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 |
1,936,148 |
A→G |
26.6% |
R409R (CGT→CGC) |
recJ ← |
ssDNA exonuclease, 5' ‑‑> 3'‑specific |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,936,148 | 0 | A | G | 26.6%
| 79.9
/ 28.9
| 75 | R409R (CGT→CGC) | recJ | ssDNA exonuclease, 5' ‑‑> 3'‑specific |
| Reads supporting (aligned to +/- strand): ref base A (26/29); new base G (7/13); total (33/42) |
| Fisher's exact test for biased strand distribution p-value = 4.34e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.56e-01 |
TCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGAACCTTTCAGCGTACCGTCACCTGCTGGCGCAAACGC > minE/1936084‑1936216
|
tCGCATGGCCGCCAAACTTGAGCATCATGCCGGGGTAAAGCGTGTCTAGCCGCTCCAGCGCATCGCGCa < 1:869978/69‑1 (MQ=255)
tCGCATGGCCGCCAAACTTGAGCATCATGCCGGGGTAAAGCGTGTCTAGCCGCTCCAGCGCATCGCGCa < 1:1807689/69‑1 (MQ=255)
tCGCATGGCCGCCAAACTTGAGCATCATGCCGGGGTAAAGCGTGTCTAGCCGCTCCAGCGCATCGCGCa < 1:387738/69‑1 (MQ=255)
tCGCATGGCCGCCAAACTTGAGCATCATGCCGGGGTAAAGCGTGTCTAGCCGCTCCAGCGCATCGCGCa < 1:1326998/69‑1 (MQ=255)
tCGCATGGCCGCCAAACTTGAGCATCATGCCGGGGTAAAGCGTGTCTAGCCGCTCCAGCGCATCGCGCa < 1:1953554/69‑1 (MQ=255)
tCGCATGGCCGCCAAACTTGAGCATCATGCCGGGGTAAAGCGTGTCTAGCCGCTCCAGCGCATCGCGCa < 1:3104832/69‑1 (MQ=255)
tCGCATGGCCGCCAAACTTGAGCATCATGCCGGGGTAAAGCGTGTCTAGCCGCTCCAGCGCATCGCGCa < 1:310013/69‑1 (MQ=255)
tCGCATGGCCGCCAAACTTGAGCATCATGCCGGGGTAAAGCGTGTCTAGCCGCTCCAGCGCATCGCGCa < 1:148750/69‑1 (MQ=255)
tCGCATGGCCGCCAAACTTGAGCATCATGCCGGGGTAAAGCGTGTCTAGCCGCTCCAGCGCATCGCGCa < 1:1957506/69‑1 (MQ=255)
tCGCATGGCCGCCAAACTTGAGCATCATGCCGGGGTAAAGCGTGTCTAGCCGCTCCAGCGCATCGCGCa < 1:2532447/69‑1 (MQ=255)
tCGCATGGCCGCCAAACTTGAGCATCATGCCGGGGTAAAGCGTGTCTAGCCGCTCCAGCGCATCGCGCa < 1:2662865/69‑1 (MQ=255)
tCGCACGGCCGCCAAACTTGAGCATCATGCCGGGGTAAAGCGTGTCTAGCCGCTCCAGCGCATCGCGCa < 1:3348752/69‑1 (MQ=255)
gCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCata > 1:180666/1‑69 (MQ=255)
gCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCata > 1:1131505/1‑69 (MQ=255)
gCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCata > 1:2894227/1‑69 (MQ=255)
gCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCata > 1:2926894/1‑69 (MQ=255)
gCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCata > 1:387279/1‑69 (MQ=255)
gCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCata > 1:800464/1‑69 (MQ=255)
gCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCata > 1:948308/1‑69 (MQ=255)
gCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCata > 1:1674839/1‑69 (MQ=255)
gCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCa > 1:2564959/1‑67 (MQ=255)
gCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCa > 1:2298498/1‑67 (MQ=255)
gCATGACCGCCAAACTTCAGAATCATGCCAGGGTAGAGTGTGTCTAATAGCTCCAGCGCATCACGCata > 1:1262290/1‑69 (MQ=255)
aCTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGaa < 1:1767031/69‑1 (MQ=255)
aCTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGaa < 1:3027917/69‑1 (MQ=255)
aCTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGaa < 1:3204769/69‑1 (MQ=255)
aCTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGaa < 1:2744237/69‑1 (MQ=255)
aCTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGaa < 1:3419415/69‑1 (MQ=255)
aCTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGaa < 1:2206679/69‑1 (MQ=255)
aCTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGaa < 1:591937/69‑1 (MQ=255)
aCTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGaa < 1:864946/69‑1 (MQ=255)
aCTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCACTGaa < 1:2436144/69‑1 (MQ=255)
cTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGaa < 1:3176982/68‑1 (MQ=255)
tcatGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCa > 1:1992312/1‑45 (MQ=255)
tcatGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCa > 1:529705/1‑45 (MQ=255)
tcatGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCa > 1:576026/1‑45 (MQ=255)
tcatGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCa > 1:1908372/1‑45 (MQ=255)
atGCCGGGGTAAAGCGTGTCTAGCCGCTCCAGCGCATCGCGCa < 1:136600/43‑1 (MQ=16)
ccAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGaa < 1:2926042/69‑1 (MQ=255)
ccAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGaa < 1:3176392/69‑1 (MQ=255)
tAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGAACCTTTc > 1:1677255/1‑69 (MQ=255)
tAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGAAGCCCCTGAATGGAGCGACCGGAACCTTTc > 1:806464/1‑69 (MQ=255)
gagTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTg < 1:62570/45‑1 (MQ=255)
gagTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTg < 1:3315400/45‑1 (MQ=255)
gagTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTg < 1:3134717/45‑1 (MQ=255)
gagTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTg < 1:1458387/45‑1 (MQ=255)
gagTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTg < 1:2962859/45‑1 (MQ=255)
gagTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTg < 1:1614537/45‑1 (MQ=255)
gagTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTg < 1:1591676/45‑1 (MQ=255)
gagTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTg < 1:1595568/45‑1 (MQ=255)
gagTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTg < 1:2734312/45‑1 (MQ=255)
gagTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGAACCTTTCAg < 1:3399272/69‑1 (MQ=255)
agTGTGTCTAATCTCTCCAGCGCATCACGCATATGCAGCCCCTg < 1:179436/44‑1 (MQ=255)
agTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTg < 1:2983289/44‑1 (MQ=255)
tgtgtCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGAACCTTTCAGCGt > 1:1049379/1‑69 (MQ=255)
tgtgtCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGAACCTTTCAGCGt > 1:666164/1‑69 (MQ=255)
tgtgtCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGAACCTTTCAGCGt > 1:2055010/1‑69 (MQ=255)
tgtgtCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGAACCTTTCAGCGt > 1:1594388/1‑69 (MQ=255)
tgtgtCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGAACCTTTCAGCGt > 1:2673955/1‑69 (MQ=255)
tgtgtCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGAACCTTTCAGCGt > 1:1417411/1‑69 (MQ=255)
tgtgtCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGAACCTTTCAGCGt > 1:1555005/1‑69 (MQ=255)
tgcgtCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGAACCTTTCAGCGt > 1:72134/4‑69 (MQ=255)
tAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGAACCTTTCAGCGTACCGTc < 1:2132962/69‑1 (MQ=255)
tAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGAACCTTTCAGCGTACCGTc < 1:2819861/69‑1 (MQ=255)
tAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGAACCTTTCAGCGTACCGTc < 1:1911885/69‑1 (MQ=255)
aaTCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGAACCTTTCAGCGTACCGTc < 1:3225365/68‑1 (MQ=255)
cGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGAACCTTTCAGCGTACCGTCAcc < 1:1986391/68‑1 (MQ=255)
gCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGAACCTTTCAGCGTACCGTCACctg > 1:1162025/1‑69 (MQ=255)
cAGCGCATCGCGAATATGCAGCCCCTTAATGGAGCGACCGGAACCtt > 1:484937/1‑47 (MQ=255)
cAGCGCATCGCGAATATGCAGCCCCTGAATGGAGCGACCGGAACCtt > 1:669047/1‑47 (MQ=39)
cAGCGCATCGCGAATATGCAGCCCCTGAATGGAGCGACCGGAACCtt > 1:912837/1‑47 (MQ=39)
cAGCGCATCGCGAATATGCAGCCCCTGAATGGAGCGACCGGAACCtt > 1:1216753/1‑47 (MQ=39)
cAGCGCATCGCGAATATGCAGCCCCTGAATGGAGCGACCGGAACCtt > 1:732176/1‑47 (MQ=39)
cAGCGCATCGCGAATATGCAGCCCCTGAATGGAGCGACCGGAACCtt > 1:3386667/1‑47 (MQ=39)
cAGCGCATCGCGAATATGCAGCCCCTGAATGGAGCGACCGGAACCtt > 1:3190995/1‑47 (MQ=39)
aCGCATATGCAGCCCCTGAATGGAGCGACCGGAACCTTTCAGCGTACCGTCa > 1:2412480/1‑52 (MQ=255)
aCGCATATGCAGCCCCTGAATGGAGCGACCGGAACCTTTCAGCGTACCGTCACCTGCTGGCGCAAAcgc > 1:1478072/1‑69 (MQ=255)
|
TCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGAACCTTTCAGCGTACCGTCACCTGCTGGCGCAAACGC > minE/1936084‑1936216
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
