
tAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAg < 1:1998683/71‑1 (MQ=255)
aCGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGAt > 1:3582407/1‑71 (MQ=255)
cgcgAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGAt > 1:74931/1‑70 (MQ=255)
cgcgAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATg < 1:3246999/71‑1 (MQ=255)
gcgAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGa < 1:1391439/71‑1 (MQ=255)
cgAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCtttt < 1:72319/60‑1 (MQ=255)
cgAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCgtttt > 1:3572287/1‑61 (MQ=255)
cTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGt < 1:2590765/71‑1 (MQ=255)
cTGGTCAAATGCGGCAACTTCGAAAGAGCAACGGGTACgagtcgagtc < 1:1400118/48‑1 (MQ=255)
cTGGTCAAATGCGGCAACTTCGAAAGAGCAACGGGTACgagtcgagtc < 1:531663/48‑1 (MQ=255)
cTGGTCAAATGCGGCAACTTCGAAAGAGCAACGGGTACgagtcgagtc < 1:646074/48‑1 (MQ=255)
ggTCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGttt > 1:2925252/1‑71 (MQ=255)
ggTCAAATGCGGCAACTTCGAAAGAGCAACGGGTACGAGTCGAGTCt > 1:2238460/1‑47 (MQ=255)
gTCATATGCGGCAACTTCGAAAGAGCATCGGGTAcgag < 1:1048188/38‑1 (MQ=255)
gTCATATGCGGCAACTTCGAAAGAGCATCGGGTAcgag < 1:1074302/38‑1 (MQ=255)
gTCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGtttt > 1:222597/1‑71 (MQ=255)
tCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGtttt > 1:1740356/1‑70 (MQ=255)
aaatGCGGCAACTTCGAAAGAGCAACGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTAc > 1:3061501/3‑71 (MQ=255)
tatGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGaa < 1:1572954/50‑1 (MQ=255)
tatGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTAc < 1:843480/70‑1 (MQ=255)
tatGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTAc > 1:716359/1‑70 (MQ=255)
atGCGGCAACTTCGAAAGAGCAACGGGTACGAGTCGAGTCTTTTTCGa > 1:153035/1‑48 (MQ=255)
atGCGGCAACTTCGAAAGAGCAACGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGa > 1:2036863/1‑60 (MQ=255)
tGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTACCAg < 1:2836946/71‑1 (MQ=255)
gCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTACCAGt > 1:2908965/1‑71 (MQ=255)
gCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTACCAGt > 1:2559957/1‑71 (MQ=255)
cGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGa > 1:817938/1‑45 (MQ=255)
ggCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGt < 1:1236639/59‑1 (MQ=255)
ggCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTACCAGt > 1:2583374/1‑69 (MQ=255)
ggCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTACCAGTGa < 1:3315427/71‑1 (MQ=255)
gCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTACCAGTGAg < 1:2419238/71‑1 (MQ=255)
gCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTACCAGTGAg < 1:2327815/71‑1 (MQ=255)
gCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTACCAGTGAg < 1:2241585/71‑1 (MQ=255)
aaCTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTACCAGTGAGtt < 1:2763487/71‑1 (MQ=255)
aaCTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTACCAGTGAGtt < 1:192883/71‑1 (MQ=255)
aaCTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTACCAGTGAGtt > 1:1379357/1‑71 (MQ=255)
aCTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGa > 1:645011/1‑40 (MQ=255)
aCTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTACCAGTGAGttt > 1:224616/1‑71 (MQ=255)
aCTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTACCAGTGAGttt < 1:30139/71‑1 (MQ=255)
aCTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTACCAGTGAGttt < 1:1921617/71‑1 (MQ=255)
cTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGttttt < 1:317065/58‑1 (MQ=255)
cTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTACCAGTGAGTTTg > 1:327569/1‑71 (MQ=255)
ttCGAAAGAGCATCGGGTACGAGTCGAGTCttttt > 1:2097418/1‑35 (MQ=255)
cGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAg > 1:439191/1‑38 (MQ=255)
gAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTACCAGTGAGTTTGGctt < 1:1164146/71‑1 (MQ=255)
aaaGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTACCAGTGAGTTTGGcttc < 1:1305778/71‑1 (MQ=255)
aaGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTACCAGTGAGTTTGGcttct < 1:2267244/71‑1 (MQ=255)
aaGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTACCAGTGAGTTTGGcttct > 1:2105085/1‑71 (MQ=255)
gagCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTACCAGTGAGTTTGGcttcttc < 1:596619/71‑1 (MQ=255)
gagCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTACCAGTGAGTTTGGcttcttc < 1:1808294/71‑1 (MQ=255)
gCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGAt < 1:1202676/42‑1 (MQ=255)
gCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTACCAGTGAGTTTGGcttcttctt < 1:1027863/71‑1 (MQ=255)
gCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTACCAGTGAGTTTGGcttcttctt < 1:2153693/71‑1 (MQ=255)
tCGGGTACGAGTCGAGTCTTTTTCGTAGATGAGCGCGATGTTTTTACCAGTGAGTTTGGCTTCTTCTTTAc > 1:1903028/1‑71 (MQ=255)
tCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTACCAGTGAGTTTGGCTTCTTCTTTAc < 1:439332/71‑1 (MQ=255)
|
TGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTACCAGTGAGTTTGGCTTCTTCTTTAC > minE/2919448‑2919586
|
| 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
