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 |
1,390,648 |
C→T |
36.6% |
L260L (CTC→CTT) |
nfo → |
endonuclease IV with intrinsic 3'‑5' exonuclease activity |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,390,648 | 0 | C | T | 36.6%
| 58.2
/ 53.4
| 90 | L260L (CTC→CTT) | nfo | endonuclease IV with intrinsic 3'‑5' exonuclease activity |
| Reads supporting (aligned to +/- strand): ref base C (24/33); new base T (14/19); total (38/52) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.29e-01 |
TATCGGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAAGAGATCGCCTGGCTGAAAGCGCAACAA > minE/1390582‑1390705
|
tatCGGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGGATTCCGCTGATCCTCGa < 1:3178853/69‑1 (MQ=255)
atCGGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTTGaa < 1:1720886/69‑1 (MQ=255)
atCGGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTTGaa < 1:87606/69‑1 (MQ=255)
atCGGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTTGaa < 1:2352895/69‑1 (MQ=255)
atCGGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTTGaa < 1:2375357/69‑1 (MQ=255)
atCGGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTTGaa < 1:2093202/69‑1 (MQ=255)
atCGGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTTGaa < 1:206836/69‑1 (MQ=255)
atCGGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTTGaa < 1:2518815/69‑1 (MQ=255)
atCGGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTTGaa < 1:1947427/69‑1 (MQ=255)
atCGGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTTGaa < 1:2667012/69‑1 (MQ=255)
atCGGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTTGaa < 1:1820829/69‑1 (MQ=255)
atCGGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTTGaa < 1:1775744/69‑1 (MQ=255)
atCGGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTTGaa < 1:3099730/69‑1 (MQ=255)
atCGGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTTGaa < 1:1403373/69‑1 (MQ=255)
atCGGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTTGaa < 1:3425898/69‑1 (MQ=255)
atCGGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTTGaa < 1:3177025/69‑1 (MQ=255)
atCGGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGa < 1:3111002/68‑1 (MQ=255)
atCCGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTTGaa < 1:417422/69‑1 (MQ=255)
tCGGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGaa > 1:2997190/1‑68 (MQ=255)
tCGGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGaa > 1:2461240/1‑68 (MQ=255)
tCGGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGaa > 1:1985528/1‑68 (MQ=255)
gCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCg < 1:1956191/69‑1 (MQ=255)
gCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCg < 1:320417/69‑1 (MQ=255)
gCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCg < 1:1203382/69‑1 (MQ=255)
gCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCg < 1:2924243/69‑1 (MQ=255)
gCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCg < 1:1928741/69‑1 (MQ=255)
gCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCg < 1:1735084/69‑1 (MQ=255)
gCGTTCAGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCg < 1:1133912/69‑1 (MQ=255)
cGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCAGATCCTCGAAACCATCAACCCg > 1:2917577/1‑68 (MQ=255)
tCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTTGaa < 1:2048927/53‑1 (MQ=255)
ccGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGatat > 1:2716616/1‑69 (MQ=255)
ccGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGatat > 1:1200291/1‑69 (MQ=255)
ccGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGatat > 1:1647533/1‑69 (MQ=255)
gCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATc < 1:492224/68‑1 (MQ=255)
gCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATc < 1:3129091/68‑1 (MQ=255)
gCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATc < 1:776025/68‑1 (MQ=255)
gCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATc < 1:777913/68‑1 (MQ=255)
gCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATc < 1:1356256/68‑1 (MQ=255)
gCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATc < 1:1936034/68‑1 (MQ=255)
gCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATc < 1:1467917/68‑1 (MQ=255)
tCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGc > 1:832425/1‑67 (MQ=255)
aTGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTTGaa < 1:856396/42‑1 (MQ=255)
ctaGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAagag < 1:46833/67‑1 (MQ=255)
cAAGACGACCGTTTCGACGGCATTCCGCTGATCCTTGaa < 1:810947/39‑1 (MQ=255)
cAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAagag < 1:2303453/69‑1 (MQ=255)
cAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAagag < 1:1031683/69‑1 (MQ=255)
cAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAagag < 1:1002243/69‑1 (MQ=255)
cAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAagag < 1:3256440/69‑1 (MQ=255)
cAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAagag < 1:985693/69‑1 (MQ=255)
cAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAagag < 1:975239/69‑1 (MQ=255)
cAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAagag < 1:2281445/69‑1 (MQ=255)
cAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAagag < 1:559389/69‑1 (MQ=255)
cAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAagag < 1:890314/69‑1 (MQ=255)
cAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAagag < 1:1895662/69‑1 (MQ=255)
cAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAagag < 1:247643/69‑1 (MQ=255)
cAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAagag < 1:2060035/69‑1 (MQ=255)
cAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAagag < 1:2149466/69‑1 (MQ=255)
acgacCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCa > 1:2700974/1‑42 (MQ=255)
acgacCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAAGAGATc > 1:1192603/1‑68 (MQ=255)
acgacCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAAGAGATCg > 1:1622850/1‑69 (MQ=255)
acgacCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAAGAGATCg > 1:477550/1‑69 (MQ=255)
acgacCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAAGAGATCg > 1:1275796/1‑69 (MQ=255)
acgacCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAAGAGATCg > 1:2126590/1‑69 (MQ=255)
acgacCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAAGAGATCg > 1:428858/1‑69 (MQ=255)
acgacCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAAGAGATCg > 1:1062696/1‑69 (MQ=255)
cGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAagag < 1:422347/60‑1 (MQ=255)
tCGACGGCATTCCGCTGATCCTTGAAACCATCAACCCGGatat > 1:1418956/1‑43 (MQ=255)
tCGACGGCATTCCGCTGATCCTTGAAACCATCAACCCGGATATCTGGGCAGAAGAGATCGCCTGGCt > 1:678145/1‑67 (MQ=255)
tCGACGGCATTCCGCTGATCCTTGAAACCATCAACCCGGATATCTGGGCAGAAGAGATCGCCTGGCt > 1:763742/1‑67 (MQ=255)
tCGACGGCATTCCGCTGATCCTTGAAACCATCAACCCGGATATCTGGGCAGAAGAGATCGCCTGGCt > 1:971665/1‑67 (MQ=255)
tCGACGGCATTCCGCTGATCCTTGAAACCATCAACCCGGATATCTGGGCAGAAGAGATCGCCTGGCt > 1:778409/1‑67 (MQ=255)
tCGACGGCATTCCGCTGATCCTTGAAACCATCAACCCGGATATCTGGGCAGAAGAGATCGCCTGGCt > 1:88409/1‑67 (MQ=255)
tCGACGGCATTCCGCTGATCCTTGAAACCATCAACCCGGATATCTGGGCAGAAGAGATCGCCTGGCt > 1:991324/1‑67 (MQ=255)
tCGACGGCATTCCGCTGATCCTTGAAACCATCAACCCGGATATCTGGGCAGAAGAGATCGCCTGGCt > 1:126468/1‑67 (MQ=255)
tCGACGGCATTCCGCTGATCCTTGAAACCATCAACCCGGATATCTGGGCAGAAGAGATCGCCTGGCt > 1:2924747/1‑67 (MQ=255)
tCGACGGCATTCCGCTGATCCTTGAAACCATCAACCCGGATATCTGGGCAGAAGAGATCGCCTGGCt > 1:2499878/1‑67 (MQ=255)
tCGACGGCATTCCGCTGATCCTTGAAACCATCAACCCGGATATCTGGGCAGAAGAGATCGCCTGGCt > 1:2416738/1‑67 (MQ=255)
tCGACGGCATTCCGCTGATCCTTGAAACCATCAACCCGGATATCTGGGCAGAAGAGATCGCCTGGCt > 1:2240032/1‑67 (MQ=255)
tCGACGGCATTCCGCTGATCCTTGAAACCATCAACCCGGATATCTGGGCAGAAGAGATCGCCTGGCt > 1:1998527/1‑67 (MQ=255)
tCGACGGCATTCCGCTGATCCTTGAAACCATCAACCCGGATATCTGGGCAGAAGAGATCACCTGGCt > 1:3363824/1‑67 (MQ=255)
tCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAAGAGATCGCCTGGCTGa < 1:2516321/69‑1 (MQ=255)
gCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAAGAGATCGCCTGGCTGAAAgcgc > 1:2850813/1‑69 (MQ=255)
ccGCTGATCCTCGAAACCATCAACCCGGATATCTTGGCAGAAGAGATCGCCTGGCTGAAAGCGcaacaa > 1:1292515/1‑69 (MQ=255)
ccGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAAGAGATCGCCTGGCTGAAAGCGcaacaa > 1:1138284/1‑69 (MQ=255)
ccGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAAGAGATCGCCTGGCTGAAAGCGcaacaa > 1:443864/1‑69 (MQ=255)
ccGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAAGAGATCGCCTGGCTGAAAGCGcaacaa > 1:1571974/1‑69 (MQ=255)
ccGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAAGAGATCGCCTGGCTGAAAGCGcaacaa > 1:1807673/1‑69 (MQ=255)
ccGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAAGAGATCGCCTGGCTGAAAGCGcaacaa > 1:3406712/1‑69 (MQ=255)
ccGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAAGAGATCGCCTGGCTGAAAGCGcaacaa > 1:379212/1‑69 (MQ=255)
gATCCTCGAAACCATCAACCCGGATATCTGGGCAGAagag < 1:984449/40‑1 (MQ=255)
|
TATCGGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAAGAGATCGCCTGGCTGAAAGCGCAACAA > minE/1390582‑1390705
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
