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 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,894,340 |
C→T |
25.0% |
W32* (TGG→TGA) |
ygcQ ← |
predicted flavoprotein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,894,340 | 0 | C | T | 25.0%
| 102.2
/ 33.6
| 56 | W32* (TGG→TGA) | ygcQ | predicted flavoprotein |
| Reads supporting (aligned to +/- strand): ref base C (37/5); new base T (12/2); total (49/7) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.58e-01 |
TCGCTGCCACTGTTCCACCAACGCATCCAGCACCTGTTCCGCCACTACAGGCTGAGGTTCAATCTGCCAGTGCGCCAGGGTACAACCGCTGAAATCCTGCGCCGCCAGCCAGCTTGCTATTGCGGCATTC > W3110S.gb/2894274‑2894403
|
tCGCTGCCACTGTTCCACCAACGCATCCAGCACCTGTTCCGCCACTACAGGCTGAGGTTCAATCTGCCAGt > 1:465318/1‑71 (MQ=255)
cGCTGCCACTGTTCCACCAACGCATCCAGCACCTGTTCCGCCACTACAGGCTGAGGTTCAATCTGCCAGTg > 1:1166818/1‑71 (MQ=255)
cGCTGCCACTGTTCCACCAACGCATCCAGCACCTGTTCCGCCACTACAGGCTGAGGTTCAATCTGCCAGTg > 1:624173/1‑71 (MQ=255)
cGCTGCCACTGTTCCACCAACGCATCCAGCACCTGTTCCGCCACTACAGGCTGAGGTTCAATCTGCCAGTg > 1:2525152/1‑71 (MQ=255)
cACTGTTCCACCAACGCATCCAGCACCTGTTCCGCCACTACAGGCTGAGGTTCAATCTGCCAGTGCGCCAg > 1:1773444/1‑71 (MQ=255)
tGTTCCACCAACGCATCCAGCACCTGTTCCGCCACTACAGGCTGAGGTTCAATCTGCCAGTGCGCCAggg > 1:3739720/1‑70 (MQ=255)
tGTTCCACCAACGCATCCAGCACCTGTTCCGCCACTACAGGCTGAGGTTCAATCTGCCAGTGAGCCAggg > 1:2708343/1‑70 (MQ=255)
aatgCATCCAGCACCTGTTCCGCCACTACAGGCTGAGGTTCAATCTGCCAGTGCGCCAGGGTACAACCGCt > 1:1983063/4‑71 (MQ=255)
aaCGCATCCAGCACCTGTTCCGCCACTACAGGCTGAGGTTCAATCTGCCAGTGCGCCAGGGTACAACCGCt > 1:2183398/1‑71 (MQ=255)
cAGCACCTGTTCCGCCACTACAGGCTGAGGTTCAATCTGCCAGTGCGCCAGGGTACAACCGCTGAAATCCt > 1:13235/1‑71 (MQ=255)
gCACCTGTTCCGCCACTACAGGCTGAGGTTCAATCTGCCAGTGCGCCAGGGTa > 1:3892497/1‑53 (MQ=255)
gCACCTGTTCCGCCACTACAGGCTGAGGTTCAATCTGCCAGTGCGCCAGGGTa > 1:3000023/1‑53 (MQ=255)
cACCTGTTCCGCCACTACAGGCTGAGGTTCAATCTGCCAGTGCGCCAGGGTACAACCGCTGAAATCCTgc < 1:314410/70‑1 (MQ=255)
aCCTGTTCCGCCACTACAGGCTGAGGTTCAATCTGCCAGTGCGCCAGGGTACAACCGCTGAAATCCTgcgc > 1:3810721/1‑71 (MQ=255)
aCCTGTTCCGCCACTACAGGCTGAGGTTCAATCTGCCAGTGCGCCAGGGTACAACCGCTGAAATCCTgcgc > 1:3767750/1‑71 (MQ=255)
aCCTGTTCCGCCACTACAGGCTGAGGTTCAATCTGCCAGTGCGCCAGGGTACAACCGCTGAAATCCTgcgc > 1:2189511/1‑71 (MQ=255)
aCCTGTTCCGCCACTAAAGGCTGAGGTTCAATCTGCCAGTGCGCCAGGGTACAACCGCTGAAATCCTgcgc > 1:705108/1‑71 (MQ=255)
ccTGTTCCGCCACTACAGGCTGAGGTTCAATCTGTCa > 1:452814/1‑37 (MQ=255)
ccTGTTCCGCCACTACAGGCTGAGGTTCAATCTGTCa > 1:3580764/1‑37 (MQ=255)
ccTGTTCCGCCACTACAGGCTGAGGTTCAATCTGCCAGTGCGCCAGGGTACAACCGCTGAAATCCTGcgcc > 1:2283987/1‑71 (MQ=255)
ccTGTTCCGCCACTACAGGCTGAGGTTCAATCTGCCAGTGCGCCAGGGTACAACCGCTGAAATCCTGcgcc > 1:3449883/1‑71 (MQ=255)
ccTGTTCCGCCACTACAGGCTGAGGTTCAATCTGCCAGTGCGCCAGGGTACAACCGCTGAAATCCTGcgcc > 1:3106508/1‑71 (MQ=255)
ccTGTTCCGCCACTACAGGCTGAGGTTCAATCTGCCAGTGCGCCAGGGTACAACCGCTGAAATCCTGcgcc > 1:3094737/1‑71 (MQ=255)
ccGCCACTACAGGCTGAGGTTCAATCTGTCAGTGCGCCAGGGTACAACCGCTGAAATCCTGCGCCgccagc > 1:2689525/1‑71 (MQ=255)
ccGCCACTACAGGCTGAGGTTCAATCTGTCAGTGCGCCAGGGTACAACCGCTGAAATCCTGCGCCgccagc > 1:2840444/1‑71 (MQ=255)
ccGCCACTACAGGCTGAGGTTCAATCTGCCAGTGCGCCAGGGTACAACCGCTGAAATCCTGCGCCgccagc > 1:962481/1‑71 (MQ=255)
ccGCCACTACAGGCTGAGGTTCAATCTGCCAGTGCGCCAGGGTACAACCGCTGAAATCCTGCGCCgccagc > 1:1291552/1‑71 (MQ=255)
cTACAGGCTGAGGTTCAATCTGCCAGTGCGCCAGGGTACAACCGCTGAAATCCTGCGCCGCCAGCCAGCtt > 1:720553/1‑71 (MQ=255)
cTACAGGCTGAGGTTCAATCTGCCAGTGCGCCAGGGTACAACCGCTGAAATCCTGCGCCGCCAGCCAGCtt < 1:653223/71‑1 (MQ=255)
aCAGGCTGAGGTTCAATCTGTCAGTGCGCCAGGGTACAACCGCTGAAATCCTGCGCCGCCAGCCAGCTTGc > 1:2449020/1‑71 (MQ=255)
aCAGGCTGAGGTTCAATCTGTCAGTGCGCCAGGGTACAACCGCTGAAATCCTGCGCCGCCAGCCAGCTTGc > 1:3197256/1‑71 (MQ=255)
aCAGGCTGAGGTTCAATCTGTCAGTGCGCCAGGGTACAACCGCTGAAATCCTGCGCCGCCAGCCAGCTTGc > 1:2928617/1‑71 (MQ=255)
aCAGGCTGAGGTTCAATCTGTCAGTGCGCCAGGGTACAACCGCTGAAATCCTGCGCCGCCAGCCAGCTTGc > 1:1424865/1‑71 (MQ=255)
aCAGGCTGAGGTTCAATCTGTCAGTGCGCCAGGGTACAACCGCTGAAATCCTGCGCCGCCAGCCAGCTTGc > 1:2147828/1‑71 (MQ=255)
aCAGGCTGAGGTTCAATCTGTCAGTGCGCCAGGGTACAACCGCTGAAATCCTGCGCCGCCAGCCAGCTTGc > 1:438777/1‑71 (MQ=255)
cAGGCTGAGGTTCAATCTGTCAGTGCGCCAGGGTACAACCGCTGAAATCCTGCGCCGCCAGCCAGCTTGc < 1:736341/70‑1 (MQ=255)
cAGGCTGAGGTTCAATCTGTCAGTGCGCCAGGGTACAACCGCTGAAATCCTGCGCCGCCAGCCAGCTTGc < 1:2533761/70‑1 (MQ=255)
cAGGCTGAGGTTCAATCTGCCAGTGCGCCAGGGTACAACCGCTGaaa > 1:4024851/1‑47 (MQ=255)
cAGGCTGAGGTTCAATCTGCCAGTGCGCCAGGGTACAACCGCTGAAATCCTGCGCCGCCAGCCAGCTTGc > 1:4007543/1‑70 (MQ=255)
cAGGCTGAGGTTCAATCTGCCAGTGCGCCAGGGTACAACCGCTGAAATCCTGCGCCGCCAGCCAGCTTGc > 1:3600611/1‑70 (MQ=255)
cAGGCTGAGGTTCAATCTGCCAGTGCGCCAGGGTACAACCGCTGAAATCCTGCGCCGCCAGCCAGCTTGc < 1:849219/70‑1 (MQ=255)
cAGGCTGAGGTTCAATCTGCCAGTGCGCCAGGGTAAAACCGCTGaaa > 1:911261/1‑47 (MQ=255)
cAGGCTGAGGTTCAATCTGCCAGTGAGCCAGGGTACAACCGCTGaaa > 1:2579877/1‑47 (MQ=255)
ggCTGAGGTTCAATCTGCCAGTGCGCCAGGGTACAACCGCTGa < 1:917689/43‑1 (MQ=255)
aGGTTCAATCTGCCAGTGCGCCAGGGTACAACCGCTGAAATCCTGCGCCGCCAGCCAGCTTGCTATTGCgg > 1:3509956/1‑71 (MQ=255)
gTTCAATCTGCCAGTGCGCCAGGGTACAACCGCTGAAATCCTGcgccgc < 1:2522804/49‑1 (MQ=255)
ttCAATCTGTCAGTGCGCCAGGGTACAACAGCTGAAATCCTGCGCCGCCAGCCAGCTTGCTATTGCGGCAt > 1:1693393/1‑71 (MQ=255)
ttCAATATGTCAGTGCGCCAGGGTACAACCGCTGAAATCCTGCGCCGCCAGCCAGCTTGCTATTGCGGCAt > 1:524777/1‑71 (MQ=255)
cAATCTGCCAGTGCGCCAGGGTACAACCGCTGAAATCCTGCGCCGCCAGCCAGCTTGCTATTGCGGCATtc > 1:3520189/1‑71 (MQ=255)
cAATCTGCCAGTGCGCCAGGGTACAACCGCTGAAATCCTGCGCCGCCAGCCAGCTTGCTATTGCGGCATtc > 1:2814042/1‑71 (MQ=255)
cAATCTGCCAGTGCGCCAGGGTACAACCGCTGAAATCCTGCGCAGCCAGCAAGCTTGCTATTGCGGCAtt > 1:3235206/1‑70 (MQ=255)
tGCCAGTGCGCCAGGGTACAACCGCTGAAATCCTGCGCCGCCAGCCAGCTTGCTATTGCGGCa > 1:249895/1‑63 (MQ=255)
tGCCAGTGCGCCAGGGTACAACCGCTGAAATCCTGCGCCGCCAGCCAGCTTGCTATTGCGGCa > 1:495710/1‑63 (MQ=255)
tGCCAGTGCGCCAGGGTACAACCGCTGAAATCCTGCGCCGCCAGCCAGCTTGCTATTGCGGCa > 1:2220440/1‑63 (MQ=255)
tGCCAGTGCGCCAGGGTACAACCGCTGAAATCCTGCGCCGCCAGCCAGCTTGCTATTGCGGCa > 1:3038178/1‑63 (MQ=255)
tGCCAGTGCGCCAGGGTACAACCGCTGAAATCCTGCGCCGCCAGCCAGCTTGCTATTGCGGCa > 1:1157877/1‑63 (MQ=255)
|
TCGCTGCCACTGTTCCACCAACGCATCCAGCACCTGTTCCGCCACTACAGGCTGAGGTTCAATCTGCCAGTGCGCCAGGGTACAACCGCTGAAATCCTGCGCCGCCAGCCAGCTTGCTATTGCGGCATTC > W3110S.gb/2894274‑2894403
|
| 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
