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 |
2,892,483 |
A→G |
39.5% |
K391E (AAA→GAA) |
ygcN → |
predicted oxidoreductase, FAD/NAD(P)‑binding domain |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,892,483 | 0 | A | G | 39.5%
| 25.2
/ 48.2
| 43 | K391E (AAA→GAA) | ygcN | predicted oxidoreductase, FAD/NAD(P)‑binding domain |
| Reads supporting (aligned to +/- strand): ref base A (13/13); new base G (10/7); total (23/20) |
| Fisher's exact test for biased strand distribution p-value = 7.56e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACCGTACGTGGCCTGCGTTAATGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCATTTACGTCGTCACGGCCTGTG > W3110S.gb/2892424‑2892541
|
aCCGTACGTGGCCTGCGTTAATGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATGAAcc > 1:1099214/1‑64 (MQ=255)
aCCGTACGTGGCCTGCGTTAATGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATGAAcc > 1:1454994/1‑64 (MQ=255)
tACGTGGCCTGCGTTAATGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATGAACCTg < 1:2255190/62‑1 (MQ=255)
cGTGGCCTGCGTTAATGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTg > 1:3463993/1‑71 (MQ=255)
cGTGGCCTGCGTTAATGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTg > 1:3014201/1‑71 (MQ=255)
cGTGGCCTGCGTTAATGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTg > 1:2919933/1‑71 (MQ=255)
cGTTAATGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATaaa > 1:2136927/1‑47 (MQ=255)
cGTTAATGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATGAACCTGTTCCa > 1:3676703/1‑56 (MQ=255)
cGTTAATGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTa > 1:722040/1‑71 (MQ=255)
cGTTAATGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTa < 1:320800/71‑1 (MQ=255)
ttAATGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATGAACCTGTTCCACCGCTGCGcc < 1:1064448/64‑1 (MQ=255)
aaTGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATGAACCTGTTCCACCGCTGCGCCAg > 1:2934881/1‑64 (MQ=255)
aTGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATGAACCTGTTCCACCGCTGCGCCAGTTa < 1:3378664/66‑1 (MQ=255)
aTGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTAt < 1:482667/67‑1 (MQ=255)
gATATTTCCCGCGATTTATGGGATCAGGGTGATGAACCTGTTCCACCGCTGCGCCAGTTATTCTGGcatca > 1:1820211/1‑71 (MQ=255)
gATATTTCCCGCGATTTATGGGATCAGGGTGATGAACCTGTTCCACCGCTGCGCCAGTTATTCTGGcatca > 1:3157155/1‑71 (MQ=255)
gATATTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGcatca < 1:614610/71‑1 (MQ=255)
gATATTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGcatca < 1:3259465/71‑1 (MQ=255)
tatTTCCCGCGATTTATGGGATCAGGGTGATGAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCAtt < 1:1734892/71‑1 (MQ=255)
tatTTCCCGCGATTTATGGGATCAGGGTGATGAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCAtt < 1:582865/71‑1 (MQ=255)
tatTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCAtt > 1:1502487/1‑71 (MQ=255)
tatTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCAtt < 1:3477947/71‑1 (MQ=255)
atTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGcat > 1:3070782/1‑66 (MQ=255)
atTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCAtt > 1:2362299/1‑70 (MQ=255)
tttCCCGCGATTTATGGGATCAGGGTGATGAACCTGTTCCACCGCTGCGCCAGTTATTCt < 1:404413/60‑1 (MQ=255)
tttCCCGCGATTTATGGGATCAGGGTGATGAACCTGTTCCACCGCTGCGCCAGTTATTCt < 1:1132385/60‑1 (MQ=255)
tttCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCATTTa > 1:119398/1‑71 (MQ=255)
tttCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCATTTa > 1:1468526/1‑71 (MQ=255)
tttCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCATTTa > 1:424578/1‑71 (MQ=255)
tCCCGCGATTTATGGGATCAGGGTGATGAACCTGTTCCACCGCTGCGCCAGTTATTCTgg > 1:1111601/1‑60 (MQ=255)
tCCCGCGATTTATGGGATCAGGGTGATGAACCTGTTCCACCGCTGCGCCAGTTATTCTgg > 1:1038212/1‑60 (MQ=255)
tCCCGCGATTTATGGGATCAGGGTGATGAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCATTTAcg > 1:2755717/1‑71 (MQ=255)
tCCCGCGATTTATGGGATCAGGGTGATGAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCATTTAcg > 1:3303128/1‑71 (MQ=255)
aTTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCATTTAcgtc < 1:3098054/66‑1 (MQ=255)
aTTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCATTTAcgtc < 1:1496873/66‑1 (MQ=255)
aTTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCATTTAcgtc < 1:2839306/66‑1 (MQ=255)
tttATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCt < 1:1400525/50‑1 (MQ=255)
tttATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCt < 1:350368/50‑1 (MQ=255)
tttATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCATTTACGTGGTCACg < 1:9292/71‑1 (MQ=255)
tttATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCATTTACGTCGTCACg < 1:2673993/71‑1 (MQ=255)
gATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCATTTACGTCGTCACGGCCtgtg < 1:2152187/71‑1 (MQ=255)
cAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGcatcat > 1:2038191/1‑48 (MQ=255)
aTAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCATTTAcgtc > 1:43227/1‑48 (MQ=255)
aTAAACCTGTTCCACCGCTGCGCCAG‑TATTCTGGCATCATTTAcgtc > 1:931259/1‑47 (MQ=39)
aaaCCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCATTTa > 1:3805683/1‑42 (MQ=255)
aaaCCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCATTTa > 1:1123523/1‑42 (MQ=255)
aaaCCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCATTTa > 1:155675/1‑42 (MQ=255)
|
ACCGTACGTGGCCTGCGTTAATGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCATTTACGTCGTCACGGCCTGTG > W3110S.gb/2892424‑2892541
|
| 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
