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 |
4,482,473 |
A→G |
35.5% |
L174P (CTC→CCC) |
argI ← |
ornithine carbamoyltransferase 1 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,482,473 | 0 | A | G | 35.5%
| 57.0
/ 62.5
| 62 | L174P (CTC→CCC) | argI | ornithine carbamoyltransferase 1 |
| Reads supporting (aligned to +/- strand): ref base A (15/25); new base G (6/16); total (21/41) |
| Fisher's exact test for biased strand distribution p-value = 5.76e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.36e-01 |
CTTCCGGCCAGCACGCTTGTGGCGCGACCAGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTT > W3110S.gb/4482408‑4482540
|
cTTCCGGCCAGCACGCTTGTGGCGCGACCAGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATc < 1:3586380/71‑1 (MQ=255)
cTTCCGGCCAGCACGCTTGTGGCGCGACCAGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATc < 1:3027827/71‑1 (MQ=255)
tCCGGCCAGCACGCTTGTGGCGCGACCAGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGGGCATCg > 1:1441111/1‑70 (MQ=255)
tCCGGCCAGCACGCTTGTGGCGCGACCAGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCg > 1:1777656/1‑70 (MQ=255)
ccGGCCAGCACGCTTGTGGCGCGACCAGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCTAGCATCg < 1:2008648/69‑1 (MQ=255)
ccGGCCAGCACGCTTGTGGCGCGACCAGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGGGCATCg < 1:359229/69‑1 (MQ=255)
ccGGCCAGCACGCTTGTGGCGCGACCAGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCGa < 1:3221224/70‑1 (MQ=255)
ccGGCCAGCACGCTTGTGGCGCGACCAGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCGa < 1:559358/70‑1 (MQ=255)
ggCCAGCACGCTTGTGGCGCGACCAGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCGAAtt < 1:3909205/71‑1 (MQ=255)
catcACGCTTGTGGCGCGACCAGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCGAATTGcc < 1:3315014/68‑1 (MQ=255)
cAGCACGCTTGTGGCGCGACCAGCCGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCGAAt > 1:2170953/1‑67 (MQ=255)
cAGCACGCTTGTGGCGCGACCAGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCGaa > 1:3113928/1‑66 (MQ=255)
cAGCACGCTTGTGGCGCGACCAGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCGAATTGcc > 1:2397515/1‑71 (MQ=255)
cAGCACGCTTGTGGCGCGACCAGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCGAATTGcc > 1:3133086/1‑71 (MQ=255)
aGCACGCTTGTGGCGCGACCAGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGGGCATCGa < 1:1020091/64‑1 (MQ=255)
gCACGCTTGTGGCGCGACCAGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCg < 1:2357074/62‑1 (MQ=255)
gCACGCTTGTGGCGCGACCAGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCg < 1:533882/62‑1 (MQ=255)
aCGCTTGTGGCGCGACCAGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGGGCATCGAATTGCCCAtg < 1:3722393/71‑1 (MQ=255)
cGCTTGTGGCGCGACCAGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCGAATTGCCCAtgt < 1:805743/71‑1 (MQ=255)
cTTGTGGCGCGACCAGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCGAATTGCCCAtgttg > 1:3558747/1‑71 (MQ=255)
cTTGTGGCGCGACCAGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCGAATTGCCCAtgttg > 1:1358597/1‑71 (MQ=255)
cTTGTGGCGCGACCAGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCGAATTGCCCAtgttg > 1:1121607/1‑71 (MQ=255)
gtgGCGCGACCAGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGGGCATCGAATTGCCCAtgttgt < 1:1419693/69‑1 (MQ=255)
gtgGCGCGACCAGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGGGCATCGAATTGCCCAtgttgt < 1:1940976/69‑1 (MQ=255)
gtgGCGCGACCAGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGGGCATCGAATTGCCCAtgttgt < 1:933068/69‑1 (MQ=255)
gtgGCGCGACCAGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCGAATTGCCCAtgttgt < 1:2360019/69‑1 (MQ=255)
gtgGCGCGACCAGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCGAATTGCCCAtgttgt < 1:2007480/69‑1 (MQ=255)
gtgGCGCGACCAGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCGAATTGCCCAtgttgt < 1:1846635/69‑1 (MQ=255)
tgGCGCGACCAGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGGGCATCGAATTGCCCAtgttgt < 1:4005819/68‑1 (MQ=255)
gACCAGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGt < 1:1275004/71‑1 (MQ=255)
gACCAGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGt < 1:3206813/71‑1 (MQ=255)
cAGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCAc > 1:3738018/1‑71 (MQ=255)
cAGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCAc > 1:1703809/1‑71 (MQ=255)
cAGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCAc > 1:3055417/1‑71 (MQ=255)
aGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCAcc > 1:2443880/1‑71 (MQ=255)
aCGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGGGCATCGAATTGCCCATgttgtt < 1:1875266/57‑1 (MQ=255)
aCGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGGGCATCGAATTGCCCATgttgtt < 1:185672/57‑1 (MQ=255)
aCGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGGGCATCGAATTGCCCATgttgtt < 1:1039576/57‑1 (MQ=255)
aCGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCg < 1:3959890/41‑1 (MQ=255)
aCGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTg < 1:2800042/71‑1 (MQ=255)
aCGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTg < 1:1045391/71‑1 (MQ=255)
aCGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTg < 1:1868877/71‑1 (MQ=255)
cGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCAc > 1:1021120/1‑67 (MQ=255)
gCAAATCCAGACCGGTAAGCGCCGCAGCTTCGGGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCa < 1:3860745/71‑1 (MQ=255)
gCAAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCGAATTGc > 1:2854748/1‑45 (MQ=255)
gCAAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCa < 1:606048/71‑1 (MQ=255)
cAAATCCAGACCGGTAAGCGCCGCAGCTTCGGGCATCGa < 1:917782/39‑1 (MQ=255)
cAAATCCAGACCGGTAAGCGCCGCAGCTTCGGGCATCGa < 1:222683/39‑1 (MQ=255)
cAAATCCAGACCGGTAAGCGCCGCAGCTTCGGGCATCGa < 1:2098247/39‑1 (MQ=255)
cAGACCGGTAAGCGCCGCAGCTTCGAGCATCGAATTGCCCATGTTGTTa > 1:3985616/1‑49 (MQ=255)
cGGTAAGCGCCGCAGCTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTc < 1:1602788/71‑1 (MQ=255)
aGCGCCGCAGCTTCGGGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTc < 1:1199393/71‑1 (MQ=255)
aGCGCCGCAGCTTCGGGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGGCATTTc < 1:2798611/71‑1 (MQ=255)
gcgcCGCAGCTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGAc < 1:2046356/58‑1 (MQ=255)
gcgcCGCAGCTTCGAGCATCGAATTGCCCATGTTCTTACGCGCGTCACCTGCATAGAc < 1:846129/58‑1 (MQ=255)
ccgcAGCTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTg < 1:149647/71‑1 (MQ=255)
gcAGCTTCGGGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATa > 1:3192031/1‑50 (MQ=255)
gcAGCTTCGGGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATa > 1:3436776/1‑50 (MQ=255)
gcAGCTTCGGGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATa > 1:3160001/1‑50 (MQ=255)
tCGGGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCAttt > 1:1604469/1‑58 (MQ=255)
tCGGGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCttt > 1:720538/1‑71 (MQ=255)
gAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATa < 1:42649/42‑1 (MQ=255)
|
CTTCCGGCCAGCACGCTTGTGGCGCGACCAGACGCAAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTT > W3110S.gb/4482408‑4482540
|
| 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
