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 |
1,717,162 |
G→C |
32.1% |
V344V (GTC→GTG) |
glyA ← |
serine hydroxymethyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,717,162 | 0 | G | C | 32.1%
| 58.1
/ 38.8
| 56 | V344V (GTC→GTG) | glyA | serine hydroxymethyltransferase |
| Reads supporting (aligned to +/- strand): ref base G (23/15); new base C (10/8); total (33/23) |
| Fisher's exact test for biased strand distribution p-value = 7.77e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.83e-01 |
CCTACACGAATACCGGAGGTCACAAACGGGCTCTTCGGATCGTTCGGTACGCTGTTTTTGTTGACGGTGATGTTAGCACGGCCCAGAGCGGCGTCTGCTTCTTTACCGGTCAGGTTTTT > minE/1717100‑1717218
|
ccTACACGAATACCGGAGGTCACAAACGGGCTCTTCGGATCGTTCGGTACGCTGTTTTTGTTGACGGTg > 1:1008408/1‑69 (MQ=255)
ccTACACGAATACCGGAGGTCACAAACGGGCTCTTCGGATCGTTCGGTACGCTGTTTTTGTTGACGGTg > 1:3225685/1‑69 (MQ=255)
cGAATACCGGAGGTCACAAACGGGCTCTTCGGATCGTTCGGTACGCTGTTTTTGTTGACGGt > 1:3414892/1‑62 (MQ=255)
ccGGAGGTCACAAACGGGCTCTTCGGATCGTTCGGTACGCTGTTTTTGTTGACGGTGATGTTAGCACgg > 1:3193094/1‑69 (MQ=255)
ccGGAGGTCACAAACGGGCTCTTCGGATCGTTCGGTACGCTGTTTTTGTTGACGGTGATGTTAGCACgg > 1:2171560/1‑69 (MQ=255)
ccGGAGGTCACAAACGGGCTCTTCGGATCGTTCGGTACGCTGTTTTTGTTGACGGTGATGTTAGCACgg > 1:2421611/1‑69 (MQ=255)
ccGGAGGTCACAAACGGGCTCTTCGGATCGTTCGGTACGCTGTTTTTGTTGACGGTGATGTTAGCACgg > 1:1856404/1‑69 (MQ=255)
ccGGAGGTCACAAACGGGCTCTTCGGATCGTTCGGTACGCTGTTTTTGTTGACGGTGATGTTAGCACgg > 1:2598089/1‑69 (MQ=255)
ccGGAGGTCACAAACGGGCTCTTCGGATCGTTCGGTACGCTGTTTTTGTTGACGGTGATGTTAGCACgg > 1:2694814/1‑69 (MQ=255)
ccGGAGGTCACAAACGGGCTCTTCGGATCGTTCGGTACGCTGTTTTTGTTGACGGTGATGTTAGCACgg > 1:2628992/1‑69 (MQ=255)
ccGGAGGTCACAAACGGGCTCTTCGGATCGTTCGGTACGCTGTTTTTGTTGACGGTGATGATAGCACgg > 1:2451306/1‑69 (MQ=255)
cGGAAGTCACAAACGGGCTCTTCGGATCGTTCGGTACGCTGTTTTTGTTCACGGTGATGTTAGCACgg > 1:2862560/1‑68 (MQ=255)
cGGAAGTCACAAACGGGCTCTTCGGATCGTTCGGTACGCTGTTTTTGTTCACGGTGATGTTAGCACgg > 1:2256369/1‑68 (MQ=255)
cGGAAGTCACAAACGGGCTCTTCGGATCGTTCGGTACGCTGTTTTTGTTCACGGTGATGTTAGCACgg > 1:2298169/1‑68 (MQ=255)
cGGAAGTCACAAACGGGCTCTTCGGATCGTTCGGTACGCTGTTTTTGTTCACGGTGATGTTAGCACgg > 1:1965979/1‑68 (MQ=255)
cGGAAGTCACAAACGGGCTCTTCGGATCGTTCGGTACGCTGTTTTTGTTCACGGTGATGTTAGCACgg > 1:2705520/1‑68 (MQ=255)
cGGAAGTCACAAACGGGCTCTTCGGATCGTTCGGTACGCTGTTTTTGTTCACGGTGATGTTAGCACgg > 1:2911322/1‑68 (MQ=255)
cGGAAGTCACAAACGGGCTCTTCGGATCGTTCGGTACGCTGTTTTTGTTCACGGTGATGTTAGCACgg > 1:155033/1‑68 (MQ=255)
cGGAAGTCACAAACGGGCTCTTCGGATCGTTCGGTACGCTGTTTTTGTTCACGGTGATGTTAGCACgg > 1:3014683/1‑68 (MQ=255)
cGGAAGTCACAAACGGGCTCTTCGGATCGTTCGGTACGCTGTTTTTGTTCACGGTGATGTTAGCACgg > 1:536300/1‑68 (MQ=255)
cGGAAGTCACAAACGGGCTCTTCGGATCGTTCGGTACGCTGTTTTTGTTCACGGTGATGTTAGCACgg > 1:1016895/1‑68 (MQ=255)
cacaAACGGGCTCTTCGGATCGTTCGGTACGCTGTTTTTGTTGACGGTGATGTTAGCACGGCCCAGAgc > 1:926408/1‑69 (MQ=255)
cacaAACGGGCTCTTCGGATCGTTCGGTACGCTGTTTTTGTTGACGGTGATGTTAGCACGGCCCAGAgc > 1:2940335/1‑69 (MQ=255)
acaAACGGGCTCTTCGGATCGTTCGGTACGCTGTTTTTGTTGACGGTGATGTTAGCACGGCCCAGAgcg > 1:1147538/1‑69 (MQ=255)
acaAACGGGCTCTTCGGATCGTTCGGTACGCTGTTTTTGTTGACGGTGATGTTAGCACGGCCCAGAgcg > 1:1640017/1‑69 (MQ=255)
aaaCGGGCTCTTCGGATCGTTCGGTACGCTGTTTTTGTTGACGGTGATGTTAGCACGGCCCAGAgcggc < 1:3178509/69‑1 (MQ=255)
ctTCGGATCGTTCGGTACGCTGTTTTTGTTGACGGTGATGTTAGCACGGCCCAGAGCGGCGTCTGcttc < 1:116412/69‑1 (MQ=255)
ctTCGGATCGTTCGGTACGCTGTTTTTGTTGACGGTGATGTTAGCACGGCCCAGAGCGGCGTCTGcttc < 1:2480521/69‑1 (MQ=255)
cGGATCGTTCGGTACGCTGTTTTTGTTGACGGTGATGTTAGCACGGCCCAGAgcggc > 1:3251469/1‑57 (MQ=255)
cGGATCGTTCGGTACGCTGTTTTTGTTGACGGTGATGTTAGCACGGCCCAGAgcg > 1:241721/1‑55 (MQ=255)
cGGATCGTTCGGTACGCTGTTTTTGTTGACGGTGATGTTAGCACGGCCCAGAGCGGCGt > 1:35184/1‑59 (MQ=255)
cGGATCGTTCGGTACGCTGTTTTTGTTGACGGTGATGTTAGCACGGCCCAGAGCGGCGTCTGCTTCttt > 1:1443585/1‑69 (MQ=255)
aTCGTTCGGTACGCTGTTTTTGTTCACGGTGATGTTAGCACGGCCCAGAGCGGCGTCTGCTTCTTTAcc < 1:1191983/69‑1 (MQ=255)
aTCGTTCGGTACGCTGTTTTTGTTCACGGTGATGTTAGCACGGCCCAGAGCGGCGTCTGCTTCTTTAcc < 1:1391374/69‑1 (MQ=255)
aTCGTTCGGTACGCTGTTTTTGTTCACGGTGATGTTAGCACGGCCCAGAGCGGCGTCTGCTTCTTTAcc < 1:1593955/69‑1 (MQ=255)
aTCGTTCGGTACGCTGTTTTTGTTCACGGTGATGTTAGCACGGCCCAGAGCGGCGTCTGCTTCTTTAcc < 1:3084066/69‑1 (MQ=255)
aTCGTTCGGTACGCTGTTTTTGTTCACGGTGATGTTAGCACGGCCCAGAGCGGCGTCTGCTTCTTTAcc < 1:2962308/69‑1 (MQ=255)
aTCGTTCGGTACGCTGTTTTTGTTCACGGTGATGTTAGCACGGCCCAGAGCGGCGTCTGCTTCTTTAcc < 1:300092/69‑1 (MQ=255)
tCGTTCGGTACGCTGTTTTTGTTCACGGTGATGTTAGCACGGCCCAGAGCGGCGTCTGCTTCTTTAcc < 1:671070/68‑1 (MQ=255)
cGGTACGCTGTTTTTGTTGACGGTGATGTTAGCACGGCCCAGAgcg > 1:2594118/1‑46 (MQ=255)
cGGTACGCTGTTTTTGTTGACGGTGATGTTAGCACGGCCCAGAGCGGCGt > 1:2657554/1‑50 (MQ=255)
cGGTACGCTGTTTTTGTTGACGGTGATGTTAGCACGGCCCAGAGCGGCGTCTGCTTCTTTACCGGTCAg < 1:1496809/69‑1 (MQ=255)
cGGTACGCTGTTTTTGTTGACGGTGATGTTAGCACGGCCCAGAGCGGCGTCTGCTTCTTTACCGGTCAg > 1:2927510/1‑69 (MQ=255)
cGGTACGCTGTTTTTGTTGACGGTGATGTTAGCACGGCCCAGAGCGGCGTCTGCTTCTTTACCGGTCAg < 1:1418598/69‑1 (MQ=255)
cGGTACGCTGTTTTTGTTGACGGTGATGTTAGCACGGCCCAGAGCGGCGTCTGCTTCTTTACCGGTCAg < 1:1816187/69‑1 (MQ=255)
cGGTACGCTGTTTTTGTTGACGGTGATGTTAGCACGGCCCAGAGCGGCGTCTGCTTCTTTACCGGTCAg > 1:163935/1‑69 (MQ=255)
cGGTACGCTGTTTTTGTTGACGGTGATGTTAGCACGGCCCAGAGCGGCGTCTGCTTCTTTACCGGTCAg < 1:1980043/69‑1 (MQ=255)
cGGTACGCTGTTTTTGTTGACGGTGATGTTAGCACGGCCCAGAGCGGCGTCTGCTTCTTTACCGGTCAg < 1:615667/69‑1 (MQ=255)
cGGTACGCTGTTTTTGTTCACGGTGATGTTAGCACGGCCCAGAGCGGCGTCTGCTTCTTTAcc < 1:1625680/63‑1 (MQ=255)
cTGTTTTTGTTGACGGTGATGTTAGCACGGCCCAGAGCGTCGTCTGCTTCTTTACCGGTCAGGttttt < 1:917123/68‑1 (MQ=255)
cTGTTTTTGTTGACGGTGATGTTAGCACGGCCCAGAGCGGCGTCTGCTTCTTTACCGGTCAGGttttt < 1:3046363/68‑1 (MQ=255)
cTGTTTTTGTTGACGGTGATGTTAGCACGGCCCAGAGCGGCGTCTGCTTCTTTACCGGTCAGGttttt < 1:3080202/68‑1 (MQ=255)
cTGTTTTTGTTGACGGTGATGTTAGCACGGCCCAGAGCGGCGTCTGCTTCTTTACCGGTCAGGttttt < 1:3263162/68‑1 (MQ=255)
cTGTTTTTGTTGACGGTGATGTTAGCACGGCCCAGAGCGGCGTCTGCTTCTTTACCGGTCAGGttttt < 1:1744016/68‑1 (MQ=255)
cTGTTTTTGTTGACGGTGATGTTAGCACGGCCCAGAGCGGCGTCTGCTTCTTTACCGGTCAGGttttt < 1:847329/68‑1 (MQ=255)
cTGTTTTTGTTGACGGTGATGTTAGCACGGCCCAGAGCGGCGTCTGCTTCTTTACCGGTCAGGttttt < 1:2251001/68‑1 (MQ=255)
gttgACGGTGATGTTAGCACGGCCCAGAGCGGCGt > 1:1665577/1‑35 (MQ=255)
|
CCTACACGAATACCGGAGGTCACAAACGGGCTCTTCGGATCGTTCGGTACGCTGTTTTTGTTGACGGTGATGTTAGCACGGCCCAGAGCGGCGTCTGCTTCTTTACCGGTCAGGTTTTT > minE/1717100‑1717218
|
| 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
