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 |
4,074,022 |
G→A |
20.4% |
A63T (GCC→ACC) |
glgP → |
glycogen phosphorylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,074,022 | 0 | G | A | 20.4%
| 94.1
/ 18.8
| 44 | A63T (GCC→ACC) | glgP | glycogen phosphorylase |
| Reads supporting (aligned to +/- strand): ref base G (14/21); new base A (3/6); total (17/27) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.47e-01 |
TGGCTGAACGCAACGTTATTTGCTGTGCGCGATCGTCTCGTGGAGCGCTGGTTACGTTCAAACCGTGCCCAGTTGTCGCAAGAAACTCGTCAGGTTTACTACCTGTCGATGGAGTTTTTGATTGGCCGTACG > W3110S.gb/4073956‑4074087
|
tagCTGAACGCAACGTTATTTGCTGTGCGCGATCGTCTCGTGGAGCGCTGGTTACGTTCAAACCGTAcc > 1:196725/3‑69 (MQ=255)
tGGCTGAACGCAACGTTATTTGCTGTGCGCGATCGTCTCGTGGAGCGCTGGTTACGTTCAAACCGTAcc > 1:642025/1‑69 (MQ=255)
tGGCTGAACGCAACGTTATTTGCTGTGCGCGATCGTCTCGTGGAGCGCTGGTTACGTTCAAACCGTAcc > 1:609314/1‑69 (MQ=255)
aaCGCAACGTTATTTGCTGTGCGCGATCGTCTCGTGGAGCGCTGGTTACGTTCAAACCGTGCCCAGTTGTc < 1:3805300/71‑1 (MQ=255)
cGCAACGTTATTTGCTGTGCGCGATCGTCTCGTGGAGCGCTGGTTACGTTCAAACCGTGCCCAGTTGTCg > 1:901874/1‑70 (MQ=255)
aCGTTATTTGCTGTGCGCGATCGTCTCGTGGAGCGCTGGTTACGTTCAAACCGTGCCCAGTTGTCGCAAGa < 1:382591/71‑1 (MQ=255)
aCGTTATTTGCTGTGCGCGATCGTCTCGTGGAGCGCTGGTTACGTTCAAACCGTGCCCAGTTGTCGCAAGa < 1:1996747/71‑1 (MQ=255)
aCGTTATTTGCTGTGCGCGATCGTCTCGTGGAGCGCTGGTTACGTTCAAACCGTGCCCAGTTGTCGCAAGa < 1:1988725/71‑1 (MQ=255)
aCGTTATTTGCTGTGCGCGATCGTCTCGTGGAGCGCTGGTTACGTTCAAACCGTGCCCAGTTGTCGCAAGa < 1:78119/71‑1 (MQ=255)
aCGTTATTTGCTGTGCGCGATCGTCTCGTGGAGCGCTGGTTACGTTCAAACCGTACCCAGTTGTCGCAAGa < 1:2411586/71‑1 (MQ=255)
aCGTTATTTGCTGTGCGCGATCGTCTCGTGGAGCGCTGGTTACGTTCAAACCGTACCCAGTTGTCGCAAGa < 1:2259091/71‑1 (MQ=255)
cGTTATTTGCTGTGCGCGATCGTCTCGTGGAGCGCTGGTTACGTTCAAACCGTGCCCAGTTGTCGc < 1:1611157/66‑1 (MQ=255)
gTTATTTGCTGTGCGCGATCGTCTCGTGGAGCGCTGGTTACGTTCAAACCGTGCCCAGTTGTCGCAAGaaa > 1:2746707/1‑71 (MQ=255)
gCTGTGCGCGATCGTCTCGTGGAGCGCTGGTTACGTTCAAACCGTGCCCAGTTGTCGCAAGAAACTCGTc < 1:3907591/70‑1 (MQ=255)
tgCGCGATCGTCTCGTGGAGCGCTGGTTACGTTCAAACCGTGCCCAGTTGTCGCAAGAAACTCGTCAGGtt < 1:1295450/71‑1 (MQ=255)
cgcgATCGTCTCGTGGAGCGCTGGTTACGTTCAAACCGTGCCCAGTTGTCGCAAGAAACTCGTCAGGttt < 1:1501237/70‑1 (MQ=255)
cgcgATCGTCTCGTGGAGCGCTGGTTACGTTCAAACCGTGCCCAGTTGTCGCAAGAAACTCGTCAGGttt < 1:1060289/70‑1 (MQ=255)
cgcgATCGTCTCGTGGAGCGCTGG‑TACGTTCAAACCGTGCCCAGTTGTCGCAAGAAACTCGTCAGGTTtac > 1:1952399/1‑71 (MQ=255)
cgATCGTCTCGTGGAGCGCTGGTTACGTTCAAACCGTGCCCAGTTGTCGCAAGAAACTCGTCAGGTTtact < 1:3960305/71‑1 (MQ=255)
tcGTGGAGCGCTGGTTACGTTCAAACCGTGCCCAGTTGTCGCAAGAAACTCGTCAGGTTTACTACCTGTc > 1:1979961/1‑70 (MQ=255)
gTGGAGCGCTGGTTACGTTCAAACCGTGCCCAGTTGTCGCAAGAAACTCGTCAGGTTTACTACCTGTc < 1:2399530/68‑1 (MQ=255)
gTGGAGCGCTGGTTACGTTCAAACCGTACCCAGTTCTCGCAAGAAACTCGTCAGGTTTACTACCTGTc < 1:153250/68‑1 (MQ=255)
ggTTACGTTCAAACCGTGCCCAGTTGTCGCAAGAAACTCGTCAGGTTTACTACCTGTCGATGGAGttt > 1:3805847/1‑68 (MQ=255)
gTTACGTTCAAACCGTGCCCAGTTGTCGCAAGAAACTCGTCAGGTTTACTACCTGTCGATGGAGttttt < 1:3566588/69‑1 (MQ=255)
gTTACGTTCAAACCGTGCCCAGTTGTCGCAAGAAACTCGTCAGGTTTACTACCTGTCGATGGAGttttt < 1:3662579/69‑1 (MQ=255)
gTTACGTTCAAACCGTGCCCAGTTGTCGCAAGAAACTCGTCAGGTTTACTACCTGTCGATGGAGttttt < 1:3584228/69‑1 (MQ=255)
gTTACGTTCAAACCGTGCCCAGTTGTCGCAAGAAACTCGTCAGGTTTACTACCTGTCGATGGAGttttt < 1:3628573/69‑1 (MQ=255)
gTTACGTTCAAACCGTGCCCAGTTGTCGCAAGAAACTCGTCAGGTTTACTACCTGTCGATGGAGTTTTTg < 1:1312800/70‑1 (MQ=255)
gTTACGTTCAAACCGTGCCCAGTTGTCGCAAGAAACTCGTCAGGTTTACTACCTGTCGATGGAGTTTTTg < 1:2810995/70‑1 (MQ=255)
gTTACGTTCAAACCGTGCCCAGTTGTCGCAAGAAACTCGTCAGGTTTACTACCTGTCGATGGAGTTTTTg < 1:3710174/70‑1 (MQ=255)
ttACGTTCAAACCGTGCCCAGTTGTCGCAAGAAACTCGTCAGGTTTACTACCTGTCGATGGAGTTTTTGAt < 1:1148739/71‑1 (MQ=255)
tACGTTCAAACCGTGCCCAGTTGTCGCAAGAAACTCGTCAGGTTTACTACCTGTCGATGGAGTTTTTGAtt > 1:2369057/1‑71 (MQ=255)
aCGTTCAAACCGTGCCCAGTTGTCGCAAGAAAATCGTCAGGTTTACTACCTGTCGATGGAGTTTTTGATTg > 1:13080/1‑71 (MQ=255)
ttCAAACCGTGCCCAGTTGTCGCAAGAAACTCGTCAGGTTTACTACCTGTCGATGGAGTTTTTGAtt > 1:3572298/1‑67 (MQ=255)
ttCAAACCGTGCCCAGTTGTCGCAAGAAACTCGTCAGGTTTACTACCTGTCGATGGAGTTTTTGATTGGcc > 1:216410/1‑71 (MQ=255)
ttCAAACCGTGCCCAGTTGTCGCAAGAAACTCGTCAGGTTTACTACCTGTCGATGGAGTTTTTGATTGGc > 1:239873/1‑70 (MQ=255)
ttCAAACCGTACCCAGTTGTCGCAAGAAACTCGTCAGGTTTACTACCTGTCGATg < 1:3384404/55‑1 (MQ=255)
ttCAAACCGTACCCAGTTGTCGCAAGAAACTCGTCAGGTTTACTACCTGTCGATg < 1:1684094/55‑1 (MQ=255)
ttCAAACCGTACCCAGTTGTCGCAAGAAACTCGTCAGGTTTACTACCTGTCGATg < 1:608701/55‑1 (MQ=255)
aCCGTGCCCAGTTGTCGCAAGAAACTCGTCAGGTTTACTACCTGTCGATGGAGtt < 1:2017438/55‑1 (MQ=255)
aCCGTGCCCAGTTGTCGCAAGAAACTCGTCAGGTTTACTACCTGTCGATGGAGTTTTTGATTGGCCGTGCg > 1:3486796/1‑71 (MQ=255)
aCCGTGCCCAGTTGTCGCAAGAAACTCGTCAGGTTTACTACCTGTCGATGGAGTTTTTGATTGGCCGTACg > 1:2031988/1‑71 (MQ=255)
aCCGTGCCCAGTTGTCGCAAGAAACTCGTCAGGTTTACTACCTGTCGATGGAGTTTTTGATTGGCCGTACg > 1:1512869/1‑71 (MQ=255)
aCCGTGCCCAGTTGTCGCAAGAAACTCGTCAGGTTTACTACCTGTCGATGGAGTTTTTGATTGGCCGTACg > 1:1146481/1‑71 (MQ=255)
|
TGGCTGAACGCAACGTTATTTGCTGTGCGCGATCGTCTCGTGGAGCGCTGGTTACGTTCAAACCGTGCCCAGTTGTCGCAAGAAACTCGTCAGGTTTACTACCTGTCGATGGAGTTTTTGATTGGCCGTACG > W3110S.gb/4073956‑4074087
|
| 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
