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 F21 I0 R1
|
148 |
22.8 |
1772010 |
97.0% |
1718849 |
61.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,657,262 |
C→T |
50.0% |
E273E (GAG→GAA) |
wzyE ← |
predicted Wzy protein involved in ECA polysaccharide chain elongation |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,657,262 | 0 | C | T | 50.0%
| ‑5.0
/ 23.4
| 18 | E273E (GAG→GAA) | wzyE | predicted Wzy protein involved in ECA polysaccharide chain elongation |
| Reads supporting (aligned to +/- strand): ref base C (7/2); new base T (4/5); total (11/7) |
| Fisher's exact test for biased strand distribution p-value = 3.35e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCGGACAATTGGAGCCAGGCCCTGGAAGTCGATGTTGTCGTAGTTCTGCAACAGCAACGCCAGATTCTCCCACGGCGAGAAGGTGTCGCGAGTGAGATAGAGAAACGTATAGAACGCTTCATCGCCGCTCA > W3110S.gb/3657196‑3657326
|
gcgGACAATTGGAGCCAGGCCCTGGAAGTCGATGTTGTCGTAGTTCTGCAACAGCAACGCCAGATtctc > 1:195871/1‑69 (MQ=255)
gACAATTGGAGCCAGGCCCTGGAAGTCGATGTTGTCGTAGTTCTGCAACAGCAACGCCAGATTCTCCCACg > 1:158866/1‑71 (MQ=255)
cAATTGGAGCCAGGCCCTGGAAGTCGATGTTGTCGTAGTTCTGCAACAGCAACGCCAGATTCTCCCACGGc < 1:1315417/71‑1 (MQ=255)
gCCCTGGAAGTCGATGTTGTCGTAGTTCTGCAACAGCAACGCCAGATTCTCCCACGGCGAGAAGGTGTcgc > 1:831399/1‑71 (MQ=255)
cTGGAAGTCGATGTTGTCGTAGTTCTGCAACAGCAACGCCAGATTCTCCCACGGCGAGAAGGTGTCGCGAg > 1:644997/1‑71 (MQ=255)
gAAGTCGATGTTGTCGTAGTTCTGCAACAGCAACGCCAGATTTTCCCACGGCGAGAAGGTGTCGCGAGTga < 1:694797/71‑1 (MQ=255)
tCGATGTTGTCGTAGTTCTGCAACAGCAACGCCAGATTTTCCCACGGCGAGAAGGTGTCGCGAGTgaga < 1:206921/69‑1 (MQ=255)
tgttgtCGTAGTTCTGCAACAGCAACGCCAGATTTTCCCACGGCGAGAAGGTGTCGCGa > 1:1127849/1‑59 (MQ=255)
tgttgtCGTAGTTCTGCAACAGCAACGCCAGATTTTCCCACGGCGAGAAGGTGTCGCGAGTGAGATAgaga < 1:441225/71‑1 (MQ=255)
tgttgtCGTAGTTCTGCAACAGCAACGCCAGATTTTCCCACGGCGAGAAGGTGTCGCGAGTGAGATAgaga < 1:1697292/71‑1 (MQ=255)
gtCGTAGTTCTGCAACAGCAACGCCAGATTTTCCCACGGCGAGAAGGTGTCGCGAGTGAGATAGAGAAACg > 1:361388/1‑71 (MQ=255)
tCGTAGTTCTGCAACAGCAACGCCAGATTTTCCCACGGCGAGAAGGTGTCGCGAGTGAGATAGAGaa < 1:1349111/67‑1 (MQ=255)
tGCAACAGCAACGCCAGATTCTCCCACGGCGAGAAGgt > 1:1704041/1‑38 (MQ=255)
tGCAACAGCAACGCCAGATTCTCCCACGGCGAGAAGGTGTcgcg < 1:323375/44‑1 (MQ=255)
aGCAACGCCAGATTTTCCCACGGCGAGAAGGTGTCGCGAGTGAGATAGAGAAACGTATAGAACGCTTCATc > 1:1755480/1‑71 (MQ=255)
gCAACGCCAGATTCTCCCACGGCGAGAAGGTGTCGCGAGTGAGATa > 1:1109412/1‑46 (MQ=255)
gCAACGCCAGATTCTCCCACGGCGAGAAGGTGTCGCGAGTGAGATa > 1:588924/1‑46 (MQ=255)
cAACGCCAGATTTTCCCACG‑‑GAGAAGGTGTCGCGAGTGAGATAGAGAAACGTATAGaa > 1:448651/1‑58 (MQ=255)
cAGATTCTCCCACGGCGAGAAGGTGTCGCGAGTGAGATAGAGAAACGTATAGAACGCTTCATCGCCGCTca > 1:515695/1‑71 (MQ=255)
|
GCGGACAATTGGAGCCAGGCCCTGGAAGTCGATGTTGTCGTAGTTCTGCAACAGCAACGCCAGATTCTCCCACGGCGAGAAGGTGTCGCGAGTGAGATAGAGAAACGTATAGAACGCTTCATCGCCGCTCA > W3110S.gb/3657196‑3657326
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
