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 |
1,341,659 |
T→A |
100% |
T115T (ACA→ACT) |
wcaA ← |
predicted glycosyl transferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,341,659 | 0 | T | A | 77.2%
| 54.7
/ 12.8
| 35 | T115T (ACA→ACT) | wcaA | predicted glycosyl transferase |
| Reads supporting (aligned to +/- strand): ref base T (7/1); new base A (19/8); total (26/9) |
| Fisher's exact test for biased strand distribution p-value = 6.48e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.83e-01 |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
CTTCGCCCTGGCAAACGTAGTCGTTAGCGTACAAAAAGGCGTGTGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATTCGTC > minE/1341616‑1341718
|
cTTCGCCCTGGCAAACGTAGTCGTTAGCGTACAAAAAGGCGTGTGTGACCAGTTGCTGTTTATGGGCg > 1:111669/1‑68 (MQ=255)
cTTCGCCCTGGCAAACGTAGTCGTTAGCGTACAAAAAGGCGTGTGTGACCAGTTGCTGTTTATGGGCg > 1:2488445/1‑68 (MQ=255)
cTTCGCCCTGGCAAACGTAGTCGTTAGCGTACAAAAAGGCGTGTGTGACCAGTTGCTGTTTATGGGCg > 1:295009/1‑68 (MQ=255)
gCAAACGTAGTCGTTAGCGTACAAAAAGGCGTGTGTGACCAGTTGCTGTTTATGGGCGAGGAAGACg > 1:1522388/1‑67 (MQ=255)
gCAAACGTAGTCGTTAGCGTACAAAAAGGCGTGTGTGACCAGTTGCTGTTTATGGGCGAGGAAGACg > 1:2262721/1‑67 (MQ=255)
gCAAACGTAGTCGTTAGCGTACAAAAAGGCGTGTGTGACCAGTTGCTGTTTATGGGCGAGGAAGACg > 1:2364468/1‑67 (MQ=255)
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGtt > 1:1371967/1‑67 (MQ=255)
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTgg > 1:935436/1‑69 (MQ=255)
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTgg > 1:347257/1‑69 (MQ=255)
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTgg > 1:3411165/1‑69 (MQ=255)
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTgg > 1:3242030/1‑69 (MQ=255)
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTgg > 1:314112/1‑69 (MQ=255)
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTgg > 1:2988958/1‑69 (MQ=255)
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTgg > 1:960683/1‑69 (MQ=255)
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTgg > 1:2897721/1‑69 (MQ=255)
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTgg > 1:2895094/1‑69 (MQ=255)
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTgg > 1:2679188/1‑69 (MQ=255)
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTgg > 1:989384/1‑69 (MQ=255)
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTgg > 1:1447229/1‑69 (MQ=255)
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTgg > 1:1699186/1‑69 (MQ=255)
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTgg > 1:2035548/1‑69 (MQ=255)
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTgg > 1:2034128/1‑69 (MQ=255)
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTg > 1:347211/1‑68 (MQ=255)
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTAgg > 1:2452965/1‑69 (MQ=255)
cGTTAGCGTACAAAAAGCCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTgg > 1:2587561/1‑69 (MQ=255)
gTACAAAAAGGCGTGTGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGGGTCCa < 1:2523805/69‑1 (MQ=255)
gTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTGGGTGTcc < 1:3197606/68‑1 (MQ=255)
gTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTGGGTGTcc < 1:12258/68‑1 (MQ=255)
gTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTGGGTGTcc < 1:145253/68‑1 (MQ=255)
gTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTGGGTGTcc < 1:2636382/68‑1 (MQ=255)
gTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTGGGTGTcc < 1:2372719/68‑1 (MQ=255)
gTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTGGGTGTcc < 1:2646389/68‑1 (MQ=255)
gTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTACGGGCGAGGAAGACGCTCAGGCGGTTGGGTGTcc < 1:36516/68‑1 (MQ=255)
cAAAAAGGCGTGTGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATtc > 1:2969983/1‑69 (MQ=255)
ggCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTGGGTGTcc < 1:2886680/59‑1 (MQ=255)
tgtgtgACCAGTTGCTGTTTATTGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATtcgt > 1:630451/1‑61 (MQ=255)
tgtgtgACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTTTCCATtcgtc > 1:452599/1‑62 (MQ=255)
tgtgtgACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATtcgtc > 1:1011528/1‑62 (MQ=255)
tgtgtgACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATtcgtc > 1:972908/1‑62 (MQ=255)
tgtgtgACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATtcgtc > 1:2712766/1‑62 (MQ=255)
tgtgtgACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATtcgtc > 1:3386243/1‑62 (MQ=255)
tgtgtgACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATtcgtc > 1:3357022/1‑62 (MQ=255)
tgtgtgACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATtcgtc > 1:2300057/1‑62 (MQ=255)
tgtgtgACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATtcgtc > 1:1815452/1‑62 (MQ=255)
tgtgtgACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATtcgtc > 1:3087243/1‑62 (MQ=255)
tgtgtgACCAGTTGCTGTTTATGGGCGAGGAAGACGATCAGACGGTTGGGAGTCCATtcgtc > 1:165489/1‑62 (MQ=255)
|
CTTCGCCCTGGCAAACGTAGTCGTTAGCGTACAAAAAGGCGTGTGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATTCGTC > minE/1341616‑1341718
|
| 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
