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 |
|
A2 F8 I0 R2
|
296 |
77.6 |
4260404 |
88.1% |
3753415 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,111,527 |
G→A |
50.9% |
C287Y (TGT→TAT) |
ydiD → |
short chain acyl‑CoA synthetase, anaerobic |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,111,527 | 0 | G | A | 50.9%
| ‑5.4
/ 87.7
| 57 | C287Y (TGT→TAT) | ydiD | short chain acyl‑CoA synthetase, anaerobic |
| Reads supporting (aligned to +/- strand): ref base G (11/17); new base A (12/17); total (23/34) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ATGGCGTAACGGCACCATTCTTAATTGGCGCTCGCAGCGTGTTGTTAGATATTTTCACTCCTGATGCGTGTCTCGCGCTGCTTGAGCAGCAGCGTTGCACCTGTATGCTCGGCGCAACGCCGTTTGTCTATG > minE/1111458‑1111589
|
aTGGCGTAACGGCACCATTCTTAATTGGCGCTCGCAGCGTGTTGTTAGATATTTTCACTCCTGATGCgtgt > 1:1232559/1‑71 (MQ=255)
aTGGCGTAACGGCACCATTCTTAATTGGCGCTCGCAGCGTGTTGTTAGATATTTTCACTCCTGATGCgtgt > 1:618429/1‑71 (MQ=255)
aTGGCGTAACGGCACCATTCTTAATTGGCGCTCGCAGCGTGTTGTTAGATATTTTCACTCCTGATGCgtgt > 1:2305196/1‑71 (MQ=255)
tGGCGTAACGGCACCATTCTTAATTGGCGCTCGCAGCGTGTTGTTAGATATTTTCACTCCTGATGCGTGtc < 1:770194/71‑1 (MQ=255)
tGGCGTAACGGCACCATTCTTAATTGGCGCTCGCAGCGTGTTGTTAGATATTTTCACTCCTGATGCGTGtc < 1:2783396/71‑1 (MQ=255)
tGGCGTAACGGCACCATTCTTAATTGGCGCTCGCAGCGTGTTGTTAGATATTTTCACTCCTGATGCGTGtc < 1:1803614/71‑1 (MQ=255)
aCGGCACCATTCTTAATTGGCGCTCGCAGCGTGTTGTTAGATATTTTCACTCCTGATGCGTGTCTCgcgc < 1:3516118/70‑1 (MQ=255)
aCGGCACCATTCTTAATTGGCGCTCGCAGCGTGTTGTTAGATATTTTCACTCCTGATGCGTGTCTCGCgct > 1:1105505/1‑71 (MQ=255)
cGGCACCATTCTTAATTGGCGCTCGCAGCGTGTTGTTAGATATTTTCACTCCTGATGCGTGTCTCGCgctg < 1:93406/71‑1 (MQ=255)
cGGCACCATTCTTAATTGGCGCTCGCAGCGTGTTGTTAGATATTTTCACTCCTGATGCGTGTCTCGCgctg < 1:390015/71‑1 (MQ=255)
cGGCACCATTCTTAATTGGCGCTCGCAGCGTGTTGTTAGATATTTTCACTCCTGATGCGTGTCTCGCgctg < 1:2670409/71‑1 (MQ=255)
ggCACCATTCTTAATTGGCGCTCGCAGCGTGTTGTTAGATATTTTCACTCCTGATGCGTATCTCGCgctgc < 1:30475/71‑1 (MQ=255)
aCCATTCTTAATTGGCGCTCGCAGCGTGTTGTTAGATATTTTCACTCCTGATGCGTATCTCGCGCTGCtt > 1:2381409/1‑70 (MQ=255)
ccATTCTTAATTGGCGCTCGCAGCGTGTTGTTAGATATTTTCACTCCTGATGCGTATCTCGCGCTGCtt > 1:3263761/1‑69 (MQ=255)
ccATTCTTAATTGGCGCTCGCAGCGTGTTGTTAGATATTTTCACTCCTGATGCGTATCTCGAGCTGCtt > 1:4155566/1‑69 (MQ=255)
tCTTAATTGGCGCTCGCAGCGTGTTGTTAGATATTTTCACTCCTGATGCGTATCTCGCGCTGCTTGagcag > 1:3750998/1‑71 (MQ=255)
tCTTAATTGGCGCTCGCAGCGTGTTGTTAGATATTTTCACTCCTGATGCGTATCTCGCGCTGCTTGagcag > 1:344337/1‑71 (MQ=255)
ttGGCGCTCGCAGCGTGTTGTTAGATATTTTCACTCCTGATGCGTATCTCGCGCTGCTTGAGCAGCAGCGt < 1:2196044/71‑1 (MQ=255)
gcgcTCGCAGCGTGTTGTTAGATATTTTCACTCCTGATGCGTGTCTCGCGCTGCTTGAGCAGCAGCGTTGc < 1:762860/71‑1 (MQ=255)
gcgcTCGCAGCGTGTTGTTAGATATTTTCACTCCTGATGCGTGTCTCGCGCTGCTTGAGCAGCAGCGTTGc < 1:327299/71‑1 (MQ=255)
gcgcTCGCAGCGTGTTGTTAGATATTTTCACTCCTGATGCGTGTCTCGCGCTGCTTGAGCAGCAGCGTTGc < 1:2629447/71‑1 (MQ=255)
cGCAGCGTGTTGTTAGATATTTTCACTCCTGATGCGTGTCTCGCGCTGCTTGagcagc > 1:1048711/1‑58 (MQ=255)
cGCAGCGTGTTGTTAGATATTTTCACTCCTGATGCGTGTCTCGCGCTGCTTGAGCAGCAGCGTTGCACCTg > 1:4255659/1‑71 (MQ=255)
tgttgtTAGATATTTTCACTCCTGATGCGTATCTCGCGCTGCTTGag < 1:753531/47‑1 (MQ=255)
tgttgtTAGATATTTTCACTCCTGATGCGTATCTCGCGCTGCTTGag < 1:3670826/47‑1 (MQ=255)
tgttgtTAGATATTTTCACTCCTGATGCGTATCTCGCGCTGCTTGag < 1:467164/47‑1 (MQ=255)
tgttgtTAGATATTTTCACTCCTGATGCGTATCTCGCGCTGCTTGag < 1:3118498/47‑1 (MQ=255)
tgttgtTAGATATTTTCACTCCTGATGCGTATCTCGCGCTGCTTGag < 1:1604899/47‑1 (MQ=255)
tgttgtTAGATATTTTCACTCCTGATGCGTATCTCGCGCTGCTTGag < 1:3994946/47‑1 (MQ=255)
tgttgtTAGATATTTTCACTCCTGATGCGTATCTCGCGCTGCTTGag < 1:3447444/47‑1 (MQ=255)
tgttggTAGATATTTTCACTCCTGATGCGTATCTCGCGCTGCTTGag < 1:1537678/47‑1 (MQ=255)
tgttggTAGATATTTTCACTCCTGATGCGTATCTCGCGCTGCTTGag < 1:4131458/47‑1 (MQ=255)
ttAGATATTTTCACTCCTGATGCGTGTCTCGCgctg < 1:375324/36‑1 (MQ=255)
ttAGATATTTTCACTCCTGATGCGTGTCTCGCgctg < 1:488227/36‑1 (MQ=255)
ttAGATATTTTCACTCCTGATGCGTGTCTCGCgctg < 1:3848766/36‑1 (MQ=255)
gATATTTTCACTCCTGATGCGTGTCTCGCGCTGCTTGAGCAGCAGCGTTGCACCTGTATGCTCGGCGCaa < 1:1784139/70‑1 (MQ=255)
gATATTTTCACTCCTGATGCGTGTCTCGCGCTGCTTGAGCAGCAGCGTTGCACCTGTATGCTCGGCGCaa < 1:3220988/70‑1 (MQ=255)
atTTTCACTCCTGATGCGTGTCTCGCGCTGCTTGAGCAGCAGCGt > 1:1957769/1‑45 (MQ=255)
atTTTCACTCCTGATGCGTGTCTCGCGCTGCTTGAGCAGCAGCGt > 1:2424609/1‑45 (MQ=255)
atTTTCACTCCTGATGCGTGTCTCGCGCTGCTTGAGCAGCAGCGTTGCACCTGTATGCTCGGCGCAACGcc > 1:1713707/1‑71 (MQ=255)
atTTTCACTCCTGATGCGTATCTCGCGCTGCTTGAGCAGCAGCGt > 1:3873954/1‑45 (MQ=255)
atTTTCACTCCTGATGCGTATCTCGCGCTGCTTGAGCAGCAGCGt > 1:2120086/1‑45 (MQ=255)
atTTTCACTCCTGATGCGTATCTCGCGCTGCTTGAGCAGCAGCGt > 1:2855657/1‑45 (MQ=255)
atTTTCACTCCTGATGCGTATCTCGCGCTGCTTGAGCAGAAGCGt > 1:3346626/1‑45 (MQ=255)
ttCACTCCTGATGCGTGTCTCGCGCTGCTTGAGCAGCAGCGTTGCACCTGTATGCTCGGCGCAACGCCGtt > 1:3108377/1‑71 (MQ=255)
ttCACTCCTGATGCGTGTCTCGCGCTGCTTGAGCAGCAGCGTTGCACCTGTATGCTCGGCGCAACGCCGtt > 1:3103207/1‑71 (MQ=255)
ttCACTCCTGATGCGTATGTCGCGCTGCTTGAGCAGCAGCGTTGc > 1:2308018/1‑45 (MQ=255)
ttCACTCCTGATGCGTATCTCGCGCTGCTTGAGCAGCAGCGTTGc > 1:1574305/1‑45 (MQ=255)
ttCACTCCTGATGCGTATCTCGCGCTGCTTGAGCAGCAGCGTTGCACCTGTATGCTCGGCGCAACGCCGtt > 1:2848793/1‑71 (MQ=255)
tCACTCCTGATGCGTGTCTCGCGCTGCTTGAGCAGCAGCGTTGCACCTGTATGCTCGGCGCAACGCCGtt < 1:2009287/70‑1 (MQ=255)
cTCCTGATGCGTGTCTCGCGCTGCTTGAGCAGCAGCGTTGCACCTGTATGCTCGGCGCAACGCCGTTTGTc < 1:634345/71‑1 (MQ=255)
ccTGATGCGTGTCTCGCGCTGCTTGAGCAGCAGCGTTGCACCTGTATGCTCGGCGCAACGCCGTTTGTCTa > 1:3537289/1‑71 (MQ=255)
ccTGATGCGTGTCTCGCGCTGCTTGAGCAGCAGCGTTGCACCTGTATGCTCGGCGCAACGCCGTTTGTCTa > 1:2257573/1‑71 (MQ=255)
ccTGATGCGTGTCTCGCGCTGCTTGAGCAGCAGCGTTGCACCTGTATGCTCGGCGCAACGCCGTTTGTCTa > 1:1566793/1‑71 (MQ=255)
cTGATGCGTATCTCGCGCTGCTTGAGCAGCAGCGTTGCACCTGTATGCTCGGCGCAACGCCGTTTGTCt < 1:3162018/69‑1 (MQ=255)
cTGATGCGTATCTCGCGCTGCTTGAGCAGCAGCGTTGCACCTGTATGCTCGGCGCAACGCCGTTTGTCt < 1:4242305/69‑1 (MQ=255)
cTGATGCGTATCTCGCGCTGCTTGAGCAGCAGCGTTGCACCTGTATGCTCGGCGCAACGCCGTTTGTCt < 1:2046753/69‑1 (MQ=255)
aTGCGTATCTCGCGCTGCTTGAGCAGCAGCGTTGCACCTGTATGCTCGGCGCAACGCCGTTTGTCTATg < 1:3723892/69‑1 (MQ=255)
aTGCGTATCTCGCGCTGCTTGAGCAGCAGCGTTGCACCTGTATGCTCGGCGCAACGCCGTTTGTCTATg < 1:3906934/69‑1 (MQ=255)
aTGCGTATCTCGCGCTGCTTGAGCAGCAGCGTTGCACCTGTATGCTCGGCGCAACGCCGGTTGTCTATg < 1:198754/69‑1 (MQ=255)
|
ATGGCGTAACGGCACCATTCTTAATTGGCGCTCGCAGCGTGTTGTTAGATATTTTCACTCCTGATGCGTGTCTCGCGCTGCTTGAGCAGCAGCGTTGCACCTGTATGCTCGGCGCAACGCCGTTTGTCTATG > minE/1111458‑1111589
|
| 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
