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 F3 I0 R1
|
560 |
56.4 |
4650532 |
94.9% |
4413354 |
59.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,892,483 |
A→G |
17.7% |
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 | 17.7%
| 141.3
/ 24.9
| 62 | K391E (AAA→GAA) | ygcN | predicted oxidoreductase, FAD/NAD(P)‑binding domain |
| Reads supporting (aligned to +/- strand): ref base A (29/22); new base G (4/7); total (33/29) |
| Fisher's exact test for biased strand distribution p-value = 3.20e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ATGGTACCGTACGTGGCCTGCGTTAATGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCATTTACGTCGTCACGGCCTGTGGCATCTGGCGGG > W3110S.gb/2892419‑2892553
|
aTGGTACCGTACGTGGCCTGCGTTAATGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATAAACCTg < 1:1054594/71‑1 (MQ=255)
tGGTACCGTACGTGGCCTGCGTTAATGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGt > 1:1811645/1‑71 (MQ=255)
gTACCGTACGTGGCCTGCGTTAATGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATGAACCTGTTc < 1:206307/71‑1 (MQ=255)
tACCGTACGTGGCCTGCGTTAATGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATaa < 1:3222729/62‑1 (MQ=255)
tACCGTACGTGGCCTGCGTTAATGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTcc < 1:1733329/71‑1 (MQ=255)
aCCGTACGTGGCCTGCGTTAATGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCa > 1:898134/1‑71 (MQ=255)
aCCGTACGTGGCCTGCGTTAATGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCa > 1:4569289/1‑71 (MQ=255)
ccGTACGTGGCCTGCGTTAATGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGt < 1:1635256/66‑1 (MQ=255)
ccGTACGTGGCCTGCGTTAATGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCa < 1:572722/70‑1 (MQ=255)
ccGTACGTGGCCTGCGTTAATGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCAc > 1:1244204/1‑71 (MQ=255)
cGTGGCCTGCGTTAATGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATGAACCTGTTCCACCGCt > 1:3811865/1‑70 (MQ=255)
cGTGGCCTGCGTTAATGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTg > 1:767824/1‑71 (MQ=255)
cGTGGCCTGCGTTAATGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTg > 1:404370/1‑71 (MQ=255)
gCCTGCGTTAATGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATGAACCTGTTCCACCGCTGCGcc < 1:1482374/71‑1 (MQ=255)
cTGCGTTAATGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATGAACCTGTTCCACCGCTGCGCCAg > 1:1586026/1‑71 (MQ=255)
cGTTAATGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATGAACATGTTCCACCGCTGCGCCAGTTa < 1:4405630/71‑1 (MQ=255)
cGTTAATGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGt < 1:1831731/69‑1 (MQ=255)
cGTTAATGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGt < 1:1158901/69‑1 (MQ=255)
cGTTAATGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTa < 1:3548142/71‑1 (MQ=255)
gTTAATGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTc > 1:832457/1‑53 (MQ=255)
aaTGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATGAACCTGTTCCACCGCTGCGCCAGTTATTCt > 1:365571/1‑71 (MQ=255)
aaTGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCa > 1:1106177/1‑52 (MQ=255)
aaTGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTc > 1:3791895/1‑70 (MQ=255)
aTGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTg > 1:4080515/1‑71 (MQ=255)
tGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATAAAc < 1:2516791/42‑1 (MQ=255)
tGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATAAACCTg < 1:2633603/45‑1 (MQ=255)
cAGGATATTTCCCGCGATTTATGGGATCAGGGTGATGAACCTGTTCCACCGCTGCGCCAGTTATTc > 1:3571077/1‑66 (MQ=255)
cAGGATATTTCCCGCGATTTATGGGATCAGGGTGATAAAc > 1:3597742/1‑40 (MQ=255)
gATATTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTgg < 1:2126331/66‑1 (MQ=255)
gATATTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGcatca > 1:2866988/1‑71 (MQ=255)
atatTTCCCGCGATTTATGGGATCAGGGTGATGAACCTGTTCCACCGCTGCGCCAGTTATTCTGGcatcat < 1:2044963/71‑1 (MQ=255)
tatTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTcc > 1:2729720/1‑42 (MQ=255)
tatTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGcatcat < 1:3119019/70‑1 (MQ=255)
tatTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCAtt < 1:1748417/71‑1 (MQ=255)
tatTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCAtt > 1:4515121/1‑71 (MQ=255)
tttCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCTCCAGTTATTCTGGca < 1:2336657/64‑1 (MQ=255)
ttCCCGCGATTTATGTGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTgg < 1:1533881/61‑1 (MQ=255)
tCCCGCGATTTATGGGATCAGGGTGATGAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCATTTAc < 1:1127636/70‑1 (MQ=255)
cccGCGATTTATGGGATCAGGGTGATAAACCTGTTCCa > 1:739866/1‑38 (MQ=255)
cccGCGATTTATGGGATCAGGGTGATAAACCTGTTCCAc > 1:745082/1‑39 (MQ=255)
gcgATTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCt > 1:2341398/1‑54 (MQ=255)
gATTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCAtt < 1:2792409/61‑1 (MQ=255)
tATGGGATCAGGGTGATGAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCAttt < 1:2816457/58‑1 (MQ=255)
tGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCATTTACGTCGTCa > 1:752620/1‑65 (MQ=255)
ggATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCATTTACGTCGTCACGGCCtgt < 1:3839318/71‑1 (MQ=255)
ggATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCATTTACGTCGTCACGGCCtgt < 1:2046457/71‑1 (MQ=255)
ggATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCATTTACGTCGTCACGGCCtg < 1:4645410/70‑1 (MQ=255)
aTCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGcatcat > 1:1069095/1‑50 (MQ=255)
aTCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCAtt < 1:2335458/51‑1 (MQ=255)
tCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCATTTACGTCGTCACGGCCTGTGGc < 1:2264449/71‑1 (MQ=255)
cAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTAtt > 1:1208187/1‑38 (MQ=255)
cAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTAtt > 1:4555071/1‑38 (MQ=255)
cAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTg > 1:4462774/1‑41 (MQ=255)
aGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCATTTACGTCGTCACGGCCTGTGGCa > 1:3360403/1‑70 (MQ=255)
aGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCATTTACGTCGTCACGGCCTGTGGCAt > 1:2864845/1‑71 (MQ=255)
gTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCATTTACGTCGTCACGGCCTGTGGCATCTg > 1:3051578/1‑71 (MQ=255)
gTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCATTTACGTCGTCACGGACTGTGGCATCTg > 1:4417646/1‑71 (MQ=255)
gATGAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCAttt < 1:1317922/44‑1 (MQ=255)
gATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCATTTACGTCGTCACGGCCTGTGGCATCTggc > 1:814758/1‑71 (MQ=255)
aTAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGcatca < 1:749461/40‑1 (MQ=255)
aTAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCATTTAcg > 1:2304883/1‑46 (MQ=255)
aTAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCATTTACGTCGTCACGGCCtgtg > 1:3879548/1‑61 (MQ=255)
aTAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCATTTACGTCGTCACGGCCtgt < 1:3129487/60‑1 (MQ=255)
aaaCCTGTTCCACCGCTGCGCCAGTTATTCTGGcatc > 1:1080794/1‑37 (MQ=255)
aaaCCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCATTTACGTCGTCACGGCCTGTGGCATCTggcggg > 1:500490/1‑71 (MQ=255)
aaaCCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCATTTACGTCGTCACGGCCTGTGGCATCTggcggg > 1:4454749/1‑71 (MQ=255)
|
ATGGTACCGTACGTGGCCTGCGTTAATGCAGGATATTTCCCGCGATTTATGGGATCAGGGTGATAAACCTGTTCCACCGCTGCGCCAGTTATTCTGGCATCATTTACGTCGTCACGGCCTGTGGCATCTGGCGGG > W3110S.gb/2892419‑2892553
|
| 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
