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 R2
|
422 |
46.8 |
3726540 |
94.7% |
3529033 |
61.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
978,430 |
A→G |
100% |
E561E (GAA→GAG) |
mukB → |
fused chromosome partitioning proteins |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 978,430 | 0 | A | G | 90.6%
| 95.6
/ 1.5
| 32 | E561E (GAA→GAG) | mukB | fused chromosome partitioning proteins |
| Reads supporting (aligned to +/- strand): ref base A (2/1); new base G (12/17); total (14/18) |
| Fisher's exact test for biased strand distribution p-value = 5.68e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.74e-01 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
GCAGATTTCTGCAAACGTCAGGGCAAGAATTTTGATATCGACGAACTGGAAGCCCTGCATCAGGAACTGGAAGCACGCATTGCCTCTCTTTCCGATAGCGTGTCTAACGCCCGTGAAGAGCGCATGG > W3110S.gb/978365‑978491
|
gCAGATTTCTGCAAACGTCAGGGCAAGAATTTTGATATCGACGAACTGGAAGCCCTGCATCAGGAGCTgg < 1:1616409/70‑1 (MQ=255)
gCAGATTTCTGCAAACGTCAGGGCAAGAATTTTGATATCGACGAACTGGAAGCCCTGCATCAGGAGCTgg < 1:216922/70‑1 (MQ=255)
aCGTCAGGGCAAGAATTTTGATATCGACGAACTGGAAGCCCTGCATCAGGAGCTGGAAGCACGCATTGCct < 1:550185/71‑1 (MQ=255)
aCGTCAGGGCAAGAATTTTGATATCGACGAACTGGAAGCCCTGCATCAGGAACTGGAAGCACGCATTGCct > 1:2370061/1‑71 (MQ=255)
cGTCAGGGCAAGAATTTTGATATCGACGAACTGGAAGCCCTGCATCAGGAGCTGGAAGCACGCATTGCctc > 1:3364450/1‑71 (MQ=255)
cGTCAGGGCAAGAATTTTGATATCGACGAACTGGAAGCCCTGCATCAGGAGCTGGAAGCACGCATTGCctc > 1:3126431/1‑71 (MQ=255)
cGTCAGGGCAAGAATTTTGATATCGACGAACTGGAAGCCCTGCATCAGGAGCTGGAAGCACGCATTGCctc > 1:3507479/1‑71 (MQ=255)
cGTCAGGGCAAGAATTTTGATATCGACGAACTGGAAGCCCTGCATCAGGAGCTGGAAGCACGCATTGCctc > 1:1849910/1‑71 (MQ=255)
gCAAGAATTTTGATATCGACGAACTGGAAGCCCTGCATCAGGAGCTGGAAGCACGCATTGCCTCTCTTTcc < 1:2765371/71‑1 (MQ=255)
gCAAGAATTTTGATATCGACGAACTGGAAGCCCTGCATCAGGAGCTGGAAGCACGCATTGCCTCTCTTTcc < 1:2224547/71‑1 (MQ=255)
aTTTTGATATCGACGAACTGGAAGCCCTGCATCAGGAGCTGGAAGCACGc > 1:678118/1‑50 (MQ=255)
aTTTTGATATCGACGAACTGGAAGCCCTGCATCAGGAGCTGGAAGCACGCATTGCCTCTCTTTCCGATAGc > 1:3371635/1‑71 (MQ=255)
aTTTTGATATCGACGAACTGGAAGCCCTGCATCAGGAGCTGGAAGCACGCATTGCCTCTCTTTCCGATAGc > 1:1396006/1‑71 (MQ=255)
ttttGATATCGACGAACTGGAAGCCCTGCATCAGGAGCTGGAAGCACGCAtt < 1:104225/52‑1 (MQ=255)
ttttGATATCGACGAACTGGAAGCCCTGCATCAGGAGCTGGAAGCACGCAtt < 1:145266/52‑1 (MQ=255)
ttttGATATCGACGAACTGGAAGCCCTGCATCAGGAGCTGGAAGCACGCAtt < 1:1359673/52‑1 (MQ=255)
ttttGATATCGACGAACTGGAAGCCCTGCATCAGGAGCTGGAAGCACGCAtt < 1:3321679/52‑1 (MQ=255)
ttttGATATCGACGAACTGGAAGCCCTGCATCAGGAGCTGGAAGCACGCAtt < 1:1189543/52‑1 (MQ=255)
atatCGACGAACTGGAAGCCCTGCATCAGGAGCTGGAAGCACGCATTGCCTCTCTTTCCGATAGCGTGTCt < 1:1391065/71‑1 (MQ=255)
atatCGACGAACTGGAAGCCCTGCATCAGGAACTGGAAGCACGCATTGCCTCTCTTTCCGATAGCGTGTCt < 1:3711262/71‑1 (MQ=255)
tatCGACGAACTGGAAGCCCTGCATCAGGAGCTGGAAGCACGCATTGCCTCTCTTTCCGATAGCGTGTCt < 1:2173426/70‑1 (MQ=255)
gacgaACTGGAAGCCCTGCATCAGGAGCTGGAAGCACGCATTGCCTCTCTTTCCGATAGCGTGTCTAACGc > 1:2375269/1‑71 (MQ=255)
aCTGGAAGCCCTGCATCAGGAGCTGGAAGCACGCATTGCCTCTCTTTCCGATAGCGTGTCTAACGCCCGTg < 1:2021641/71‑1 (MQ=255)
aCTGGAAGCCCTGCATCAGGAGCTGGAAGCACGCATTGCCTCTCTTTCCGATAGCGTGTCTAACGCCCGTg < 1:2020625/71‑1 (MQ=255)
aCTGGAAGCCCTGCATCAGGAGCTGGAAGCACGCATTGCCTCTCTTTCCGATAGCGTGTCTAACGCCCGTg < 1:57136/71‑1 (MQ=255)
gCCCTGCATCAGGAGCTGGAAGCACGCATTGCCTCTCTTTCCGATAGCGTGTCTAACGCCCGTGAAGAgcg < 1:2319524/71‑1 (MQ=255)
gCCCTGCATCAGGAGCTGGAAGCACGCATTGCCTCTCTTTCCGATAGCGTGTCTAACGCCCGTGAAGAgcg < 1:3102407/71‑1 (MQ=255)
cATCAGGAGCTGGAAGCACGCATTGCCTCTCTTTCCGATAGCGTGTCTAACGCCCGTGAAGAGCGCATgg > 1:2078237/1‑70 (MQ=255)
cATCAGGAGCTGGAAGCACGCATTGCCTCTCTTTCCGATAGCGTGTCTAACGCCCGTGAAGAGCGCATgg > 1:2010736/1‑70 (MQ=255)
cATCAGGAGCTGGAAGCACGCATTGCCTCTCTTTCCGATAGCGTGTCTAACGCCCGTGAAGAGCGCATgg > 1:1247997/1‑70 (MQ=255)
cATCAGGAGCTGGAAGCACGCATTGCCTCTCTTTCCGATAGCGTGTCTAACGCCCGTGAAGAGCGCATgg > 1:821482/1‑70 (MQ=255)
cATCAGGAACTGGAAGCACGCATTGCCTCTCTTTCCGATAGCGTGTCTAACGCCCGTGAAGAGCGCATgg > 1:262471/1‑70 (MQ=255)
|
GCAGATTTCTGCAAACGTCAGGGCAAGAATTTTGATATCGACGAACTGGAAGCCCTGCATCAGGAACTGGAAGCACGCATTGCCTCTCTTTCCGATAGCGTGTCTAACGCCCGTGAAGAGCGCATGG > W3110S.gb/978365‑978491
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
