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 |
|
A1 F28 I2 R1
|
330 |
0.0 |
2544031 |
91.9% |
2337964 |
62.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,544,768 |
+T |
coding (262/912 nt) |
cysM ← |
cysteine synthase B |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,544,765 | 1 | . | T | 83.3%
| 11.5
/ ‑2.1
| 6 | coding (265/912 nt) | cysM | cysteine synthase B |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base T (5/0); total (5/1) |
| Fisher's exact test for biased strand distribution p-value = 1.67e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TTCCGCACCATAAGCACGCATCGCCGCACGGCGTTCCTGGCTCATGTTGTCGGGCATCAGCAA‑TTTCATGCGATAGCCTTTCAGCGCGGCAATCATTGCCAGCGCAATGCCG > W3110S.gb/2544703‑2544814
|
ttCCGCACCATAAGCACGCATCGCCGCACGGCGTTCCTGGCTCATGTTGTCGGGCATCAGCAA‑t < 1:731491/64‑1 (MQ=255)
ttCCGCACCATAAGCACGCATCGCCGCACGGCGTTCCTGGCTCATGTTGTCGGGCATCAGCAA‑t < 1:805033/64‑1 (MQ=255)
cACGGCGTTCCTGGCTCATGTTGTCGGGCATCAGCAATTTTGATGCGATAGCCTTTCAGCGCGGc > 1:2410649/1‑65 (MQ=255)
cACGGCGTTCCTGGCTCATGTTGTCGGGCATCAGCAATTTTCATGCGATAGCCTTTCAGCGCgg > 1:1475421/1‑64 (MQ=255)
cACGGCGTTCCTGGCTCATGTTGTCGGGCATCAGCAATTTTCATGCGATAGCCTTTCAGCGCgg > 1:91874/1‑64 (MQ=255)
cACGGCGTTCCTGGCTCATGTTGTCGGGCATCAGCAATTTTCATGCGATAGCCTTTCAGCGCGGc > 1:285006/1‑65 (MQ=255)
cACGGCGTTCCTGGCTCATGTTGTCGGGCATCAGCAATTTTCATGCGATAGCCTTTCAGCGCGGc > 1:99441/1‑65 (MQ=255)
gtCGGGCATCAGCAA‑TTTCATGCGATAGCCTTTCAGCGCGGCAATCATTGCCAGCGCAATGCCg < 1:1110901/64‑1 (MQ=255)
|
TTCCGCACCATAAGCACGCATCGCCGCACGGCGTTCCTGGCTCATGTTGTCGGGCATCAGCAA‑TTTCATGCGATAGCCTTTCAGCGCGGCAATCATTGCCAGCGCAATGCCG > W3110S.gb/2544703‑2544814
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
