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 I2 R2
|
154 |
32.4 |
3140800 |
76.4% |
2399571 |
54.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,616,734 |
G→A |
A73T (GCG→ACG) |
yneJ → |
predicted DNA‑binding transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,616,734 | 0 | G | A | 76.9%
| 43.5
/ 11.0
| 26 | A73T (GCG→ACG) | yneJ | predicted DNA‑binding transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base G (4/2); new base A (20/0); total (24/2) |
| Fisher's exact test for biased strand distribution p-value = 4.62e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.91e-01 |
TCCTGCCGGGCATAACTTTTTACGCTATAGCCAACAAATTCTCGCGTTAGTGGATGAAGCGCGGAGCGTTGTCGCTGGCGATG > W3110S.gb/1616691‑1616773
|
tcCTGCCGGGCATAACTTTTTACGCTATAGCCAACAAATTCTCGCGTTAGTGGATGAAgc < 1:806067/60‑1 (MQ=255)
tcCTGCCGGGCATAACTTTTTACGCTATAGCCAACAAATTCTCGCGTTAGTGGATGAAgc < 1:3087141/60‑1 (MQ=255)
aTAACTTTTTACGCTATAGCCAACAAATTCTCACGTTAGTGGATGAAGCGCGGAGc > 1:388609/1‑56 (MQ=255)
aTAACTTTTTACGCTATAGCCAACAAATTCTCACGTTAGTGGATGAAGCGCGGAGc > 1:1866304/1‑56 (MQ=255)
aTAACTTTTTACGCTATAGCCAACAAATTCTCACGTTAGTGGATGAAGCGCGGAGCg > 1:2188775/1‑57 (MQ=255)
aTAACTTTTTACGCTATAGCCAACAAATTCTCACGTTAGTGGATGAAGCGCGGAGCg > 1:593798/1‑57 (MQ=255)
aTAACTTTTTACGCTATAGCCAACAAATTCTCACGTTAGTGGATGAAGCGCGGAGCg > 1:393273/1‑57 (MQ=255)
aTAACTTTTTACGCTATAGCCAACAAATTCTCACGTTAGTGGATGAAGCGCGGAGCg > 1:3042466/1‑57 (MQ=255)
aTAACTTTTTACGCTATAGCCAACAAATTCTCACGTTAGTGGATGAAGCGCGGAGCg > 1:2906534/1‑57 (MQ=255)
aTAACTTTTTACGCTATAGCCAACAAATTCTCACGTTAGTGGATGAAGCGCGGAGCg > 1:2815880/1‑57 (MQ=255)
aTAACTTTTTACGCTATAGCCAACAAATTCTCACGTTAGTGGATGAAGCGCGGAGCg > 1:2391326/1‑57 (MQ=255)
aTAACTTTTTACGCTATAGCCAACAAATTCTCACGTTAGTGGATGAAGCGCGGAGCg > 1:2391167/1‑57 (MQ=255)
aTAACTTTTTACGCTATAGCCAACAAATTCTCACGTTAGTGGATGAAGCGCGGAGCg > 1:2139894/1‑57 (MQ=255)
aTAACTTTTTACGCTATAGCCAACAAATTCTCACGTTAGTGGATGAAGCGCGGAGCg > 1:2128187/1‑57 (MQ=255)
aTAACTTTTTACGCTATAGCCAACAAATTCTCACGTTAGTGGATGAAGCGCGGAGCg > 1:2111613/1‑57 (MQ=255)
aTAACTTTTTACGCTATAGCCAACAAATTCTCACGTTAGTGGATGAAGCGCGGAGCg > 1:1923290/1‑57 (MQ=255)
aTAACTTTTTACGCTATAGCCAACAAATTCTCACGTTAGTGGATGAAGCGCGGAGCg > 1:1604622/1‑57 (MQ=255)
aTAACTTTTTACGCTATAGCCAACAAATTCTCACGTTAGTGGATGAAGCGCGGAGCg > 1:1390324/1‑57 (MQ=255)
aTAACTTTTTACGCTATAGCCAACAAATTCTCACGTTAGTGGATGAAGCGCGGAGCg > 1:1366326/1‑57 (MQ=255)
aTAACTTTTTACGCTATAGCCAACAAATTCTCACGTTAGTGGATGAAGCGCGGAGCg > 1:1308419/1‑57 (MQ=255)
aTAACTTTTTACGCTATAGCCAACAAATTCTCACGTTAGTGGATGAAGCGCGGAGCg > 1:1274908/1‑57 (MQ=255)
aTAACTTTTTACGCTATAGCCAACAAATTCTCACGTTAGTGGATGAAGCGCGGAGCg > 1:1252843/1‑57 (MQ=255)
aCGCTATAGCCAACAAATTCTCGCGTTAGTGGATGAAGCGCGGAGCGTTGTCGCTGGCGATg > 1:1188212/1‑62 (MQ=255)
aCGCTATAGCCAACAAATTCTCGCGTTAGTGGATGAAGCGCGGAGCGTTGTCGCTGGCGATg > 1:2753201/1‑62 (MQ=255)
aCGCTATAGCCAACAAATTCTCGCGTTAGTGGATGAAGCGCGGAGCGTTGTCGCTGGCGATg > 1:1470122/1‑62 (MQ=255)
aCGCTATAGCCAACAAATTCTCGCGTTAGTGGATGAAGCGCGGAGCGTTGTCGCTGGCGATg > 1:39256/1‑62 (MQ=255)
|
TCCTGCCGGGCATAACTTTTTACGCTATAGCCAACAAATTCTCGCGTTAGTGGATGAAGCGCGGAGCGTTGTCGCTGGCGATG > W3110S.gb/1616691‑1616773
|
| 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
