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 |
2,489,400 |
A→G |
53.7% |
A133A (GCA→GCG) |
dnaN → |
DNA polymerase III, beta subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,489,400 | 0 | A | G | 53.7%
| 5.3
/ 43.0
| 54 | A133A (GCA→GCG) | dnaN | DNA polymerase III, beta subunit |
| Reads supporting (aligned to +/- strand): ref base A (14/11); new base G (9/20); total (23/31) |
| Fisher's exact test for biased strand distribution p-value = 9.79e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCCAGCGGCGGATTTCCCGAACCTCGATGACTGGCAGAGTGAAGTCGAATTTACCCTGCCGCAGGCAACGATGAAGCGTCTGATTGAAGCGACCCAGTTTTCTATGGCGCATCAGGACGTTCGCTATTACTTA > minE/2489334‑2489466
|
gCCAGCGGCGGATTTCCCGAACCTCGATGACTGGCAGAGTGAAGTCGAATTTACCCTGCCGCAGGCAAc < 1:3195787/69‑1 (MQ=255)
ggcggATTTCCCGAACCTCGATGACTGGCAGAGTGAAGTCGAATTTACCCTGCCGCAGGCAAc > 1:3138873/1‑63 (MQ=255)
ggcggATTTCCCGAACCTCGATGACTGGCAGAGTGAAGTCGAATTTACCCTGCCGCAGGCAACg > 1:1084966/1‑64 (MQ=255)
ggcggATTTCCCGAACCTCGATGACTGGCAGAGTGAAGTCGAATTTACCCTGCCGCAGGCAACg > 1:2581062/1‑64 (MQ=255)
ggcggATTTCCCGAACCTCGATGACTGGCAGAGTGAAGTCGAATTTACCCTGCCGCAGGCAACg > 1:30521/1‑64 (MQ=255)
ggcggATTTCCCGAACCTCGATGACTGGCAGAGTGAAGTCGAATTTACCCTGCCGCAGGCAACg > 1:511931/1‑64 (MQ=255)
ggcggATTTCCCGAACCTCGATGACTGGCAGAGTGAAGTCGAATTTACCCTGCCGCAGGCAACg > 1:2085746/1‑64 (MQ=255)
ggcggATTTCCCGAACCTCGATGACTGGCAGAGTGAAGTCGAATTTACCCTGCCGCAGGCAACg > 1:3154334/1‑64 (MQ=255)
ggcggATTTCCCGAACCTCGATGACTGGCAGAGTGAAGTCGAATTTACCCTGCCGCAGGCAACg > 1:3410053/1‑64 (MQ=255)
ggcggATTTCCCGAACCTCGATGACTGGCAGAGTGAAGTCGAATTTACCCTGCCGCAGGCAACg > 1:1989944/1‑64 (MQ=255)
cccGAACCTCGATGACTGGCAGAGCGAAGTCTAATTTACCCTGCCGCAGGCGACg < 1:1867562/55‑1 (MQ=255)
cccGAACCTCGATGACTGGCAGAGCGAAGTCGAATTTACTCTGCCGCAGGCGACg < 1:2886170/55‑1 (MQ=255)
cccGAACCTCGATGACTGGCAGAGCGAAGTCGAATTTACCCTGCCGCAGGCGACg < 1:1111838/55‑1 (MQ=255)
cccGAACCTCGATGACTGGCAGAGCGAAGTCGAATTTACCCTGCCGCAGGCGACg < 1:3183954/55‑1 (MQ=255)
cccGAACCTCGATGACTGGCAGAGCGAAGTCGAATTTACCCTGCCGCAGGCGACg < 1:354115/55‑1 (MQ=255)
cccGAACCTCGATGACTGGCAGAGCGAAGTCGAATTTACCCTGCCGCAGGCGACg < 1:357813/55‑1 (MQ=255)
cccGAACCTCGATGACTGGCAGAGCGAAGTCGAATTTACCCTGCCGCAGGCGACg < 1:478584/55‑1 (MQ=255)
cccGAACCTCGATGACTGGCAGAGCGAAGTCGAATTTACCCTGCCGCAGGCGACg < 1:593913/55‑1 (MQ=255)
cccGAACCTCGATGACTGGCAGAGCGAAGTCGAATTTACCCTGCCGCAGGCGACg < 1:3028224/55‑1 (MQ=255)
cccGAACCTCGATGACTGGCAGAGCGAAGTCGAATTTACCCTGCCGCAGGCGACg < 1:2956978/55‑1 (MQ=255)
cccGAACCTCGATGACTGGCAGAGCGAAGTCGAATTTACCCTGCCGCAGGCGACg < 1:626178/55‑1 (MQ=255)
cccGAACCTCGATGACTGGCAGAGCGAAGTCGAATTTACCCTGCCGCAGGCGACg < 1:2547695/55‑1 (MQ=255)
cccGAACCTCGATGACTGGCAGAGCGAAGTCGAATTTACCCTGCCGCAGGCGACg < 1:1732976/55‑1 (MQ=255)
cccGAACCTCGATGACTGGCAGAGCGAAGTCGAATTTACCCTGCCGCAGGCGACg < 1:1706029/55‑1 (MQ=255)
cccGAACCTCGATGACTGGCAGAGCGAAGTCGAATTTACCCTGCCGCAGGCGACg < 1:1767769/55‑1 (MQ=255)
cccGAACCTCGATGACTGGCAGAGCGAAGTCGAATTTACCCTGCCGCAGGCGACg < 1:2033373/55‑1 (MQ=255)
cccGAACCTCGATGACTGGCAGAGCGAAGTCGAATTTACCCTGCCGCAGGCGACg < 1:2428376/55‑1 (MQ=255)
cccGAACCTCGATGACTGGCAGAGCGAAGTCGAATTTACCCTGCCGCAGGCGACg < 1:1383751/55‑1 (MQ=255)
cccGAACCTCGATGACTGGCAGAGCGAAGTCGAATTTACCCTGCCGCAGGCGACg < 1:2314188/55‑1 (MQ=255)
cccGAACCTCGATGACTGGCAGAGCGAAGTCGAATTTACCCTGCCGCAGGCGACg < 1:2101370/55‑1 (MQ=255)
tGGCAGAGTGAAGTCGAATTTACCCTGCCGCAGGCAACGATGAAGCGTCTGATTGAAGCGACCCAGttt > 1:434489/1‑69 (MQ=255)
tGGCAGAGTGAAGTCGAATTTACCCTGCCGCAGGCAACGATGAAGCGTCTGATTGAAGCGACCCAGttt > 1:998194/1‑69 (MQ=255)
gTGAAGTCGAATTTACCCTGCCGCAGGCAACGATGAAGCGTCTGATTGAAGCGACCCAGTTTTCTATgg > 1:800683/1‑69 (MQ=255)
gTGAAGTCGAATTTACCCTGCCGCAGGCAACGATGAAGCGTCTGATTGAAGCGACCCAGTTTTCTATgg > 1:3243445/1‑69 (MQ=255)
gAATTTACCCTGCCGCAGGCAACGATGAAGCGTCTg > 1:200591/1‑36 (MQ=255)
ttACCCTGCCGCAGGCAACGATGAAGCGTCTGATTGAAGCGACCCAGTTTTCTATGGCGCATCAGGACg < 1:2495846/69‑1 (MQ=255)
ttACCCTGCCGCAGGCAACGATGAAGCGTCTGATTGAAGCGACCCAGTTTTCTATGGCGCATCAGGACg < 1:1320146/69‑1 (MQ=255)
ttACCCTGCCGCAGGCAACGATGAAGCGTCTGATTGAAGCGACCCAGTTTTCTATGGCGCATCAGGACg < 1:358806/69‑1 (MQ=255)
ttACCCTGCCGCAGGCAACGATGAAGCGTCTGATTGAAGCGACCCAGTTTTCTATGGCGCATCAGGACg < 1:1411766/69‑1 (MQ=255)
ttACCCTGCCGCAGGCAACGATGAAGCGTCTGATTGAAGCGACCCAGTTTTCTATGGCGCATCAGGACg < 1:98546/69‑1 (MQ=255)
ttACCCTGCCGCAGGCAACGATGAAGCGTCTGATTGAAGCGACCCAGTTTTCTATGGCGCATCAGGACg < 1:3080734/69‑1 (MQ=255)
ttACCCTGCCGCAGGCAACGATGAAGCGTCTGATTGAAGCGACCCAGTTTTCTATGGCGCATCAGGACg < 1:2855350/69‑1 (MQ=255)
cTGCCGCAGGCAACGATGAAGCGTCTGATTGAAGCGACCCAGTTTTCTATGGCGCATCAGGACGTTCGc < 1:2880675/69‑1 (MQ=255)
cTGCCGCAGGCAACGATGAAGCGTCTGAGTGAAGCGACCCAGTTTTCTATGGCGCATCAGGACGTTCGc < 1:2975771/69‑1 (MQ=255)
tGCCGCAGGCGACGATGAAGCGTCTGATTGAAGCGACCCAGTTTTCTATGGCGCATCAGGACGTTCGCt > 1:3350707/1‑69 (MQ=255)
tGCCGCAGGCGACGATGAAGCGTCTGATTGAAGCGACCCAGTTTTCTATGGCGCATCAGGACGTTCGCt > 1:1770468/1‑69 (MQ=255)
tGCCGCAGGCGACGATGAAGCGTCTGATTGAAGCGACCCAGTTTTCTATGGCGCATCAGGACGTTCGCt > 1:369288/1‑69 (MQ=255)
tGCCGCAGGCGACGATGAAGCGTCTGATTGAAGCGACCCAGTTTTCTATGGCGCATCAGGACGTTCGCt > 1:493261/1‑69 (MQ=255)
tGCCGCAGGCGACGATGAAGCGTCTGATTGAAGCGACCCAGTTTTCTATGGCGCATCAGGACGTTCGCt > 1:1364224/1‑69 (MQ=255)
tGCCGCAGGCGACGATGAAGCGTCTGATTGAAGCGACCCAGTTTTCTATGGCGCATCAGGACGTTCGCt > 1:2436019/1‑69 (MQ=255)
tGCCGCAGGCGACGATGAAGCGTCTGATTGAAGCGACCCAGTTTTCTATGGCGCATCAGGACGTTCGCt > 1:1253881/1‑69 (MQ=255)
tGCCGCAGGCGACGATGAAGCGTCTGATTGAAGCGACCCAGTTTTCTATGGCGCATCAGGACGTTCGCt > 1:766978/1‑69 (MQ=255)
tGCCGCAGGCGACGATGAAGCGTCTGATTGAAGCGACCCAGTTTTCTATGGCGCATCAGGACGTTCGCt > 1:250340/1‑69 (MQ=255)
gCAACGATGAAGCGTCTGATTGAAGCGACCCAGTTTTCTATGGTGCATCAGGACGTTCGCTATTACTTa < 1:3252754/69‑1 (MQ=255)
|
GCCAGCGGCGGATTTCCCGAACCTCGATGACTGGCAGAGTGAAGTCGAATTTACCCTGCCGCAGGCAACGATGAAGCGTCTGATTGAAGCGACCCAGTTTTCTATGGCGCATCAGGACGTTCGCTATTACTTA > minE/2489334‑2489466
|
| 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
