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 |
|
A5 F28 I3 R1
|
375 |
42.1 |
2927644 |
71.4% |
2090337 |
57.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,125,199 |
+G |
coding (1479/1500 nt) |
glcD ← |
glycolate oxidase subunit, FAD‑linked |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,125,196 | 1 | . | G | 82.7%
| 146.5
/ 24.9
| 52 | coding (1482/1500 nt) | glcD | glycolate oxidase subunit, FAD‑linked |
| Reads supporting (aligned to +/- strand): ref base . (0/9); new base G (43/0); total (43/9) |
| Fisher's exact test for biased strand distribution p-value = 2.72e-10 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.68e-01 |
GCGTAGCATCAGAAACGCTCCAGTTCA‑GGGAAAGGTAAATGACCGTGATGCACATGCATGGCACCAAATTCAGCACAGCGGTGTA > W3110S.gb/3125170‑3125254
|
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCAcatgcatg > 1:2725962/1‑61 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCAcatgcatg > 1:2742352/1‑61 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:556149/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:2413997/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:1027592/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:2454229/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:2480021/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:2578080/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:2584068/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:2687511/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:2825358/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:391912/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:485331/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:2449875/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:651792/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:657945/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:807157/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:850777/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:854062/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:883921/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:888617/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:89965/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:907124/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:986948/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:999387/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:1802386/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:1327385/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:1340580/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:1346277/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:1430389/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:1446595/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:1234710/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:1586013/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:1605663/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:1789435/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:1202103/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:1157006/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:115386/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:1972617/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:11450/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:2063190/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGTGATGCACATGCATgg > 1:2361867/1‑62 (MQ=255)
gcgTAGCATCAGAAACGCTCCAGTTCAGGGGAAAGGTAAATGACCGAGATGCAcatgcatg > 1:262991/1‑61 (MQ=255)
ttCA‑GGGAAAGGTAAATGACCGTGATGCACATGCATGGCACCAAATTCAGCACAGCGGTGTa < 1:1084762/62‑1 (MQ=255)
ttCA‑GGGAAAGGTAAATGACCGTGATGCACATGCATGGCACCAAATTCAGCACAGCGGTGTa < 1:918683/62‑1 (MQ=255)
ttCA‑GGGAAAGGTAAATGACCGTGATGCACATGCATGGCACCAAATTCAGCACAGCGGTGTa < 1:1560657/62‑1 (MQ=255)
ttCA‑GGGAAAGGTAAATGACCGTGATGCACATGCATGGCACCAAATTCAGCACAGCGGTGTa < 1:1827032/62‑1 (MQ=255)
ttCA‑GGGAAAGGTAAATGACCGTGATGCACATGCATGGCACCAAATTCAGCACAGCGGTGTa < 1:18481/62‑1 (MQ=255)
ttCA‑GGGAAAGGTAAATGACCGTGATGCACATGCATGGCACCAAATTCAGCACAGCGGTGTa < 1:1904895/62‑1 (MQ=255)
ttCA‑GGGAAAGGTAAATGACCGTGATGCACATGCATGGCACCAAATTCAGCACAGCGGTGTa < 1:2566984/62‑1 (MQ=255)
ttCA‑GGGAAAGGTAAATGACCGTGATGCACATGCATGGCACCAAATTCAGCACAGCGGTGTa < 1:1997654/62‑1 (MQ=255)
ttCA‑GGGAAAGGTAAATGACCGTGATGCACATGCATGGCACCAAATTCAGCACAGCGGTGTa < 1:2088093/62‑1 (MQ=255)
|
GCGTAGCATCAGAAACGCTCCAGTTCA‑GGGAAAGGTAAATGACCGTGATGCACATGCATGGCACCAAATTCAGCACAGCGGTGTA > W3110S.gb/3125170‑3125254
|
| 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
