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 |
709,461 |
T→A |
41.3% |
A138A (GCA→GCT) |
yceJ ← |
predicted cytochrome b561 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 709,461 | 0 | T | A | 41.3%
| 19.4
/ 43.9
| 46 | A138A (GCA→GCT) | yceJ | predicted cytochrome b561 |
| Reads supporting (aligned to +/- strand): ref base T (10/17); new base A (6/13); total (16/30) |
| Fisher's exact test for biased strand distribution p-value = 7.62e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AATCCGTGCATAACGGACAGTACTACGACGCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCTGCCTGTGCGCCAGCGTCGGCAAGGGTCGCGGGGACGTCAAACCAGCCAAAAACGCTGATCGGTTTACC > minE/709393‑709529
|
aaTCCGTGCATAACGGACAGTACTACGACGCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCt > 1:1447252/1‑69 (MQ=255)
ccGTGCATAACGGACAGTACTACGACGCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCTGcc > 1:1179173/1‑69 (MQ=255)
ccGTGCATAACGGACAGTACTACGACGCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCTGcc > 1:2625744/1‑69 (MQ=255)
ccGTGCATAACGGACAGTACTACGACGCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCTGcc > 1:702801/1‑69 (MQ=255)
tAACGGACAGTACTACAACGCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCAGCCTGTgcg < 1:958061/68‑1 (MQ=255)
tAACGGACAGTACTACAACGCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCAGCCTGTgcg < 1:1245504/68‑1 (MQ=255)
tAACGGACAGTACTACAACGCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCAGCCTGTgcg < 1:3068394/68‑1 (MQ=255)
tAACGGACAGTACTACAACGCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCAGCCTGTgcg < 1:3051126/68‑1 (MQ=255)
tAACGGACAGTACTACAACGCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCAGCCTGTgcg < 1:1102905/68‑1 (MQ=255)
tAACGGACAGTACTACAACGCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCAGCCTGTgcg < 1:2967476/68‑1 (MQ=255)
tAACGGACAGTACTACAACGCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCAGCCTGTgcg < 1:2751189/68‑1 (MQ=255)
tAACGGACAGTACTACAACGCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCAGCCTGTgcg < 1:2701216/68‑1 (MQ=255)
tAACGGACAGTACTACAACGCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCAGCCTGTgcg < 1:1822345/68‑1 (MQ=255)
tAACGGACAGTACTACAACGCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCAGCCTGTgcg < 1:2461190/68‑1 (MQ=255)
tAACGGACAGTACTACAACGCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCAGCCTGTgcg < 1:2443049/68‑1 (MQ=255)
tAACGGACAGTACTACAACGCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCAGCCTGTgcg < 1:2290649/68‑1 (MQ=255)
aaCGGACAGTACTACAACGCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCAGCCTGTgcg < 1:700334/67‑1 (MQ=255)
aGTACTACGACGCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCTTCCTGTGCGCCAGCGTCg < 1:962457/69‑1 (MQ=255)
aGTACTACGACGCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCTGCCTGTGCGCCAGCGTCg < 1:74133/69‑1 (MQ=255)
aGTACTACGACGCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCTGCCTGTGCGCCAGCGTCg < 1:1731318/69‑1 (MQ=255)
aGTACTACGACGCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCTGCCTGTGCGCCAGCGTCg < 1:2934752/69‑1 (MQ=255)
gTACTACGACGCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCTGCCTGTGCGCCAGCGTCg < 1:2029164/68‑1 (MQ=255)
gTACTACGACGCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCTGCCTGTGCGCCAGCGTCg < 1:1298941/68‑1 (MQ=255)
acgacgCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCTGCCTGTGCGCCAGCGTCGGCATgg > 1:353620/1‑69 (MQ=255)
acgacgCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCTGCCTGTGCGCCAGCGTCGGCAAgg > 1:637707/1‑69 (MQ=255)
acgacgCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCTGCCTGTGCGCCAGCGTCGGCAAgg > 1:1473962/1‑69 (MQ=255)
acgacgCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCTGCCTGTGCGCCAGCGTCGGCAAgg > 1:575131/1‑69 (MQ=255)
acgacgCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCTGCCTGTGCGCCAGCGTCGGCAAgg > 1:3279562/1‑69 (MQ=255)
cgCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCAGCCTGTGCGCCAGCGTCGGAGAGGATcg > 1:2244246/1‑69 (MQ=255)
cgCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCAGCCTGTGCGCCAGCGTCGGAGAGGATcg > 1:724456/1‑69 (MQ=255)
cgCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCAGCCTGTGCGCCAGCGTCGGAGAGGATcg > 1:1348251/1‑69 (MQ=255)
cgCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCAGCCTGTGCGCCAGCGTCGGAGAGGATcg > 1:623123/1‑69 (MQ=255)
cgCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCAGCCTGTGCGCCAGCGTCGGAGAGGATcg > 1:3415028/1‑69 (MQ=255)
cgCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCAGCCTGTGCGCCAGCGTCGGAGAGGATcg > 1:2678647/1‑69 (MQ=255)
aGCCAAAAATGCAGGGCACCGGCAAAGTCTGCCTGTGCGCCAGCGTCGGCAAGGGTCGCGGGGACGTCa < 1:126850/69‑1 (MQ=255)
ggCACCGGCAAAGTCTGCCTGTGCTCCAGCGTCGGCAAGGGTCGCGGGGACGTCAAACCAGCCAAAAAc < 1:1690657/69‑1 (MQ=255)
ggCACCGGCAAAGTCTGCCTGTGCGCCAGCGTCGGCAAGGGTCGCGGGGACGTCAAACCAGCCAAAAAc < 1:3091128/69‑1 (MQ=255)
ggCACCGGCAAAGTCTGCCTGTGCGCCAGCGTCGGCAAGGGTCGCGGGGACGTCAAACCAGCCAAAAAc < 1:3425659/69‑1 (MQ=255)
ggCACCGGCAAAGTCTGCCTGTGCGCCAGCGTCGGCAAGGGTCGCGGGGACGTCAAACCAGCCAAAAAc < 1:1414987/69‑1 (MQ=255)
ggCACCGGCAAAGTCTGCCTGTGCGCCAGCGTCGGCAAGGGTCGCGGGGACGTCAAACCAGCCAAAAAc < 1:672129/69‑1 (MQ=255)
ggCACCGGCAAAGTCTGCCTGTGCGCCAGCGTCGGCAAGGGTCGCGGGGACGTCAAACCAGCCAAAAAc < 1:2648935/69‑1 (MQ=255)
ggCACCGGCAAAGTCTGCCTGTGCGCCAGCGTCGGCAAGGGTCGCGGGGACGTCAAACCAGCCAAAAAc < 1:2641088/69‑1 (MQ=255)
ggCACCGGCAAAGTCTGCCTGTGCGCCAGCGTCGGCAAGGGTCGCGGGGACGTCAAACCAGCCAAAAAc < 1:2367157/69‑1 (MQ=255)
ggCACCGGCAAAGTCTGCCTGTGCGCCAGCGTCGGCAAGGGTCGCGGGGACGTCAAACCAGCCAAAAAc < 1:787343/69‑1 (MQ=255)
ggCACCGGCAAAGTCTGCCTGTGCGCCAGCGTCGGCAAGGGTCGCGGGGACGTCAAACCAGCCAAAAAc < 1:834216/69‑1 (MQ=255)
gCACCGGCAAAGTCTGCCTGTGCGCCAGCGTCGGCAAGGGTCGCGGGGACGTCAAACCCGCCAAAAACg > 1:1195024/1‑69 (MQ=255)
gCACCGGCAAAGTCTGCCTGTGCGCCAGCGTCGGCAAGGGTCGCGGGGACGTCAAACCAGCCAAAAACg > 1:1851820/1‑69 (MQ=255)
tGCCTGTGCGCCAGCGTCGGCAAGGGTCGCGGGGACGTCAAACCAGCCAAAACCGCTGATCGGTTTAcc > 1:14251/1‑69 (MQ=255)
|
AATCCGTGCATAACGGACAGTACTACGACGCTCCACGCGAGCCAAAAATGCAGGGCACCGGCAAAGTCTGCCTGTGCGCCAGCGTCGGCAAGGGTCGCGGGGACGTCAAACCAGCCAAAAACGCTGATCGGTTTACC > minE/709393‑709529
|
| 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
