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 R2
|
356 |
55.1 |
4139924 |
95.4% |
3949487 |
63.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,400,733 |
A→G |
I70I (ATT→ATC) |
mreB ← |
cell wall structural complex MreBCD, actin‑like component MreB |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,400,733 | 0 | A | G | 92.7%
| 128.9
/ 0.8
| 41 | I70I (ATT→ATC) | mreB | cell wall structural complex MreBCD, actin‑like component MreB |
| Reads supporting (aligned to +/- strand): ref base A (0/3); new base G (22/16); total (22/19) |
| Fisher's exact test for biased strand distribution p-value = 9.09e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGCTGGAGCATTTTTTCAGTCACGAAGAAGTCGGCGATAACGCCGTCTTTCATTGGGCGAATGGCAGCAATATTGCCCGGCGTACGGCCCAGCATCTGCTTCGCGTCATGACCTACTGCAGCTACGCTTTTCG > W3110S.gb/3400665‑3400797
|
tGCTGGAGCATTTTTTCAGTCACGAAGAAGTCGGCGATAACGCCGTCTTTCATTGGGCGAATGGCAGCGat < 1:1365950/71‑1 (MQ=255)
tGCTGGAGCATTTTTTCAGTCACGAAGAAGTCGGCGATAACGCCGTCTTTCATTGGGCGAATGGCAGCGat < 1:2838337/71‑1 (MQ=255)
tGCTGGAGCATTTTTTCAGTCACGAAGAAGTCGGCGATAACGCCGTCTTTCATTGGGCGAATGGCAGCGat < 1:4065547/71‑1 (MQ=255)
tGCTGGAGCATTTTTTCAGTCACGAAGAAGTCGGCGATAACGCCGTCTTTCATTGGGCGAATGGCAGCGat < 1:401277/71‑1 (MQ=255)
gAGCATTTTTTCAGTCACGAAGAAGTCGGCGATAACGCCGTCTTTCATTGGGCGAATGGCAGCGATATTg < 1:270402/70‑1 (MQ=255)
gAGCATTTTTTCAGTCACGAAGAAGTCGGCGATAACGCCGTCTTTCATTGGGCGAATGGCAGCGATATTg < 1:2267851/70‑1 (MQ=255)
gAGCATTTTTTCAGTCACGAAGAAGTCGGCGATAACGCCGTCTTTCATTGGGCGAATGGCAGCGATATTg < 1:337770/70‑1 (MQ=255)
gAGCATTTTTTCAGTCACGAAGAAGTCGGCGATAACGCCGTCTTTCATTGGGCGAATGGCAGCGATATTg < 1:1683523/70‑1 (MQ=255)
gAGCATTTTTTCAGTCACGAAGAAGTCGGCGATAACGCCGTCTTTCATTGGGCGAATGGCAGCGATATTg < 1:1367116/70‑1 (MQ=255)
gCATTTTTTCAGTCACGAAGAAGTCGGCGATAACGCCGTCTTTCATTGGGCGAATGGCAGCGATATTGccc > 1:3958884/1‑71 (MQ=255)
ttttCAGTCACGAAGAAGTCGGCGATAACGCCGTCTTTCATTGGGCGAATGGCAGCGATATTGCCCGGCg > 1:1877269/1‑70 (MQ=255)
aCGAAGAAGTCGGCGATAACGCCGTCTTTCATTGGGCGAATGGCAGCGATATTGCCCGGCGTACGGCCCa > 1:2193382/1‑70 (MQ=255)
aCGAAGAAGTCGGCGATAACGCCGTCTTTCATTGGGCGAATGGCAGCGATATTGCCCGGCGTACGGCCCAg > 1:3981581/1‑71 (MQ=255)
aCGAAGAAGTCGGCGATAACGCCGTCTTTCATTGGGCGAATGGCAGCGATATTGCCCGGCGTACGGCCCAg > 1:250085/1‑71 (MQ=255)
gATAACGCCGTCTTTCATTGGGCGAATGGCAGCGATATTGCCCGGCGTACGGCCCAGCATCTGCTTCGCGt < 1:3370461/71‑1 (MQ=255)
gATAACGCCGTCTTTCATTGGGCGAATGGCAGCGATATTGCCCGGCGTACGGCCCAGCATCTGCTTCGCGt < 1:2914335/71‑1 (MQ=255)
gATAACGCCGTCTTTCATTGGGCGAATGGCAGCGATATTGCCCGGCGTACGGCCCAGCATCTGCTTCGCGt < 1:2130496/71‑1 (MQ=255)
gATAACGCCGTCTTTCATTGGGCGAATGGCAGCGATATTGCCCGGCGTACGGCCCAGCATCTGCTTCGCGt < 1:3669317/71‑1 (MQ=255)
gATAACGCCGTCTTTCATTGGGCGAATGGCAGCGATATTGCCCGGCGTACGGCCCAGCATCTGCTTCGCGt < 1:3998081/71‑1 (MQ=255)
aCGCCGTCTTTCATTGGGCGAATGGCAGCGATATTGCCCGGCGTACGGCCCAGCATCTGCTTCGCGTCATg < 1:2897348/71‑1 (MQ=255)
aCGCCGTCTTTCATTGGGCGAATGGCAGCGATATTGCCCGGCGTACGGCCCAGCATCTGCTTCGCGTCATg < 1:1858897/71‑1 (MQ=255)
ccGTCTTTCATTGGGCGAATGGCAGCAATATTGCCCGGCGTACGGCCCAGCATCTGCTTCGCGTCATGAcc < 1:96933/71‑1 (MQ=255)
ccGTCTTTCATTGGGCGAATGGCAGCAATATTGCCCGGCGTACGGCCCAGCATCTGCTTCGCGTCATGAcc < 1:333172/71‑1 (MQ=255)
ccGTCTTTCATTGGGCGAATGGCAGCAATATTGCCCGGCGTACGGCCCAGCATCTGCTTCGCGTCATGAcc < 1:1754267/71‑1 (MQ=255)
cTTTCATTGGGCGAATGGCAGCGATATTGCCCGGCGTACGGCCCAGCATCTGCtt > 1:3553527/1‑55 (MQ=255)
cTTTCATTGGGCGAATGGCAGCGATATTGCCCGGCGTACGGCCCAGCATCTGCTTCGCGTCATGACCTAc > 1:1891993/1‑70 (MQ=255)
cTTTCATTGGGCGAATGGCAGCGATATTGCCCGGCGTACGGCCCAGCATCTGCTTCGCGTCATGACCTACt > 1:3305929/1‑71 (MQ=255)
cTTTCATTGGGCGAATGGCAGCGATATTGCCCGGCGTACGGCCCAGCATCTGCTTCGCGTCATGACCTACt > 1:83111/1‑71 (MQ=255)
cTTTCATTGGGCGAATGGCAGCGATATTGCCCGGCGTACGGCCCAGCATCTGCTTCGCGTCATGACCTACt > 1:1449405/1‑71 (MQ=255)
cTTTCATTGGGCGAATGGCAGCGATATTGCCCGGCGTACGGCCCAGCATCTGCTTCGCGTCATGACCTACt > 1:1792794/1‑71 (MQ=255)
cTTTCATTGGGCGAATGGCAGCGATATTGCCCGGCGTACGGCCCAGCATCTGCTTCGCGTCATGACCTACt > 1:1793658/1‑71 (MQ=255)
cTTTCATTGGGCGAATGGCAGCGATATTGCCCGGCGTACGGCCCAGCATCTGCTTCGCGTCATGACCTACt > 1:3407205/1‑71 (MQ=255)
cTTTCATTGGGCGAATGGCAGCGATATTGCCCGGCGTACGGCCCAGCATCTGCTTCGCGTCATGACCTACt > 1:3152914/1‑71 (MQ=255)
cTTTCATTGGGCGAATGGCAGCGATATTGCCCGGCGTACGGCCCAGCATCTGCTTCGCGTCATGACCTACt > 1:3374507/1‑71 (MQ=255)
cTTTCATTGGGCGAATGGCAGCGATATTGCCCGGCGTACGGCCCAGCATCTGCTTCGCGTCATGACCTACt > 1:3214096/1‑71 (MQ=255)
cTTTCATTGGGCGAATGGCAGCGATATTGCCCGGCGTACGGCCCAGCATCTGCTTCGCGTCATGACCTACt > 1:3257258/1‑71 (MQ=255)
cTTTCATTGGGCGAATGGCAGCGATATTGCCCGGCGTACGGCCCAGCATCTGCTTCGCGTCATGACCTACt > 1:3276787/1‑71 (MQ=255)
cTTTCAGTGGGCGAATGGCAGCGATATTGCCCGGCGTACGGCCCAGCATCTGCTTCGCGTCATGACCTACt > 1:526286/1‑71 (MQ=255)
ggCAGCGATATTGCCCGGCGTACGGCCCAGCATCTGCTTcgcg > 1:1057167/1‑43 (MQ=255)
ggCAGCGATATTGCCCGGCGTACGGCCCAGCATCTGCTTCGCGTCATGACCTACTGCAGCTACGCTTTTCg > 1:2390394/1‑71 (MQ=255)
ggCAGCGATATTGCCCGGCGTACGGCCCAGCATCTGCTTCGCGTCATGACCTACTGCAGCTACGCTTTTCg > 1:817598/1‑71 (MQ=255)
|
TGCTGGAGCATTTTTTCAGTCACGAAGAAGTCGGCGATAACGCCGTCTTTCATTGGGCGAATGGCAGCAATATTGCCCGGCGTACGGCCCAGCATCTGCTTCGCGTCATGACCTACTGCAGCTACGCTTTTCG > W3110S.gb/3400665‑3400797
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
