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 |
2,144,404 |
C→T |
41.1% |
F225F (TTC→TTT) |
argG → |
argininosuccinate synthetase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,144,404 | 0 | C | T | 41.1%
| 26.9
/ 46.6
| 68 | F225F (TTC→TTT) | argG | argininosuccinate synthetase |
| Reads supporting (aligned to +/- strand): ref base C (26/14); new base T (13/15); total (39/29) |
| Fisher's exact test for biased strand distribution p-value = 1.44e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.50e-01 |
TCTGGAATACCTCAACTCCAGCGTCAAAATCGTCAACCCGATTATGGGCGTGAAATTCTGGGATGAGAGCGTGAAGATCCCGGCAGAAGAAGTCACAGTACGCTTTGAACAAGGTCATCCGGTGGC > minE/2144347‑2144472
|
tCTGGAATACCTCAACTCCAGCGTCAAAATCGTCAACCCGATTATGGGCGTGAAATTCTGGGATGagag > 1:1857933/1‑69 (MQ=255)
tCTGGAATACCTCAACTCCAGCGTCAAAATCGTCAACCCGATTATGGGCGTGAAATTCTGGGATGagag > 1:18553/1‑69 (MQ=255)
ccTCAACTCCAGCGTCAAAATCGTCAACCCGATTATGGGCGTGAAATTCTGGGATGAGAGCGTGAAGAt > 1:1098975/1‑69 (MQ=255)
ccTCAACTCCAGCGTCAAAATCGTCAACCCGATTATGGGCGTGAAATTCTGGGATGAGAGCGTGAAGAt > 1:2956815/1‑69 (MQ=255)
ccTCAACTCCAGCGTCAAAATCGTCAACCCGATTATGGGCGTGAAATTCTGGGATGAGAGCGTGAAGAt > 1:3047498/1‑69 (MQ=255)
ccTCAACTCCAGCGTCAAAATCGTCAACCCGATTATGGGCGTGAAATTCTGGGATGAGAGCGTGAAGAt > 1:598575/1‑69 (MQ=255)
ccTCAACTCCAGCGTCAAAATCGTCAACCCGATTATGGGCGTGAAATTCTGGGATGAGAGCGTGAAGAt > 1:1398090/1‑69 (MQ=255)
ccTCAACTCCAGCGTCAAAATCGTCAACACGATTATGGGCGTGAAATTCTGGGATGAGAGCGTGAAGAt > 1:894434/1‑69 (MQ=255)
ccAGCGTCAAAATCGTCAACCCGATTATGGGCGTGAAATTCTGGGATGAGAGCGTGAAGATCCCGGc > 1:573555/1‑67 (MQ=255)
ccAGCGTCAAAATCGTCAACCCGATTATGGGCGTGAAATTCTGGGATGAGAGCGTGAAGATCCCGGc > 1:1859772/1‑67 (MQ=255)
ccAGCGTCAAAATCGTCAACCCGATTATGGGCGTGAAATTCTGGGATGAGAGCGTGAAGATCCCGGc > 1:806151/1‑67 (MQ=255)
ccAGCGTCAAAATCGTCAACCCGATTATGGGCGTGAAATTCTGGGATGAGAGCGTGAAGATCCCGGc > 1:3284775/1‑67 (MQ=255)
ccAGCGTCAAAATCGTCAACCCGATTATGGGCGTGAAATTCTGGGATGAGAGCGTGAAGATCCCGGc > 1:2267539/1‑67 (MQ=255)
ccAGCGTCAAAATCGTCAACCCGATTATGGGCGTGAAATTCTGGGATGAGAGCGTGAAGATCCCGGc > 1:2271442/1‑67 (MQ=255)
ccAGCGTCAAAATCGTCAACCCGATTATGGGCGTGAAATTCTGGGATGAGAGCGTGAAGATCCCGGc > 1:421001/1‑67 (MQ=255)
ccAGCGTCAAAATCGTCAACCCGATTATGGGCGTGAAATTCTGGGATGAGAGCGTGAAGATCCCGGc > 1:3177734/1‑67 (MQ=255)
ccAGCGTCAAAATCGTCAACCCGATTATGGGCGTGAAATTCTGGGATGAGAGCGTGAAGATCCCGGc > 1:595814/1‑67 (MQ=255)
ccAGCGTCAAAATCGTCAACCCGATTATGGGCGTGAAATTCTGGGATGAGAGCGTGAAGATCCCGGc > 1:3173620/1‑67 (MQ=255)
ccAGCGTCAAAATCGTCAACCCGATTATGGGCGTGAAATTCTGGGATGAGAGCGTGAAGATCCCGGc > 1:3154003/1‑67 (MQ=255)
ccAGCGCCAAAATCGTCAACCCGATTATGGGCGTGAAATTCTGGGATGAGAGCGTGAAGATCCCGGc > 1:3301281/1‑67 (MQ=255)
caaGCGTCAAAATCGTCAACCCGATTATGGGCGTGAAATTCTGGGATGAGAGCGTGAAGATCCCGGc > 1:1857319/3‑67 (MQ=255)
gCGTCAAAATCGTCAACCCGATTATGGGCGTGAAATTCTGGGATGAGAGCGTGAAGATCCCGGCagaag < 1:1364873/69‑1 (MQ=255)
gCGTCAAAATCGTCAACCCAATTATGGGCGTGAAGTTTTGGGATGAGAGCGTGAAACTCCCGGCagaa < 1:1432165/68‑1 (MQ=255)
gCGTCAAAATCGTCAACCCAATTATGGGCGTGAAGTTTTGGGATGAGAGCGTGAAAATCCCGGCagaa < 1:1372882/68‑1 (MQ=255)
gCGTCAAAATCGTCAACCCAATTATGGGCGTGAAGTTTTGGGATGAGAGCGTGAAAATCCCGGCagaa < 1:2351617/68‑1 (MQ=255)
gCGTCAAAATCGTCAACCCAATTATGGGCGTGAAGTTTTGGGATGAGAGCGTGAAAATCCCGGCagaa < 1:2680243/68‑1 (MQ=255)
gCGTCAAAATCGTCAACCCAATTATGGGCGTGAAGTTTTGGGATGAGAGCGTGAAAATCCCGGCagaa < 1:3032854/68‑1 (MQ=255)
gCGTCAAAATCGTCAACCCAATTATGGGCGTGAAGTTTTGGGATGAGAGCGTGAAAATCCCGGCagaa < 1:2819347/68‑1 (MQ=255)
gCGTCAAAATCGTCAACCCAATTATGGGCGTGAAGTTTTGGGATGAGAGCGTGAAAATCCCGGCagaa < 1:1817699/68‑1 (MQ=255)
gCGTCAAAATCGTCAACCCAATTATGGGCGTGAAGTTTTGGGATGAGAGCGTGAAAATCCCGGCagaa < 1:1796152/68‑1 (MQ=255)
gCGTCAAAATCGTCAACCCAATTATGGGCGTGAAGTTTTGGGATGAGAGCGTGAAAATCCCGGCagaa < 1:374876/68‑1 (MQ=255)
gCGTCAAAATCGTCAACCCAATTATGGGCGTGAAGTTTTGGGATGAGAGCGTGAAAATCCCGGCagaa < 1:377449/68‑1 (MQ=255)
gCGTCAAAATCGTCAACCCAATTATGGGCGTGAAGTTTTGGGATGAGAGCGTGAAAATCCCGGCagaa < 1:1711002/68‑1 (MQ=255)
gCGTCAAAATCGTCAACCCAATTATGGGCGTGAAGTTTTGGGATGAGAGCGTGAAAATCCCGGCagaa < 1:597003/68‑1 (MQ=255)
gCGTCAAAATCGTCAACCCAATTATGGGCGTGAAGTTTTGGGATGAGAGCGTGAAAATCCCGGCagaa < 1:700208/68‑1 (MQ=255)
gCGTCAAAATCGTCAACCCAATTATGGGCGTGAAGTTTTGGGAGGAGAGCGTGAAAATCCCGGCagaa < 1:620084/68‑1 (MQ=255)
cGTCAAAATCGTCAACCCGATTATGGGCGTGAAATTCTGGGATGAGAGCGTGAAGATCCCGGCagaaga < 1:3191516/69‑1 (MQ=255)
cGTCAAAATCGTCAACCCGATTATGGGCGTGAAATTCTGGGATGAGAGCGTGAAGATCCCGGCagaaga < 1:2281204/69‑1 (MQ=255)
cGTCAAAATCGTCAACCCGATTATGGGCGTGAAATTCTGGGATGAGAGCGTGAAGATCCCGGCagaaga < 1:944363/69‑1 (MQ=255)
cccGATTATGGGCGTGAAATTCTGGGATGAGAGCGTGAAGATCCCGGCAGAAGAAGTCACAGTACGCt < 1:1432976/68‑1 (MQ=255)
cccGATTATGGGCGTGAAATTCTGGGATGAGAGCGTGAAGATCCCGGCAGAAGAAGTCACAGTACGCt < 1:1343529/68‑1 (MQ=255)
cccAATTATGGGCGTGAAGTTTTGGGATGAGAGCGTGAAAATCCCGGCagaa < 1:589081/52‑1 (MQ=255)
caaTTATGGGCGTGAAGTTTTGGGATGAGAGCGTGAAAATCCCGGCAGAAGAAGTcac > 1:964357/3‑58 (MQ=255)
caaTTATGGGCGTGAAGTTTTGGGATGAGAGCGTGAAAATCCCGGCAGAAGAAGTCACAGTACGCt > 1:796176/3‑66 (MQ=255)
caaTTATGGGCGTGAAGTTTTGGGATGAGAGCGTGAAAATCCCGGCAGAAGAAGTCACAGTACGCt > 1:1541570/3‑66 (MQ=255)
caaTTATGGGCGTGAAGTTTTGGGATGAGAGCGTGAAAATCCCGGCAGAAGAAGTCACAGTACGCt > 1:524333/3‑66 (MQ=255)
caaTTATGGGCGTGAAGTTTTGGGATGAGAGCGTGAAAATCCCGGCAGAAGAAGTCACAGTACGCt > 1:1373602/3‑66 (MQ=255)
caaTTATGGGCGTGAAGTTTTGGGATGAGAGCGTGAAAATCCCGGCAGAAGAAGTCACAGTACGCt > 1:1761053/3‑66 (MQ=255)
caaTTATGGGCGTGAAGTTTTGGGATGAGAGCGTGAAAATCCCGGCAGAAGAAGTCACAGTACGCt > 1:3353460/3‑66 (MQ=255)
caaTTATGGGCGTGAAGTTTTGGGATGAGAGCGTGAAAATCCCGGCAGAAGAAGTCACAGTACGCt > 1:3287628/3‑66 (MQ=255)
caaTTATGGGCGTGAAGTTTTGGGATGAGAGCGTGAAAATCCCGGCAGAAGAAGTCACAGTACGCt > 1:1222809/3‑66 (MQ=255)
caaTTATGGGCGTGAAGTTTTGGGATGAGAGCGTGAAAATCCCGGCAGAAGAAGTCACAGTACGCt > 1:2280217/3‑66 (MQ=255)
caaTTATGGGCGTGAAGTTTTGGGATGAGAGCGTGAAAATCCCGGCAGAAGAAGTCACAGTACGCt > 1:2609414/3‑66 (MQ=255)
caaTTATGGGCGTGAAGTTTTGGGATGAGAGCGTGAAAATCCCGGCAGAAGAAGTCACAGTACGCt > 1:2745004/3‑66 (MQ=255)
caaTTATGGGCGTGAAGTTTTGGGATGAGAGCGTGAAAATCCCGGCAGAAGAAGTCAAAGTACGCt > 1:2839413/3‑66 (MQ=255)
ttATGGGCGTGAAATTCTGGGATGAGAGCGTGAAGATCCCGGCAGAAGAAGTCACAGTACGCTTTGAAc < 1:1180909/69‑1 (MQ=255)
ttATGGGCGTGAAATTCTGGGATGAGAGCGTGAAGATCCCGGCAGAAGAAGTCACAGTACGCTTTGAAc < 1:152795/69‑1 (MQ=255)
aTGGGCGTGAAATTCTGGGATGAGAGCGTGAAGATCCCGGCAGAAGAAGTCACAGTACGCTTTGAACa < 1:901397/68‑1 (MQ=255)
aaaTTCTGGGATGAGAGCGTGAAGATCCCGGCagaaga < 1:2765929/38‑1 (MQ=255)
aaaTTCTGGGATGAGAGCGTGAAGATCCCGGCagaaga < 1:1341315/38‑1 (MQ=255)
aaaTTCTGGGATGAGAGCGTGAAGATCCCGGCagaaga < 1:1511384/38‑1 (MQ=255)
aaaTTCTGGGATGAGAGCGTGAAGATCCCGGCagaaga > 1:1564080/1‑38 (MQ=255)
aaaTTCTGGGATGAGAGCGTGAAGATCCCGGCagaaga < 1:533230/38‑1 (MQ=255)
aaaTTCTGGGATGAGAGCGTGAAGATCCCGGCagaaga > 1:1604603/1‑38 (MQ=255)
aaaTTCTGGGATGAGAGCGTGAAGATCCCGGCagaaga < 1:1759323/38‑1 (MQ=255)
aaaTTCTGGGATGAGAGCGTGAAGATCCCGGCagaaga > 1:2087630/1‑38 (MQ=255)
aaaTTCTGGGATGAGAGCGTGAAGATCCCGGCagaaga > 1:2653744/1‑38 (MQ=255)
aaaTTCTGGGATGAGAGCGTGAAGATCCCGGCagaaga > 1:2746420/1‑38 (MQ=255)
cTGGGATGAGAGCGTGAAGATCCCGGCAGAAGAAGTCACAGTACGCTTTGAACAAGGTCATCCGGTGgc > 1:1545729/1‑69 (MQ=255)
cTGGGATGAGAGCGTGAAGATCCCGGCAGAAGAAGTCACAGTACGCTTTGAACAAGGTCATCCGGTGgc > 1:343636/1‑69 (MQ=255)
cTGGGATGAGAGCGTGAAGATCCCGGCAGAAGAAGTCACAGTACGCTTTGAACAAGGTCATCCGGTGgc > 1:2247629/1‑69 (MQ=255)
cTGGGATGAGAGCGTGAAGATCCCGGCAGAAGAAGTCACAGTACGCTTTGAACAAGGTCATCCGGTGgc > 1:1185618/1‑69 (MQ=255)
cTGGGATGAGAGCGTGAAGATCCCGGCAGAAGAAGTCACAGTACGCTTTGAACAAGGTCATCCGGTGgc > 1:1056292/1‑69 (MQ=255)
|
TCTGGAATACCTCAACTCCAGCGTCAAAATCGTCAACCCGATTATGGGCGTGAAATTCTGGGATGAGAGCGTGAAGATCCCGGCAGAAGAAGTCACAGTACGCTTTGAACAAGGTCATCCGGTGGC > minE/2144347‑2144472
|
| 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
