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 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
413,091 |
C→T |
64.6% |
S364S (TCG→TCA) |
lnt ← |
apolipoprotein N‑acyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 413,091 | 0 | C | T | 64.6%
| 28.2
/ 25.8
| 48 | S364S (TCG→TCA) | lnt | apolipoprotein N‑acyltransferase |
| Reads supporting (aligned to +/- strand): ref base C (14/3); new base T (11/20); total (25/23) |
| Fisher's exact test for biased strand distribution p-value = 2.54e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ATAGCCGCAGTAAGCTCAATACCATTTGCCGACAGCGGCGGCTGGATATATGGCCCACGGCTGAACGACGACATCGGCAGATCAAAGAACGGTGCTAACGGACGCAGAATCGACTCCAGCGGGACAAA > minE/413026‑413153
|
aTAGCCGCAGTAAGCTCAATACCATTTGCCGACAGCGGCGGCTGGATATATGGCCCACGGCTGAacgac < 1:145945/69‑1 (MQ=255)
tAGCCGCAGTAAGCTCAATACCATTTGCCGACAGCGGCGGCTGGATATATGGCCCACGGCTGAacgac < 1:2164338/68‑1 (MQ=255)
tACCATTTGCCGACAGCGGCGGCTGGATATATGGCCCACGGCTGAACGACGACATCGGCAGATCAAAg < 1:3072716/68‑1 (MQ=255)
tACCATTTGCCGACAGCGGCGGCTGGATATATGGCCCACGGCTGAACGACGACATCGGCAGATCAAAg < 1:1721012/68‑1 (MQ=255)
tACCATTTGCCCACAGCGGCGGCTGGATATATGGCCCACGGCTGAACGACGACATCGGCAGATCAAAg < 1:2635460/68‑1 (MQ=255)
ccATTTGCCGACAGCGGCGGCTGGATATATGGCCCACGGCTGAACGACGACATCGGCAGATCAAAGAAc > 1:1339300/1‑69 (MQ=255)
ccATTTGCCGACAGCGGCGGCTGGATATATGGCCCACGGCTGAACGACGACATCGGCAGATCAAAGAAc > 1:1436920/1‑69 (MQ=255)
ccATTTGCCGACAGCGGCGGCTGGATATATGGCCCACGGCTGAACGACGACATCGGCAGATCAAAGAAc > 1:1536832/1‑69 (MQ=255)
aCAGCGGCGGCTGGATATATGGCCCACGGCTGAacgac < 1:3382640/38‑1 (MQ=255)
aGCGGCGGCTGGATATATGGCCCACGGCTGAACGACGACATCGGCAGATCAAAGAACGGTGCt > 1:1163170/1‑63 (MQ=255)
aGCGGCGGCTGGATATATGGCCCACGGCTGAACGACGACATCGGCAGATCAAAGAACGGTGCt > 1:1682644/1‑63 (MQ=255)
aGCGGCGGCTGGATATATGGCCCACGGCTGAACGACGACATCGGCAGATCAAAGAACGGTGCTAACGGa > 1:608175/1‑69 (MQ=255)
aGCGGCGGCTGGATATATGGCCCACGGCTGAACGACGACATCGGCAGATCAAAGAACGGTGCTAACGGa > 1:2050770/1‑69 (MQ=255)
aGCGGCGGCTGGATATATGGCCCACGGCTGAACGACGACATCGGCAGATCAAAGAACGGTGCTAACGGa > 1:1593153/1‑69 (MQ=255)
atatGGCCCACGGCTGAACGACGACATCGGCAGATCAAAGAACGGTGCTAACGGACg > 1:806745/1‑57 (MQ=255)
atatGGCCCACGGCTGAACGACGACATCGGCAGATCAAAGAACGGTGCTAACGGACGCAGAATCGAc > 1:2646345/1‑67 (MQ=255)
atatGGCCCACGGCTGAACGACGACATCGGCAGATCAAAGAACGGTGCTAACGGACGCAGAATCGAc > 1:350544/1‑67 (MQ=255)
atGGTCCGCGGCTGAATGAAGACATCGGCAAATCAAAGAACGGTGCt < 1:945694/47‑1 (MQ=255)
atGGTCCGCGGCTGAATGAAGACATCGGCAAATCAAAGAACGGTGCt < 1:3362736/47‑1 (MQ=255)
atGGTCCGCGGCTGAATGAAGACATCGGCAAATCAAAGAACGGTGCt < 1:866392/47‑1 (MQ=255)
atGGTCCGCGGCTGAATGAAGACATCGGCAAATCAAAGAACGGTGCt < 1:3383061/47‑1 (MQ=255)
atGGTCCGCGGCTGAATGAAGACATCGGCAAATCAAAGAACGGTGCt < 1:3420669/47‑1 (MQ=255)
atGGTCCGCGGCTGAATGAAGACATCGGCAAATCAAAGAACGGTGCt < 1:351491/47‑1 (MQ=255)
atGGTCCGCGGCTGAATGAAGACATCGGCAAATCAAAGAACGGTGCt < 1:462443/47‑1 (MQ=255)
atGGTCCGCGGCTGAATGAAGACATCGGCAAATCAAAGAACGGTGCt < 1:478139/47‑1 (MQ=255)
atGGTCCGCGGCTGAATGAAGACATCGGCAAATCAAAGAACGGTGCt < 1:583354/47‑1 (MQ=255)
atGGTCCGCGGCTGAATGAAGACATCGGCAAATCAAAGAACGGTGCt < 1:60565/47‑1 (MQ=255)
atGGTCCGCGGCTGAATGAAGACATCGGCAAATCAAAGAACGGTGCt < 1:2937674/47‑1 (MQ=255)
atGGTCCGCGGCTGAATGAAGACATCGGCAAATCAAAGAACGGTGCt < 1:13825/47‑1 (MQ=255)
atGGTCCGCGGCTGAATGAAGACATCGGCAAATCAAAGAACGGTGCt < 1:1820306/47‑1 (MQ=255)
atGGTCCGCGGCTGAATGAAGACATCGGCAAATCAAAGAACGGTGCt < 1:1846753/47‑1 (MQ=255)
atGGTCCGCGGCTGAATGAAGACATCGGCAAATCAAAGAACGGTGCt < 1:2189286/47‑1 (MQ=255)
atGGTCCGCGGCTGAATGAAGACATCGGCAAATCAAAGAACGGTGCt < 1:2272132/47‑1 (MQ=255)
atGGTCCGCGGCTGAATGAAGACATCGGCAAATCAAAGAACGGTGCt < 1:267907/47‑1 (MQ=255)
atGGTCCGCGGCTGAATGAAGACATCGGCAAATCAAAGAACGGTGCt < 1:2277951/47‑1 (MQ=255)
atGGTCCGCGGCTGAATGAAGACATCGGCAAATCAAAGAACGGTGCt < 1:2320419/47‑1 (MQ=255)
tGGTCCGCGGCTGAATGAAGACATCGGCAAATCAAAGAACGGTGCt < 1:2776181/46‑1 (MQ=255)
tGGCCCACGGCTGAACGACGACATCGGCAGATCAAAGAACGGTGCTAACgg > 1:1106052/1‑51 (MQ=255)
tGGCCCACGGCTGAACGACGACATCGGCAGATCAAAGAACGGTGCTAACGGACGCAGAATCGACTCCAg > 1:3382393/1‑69 (MQ=255)
ccgcGGCTGAATGAGGACATCGGCAAATCAAAGAACGGTGCTAACGGACGCAGTATCGACTCCAGTgg > 1:3195376/4‑68 (MQ=255)
ccgcGGCTGAATGAAGACATCGGCAAATCAAAGAACGGTGCTAACGGACGCAGTATCGACTCCAGTgg > 1:2639209/4‑68 (MQ=255)
ccgcGGCTGAATGAAGACATCGGCAAATCAAAGAACGGTGCTAACGGACGCAGTATCGACTCCAGTgg > 1:446005/4‑68 (MQ=255)
ccgcGGCTGAATGAAGACATCGGCAAATCAAAGAACGGTGCTAACGGACGCAGTATCGACTCCAGTgg > 1:2853679/4‑68 (MQ=255)
ccgcGGCTGAATGAAGACATCGGCAAATCAAAGAACGGTGCTAACGGACGCAGTATCGACTCCAGTgg > 1:3303627/4‑68 (MQ=255)
ccgcGGCTGAATGAAGACATCGGCAAATCAAAGAACGGTGCTAACGGACGCAGTATCGACTCCAGTgg > 1:1711706/4‑68 (MQ=255)
ccgcGGCTGAATGAAGACATCGGCAAATCAAAGAACGGTGCTAACGGACGCAGTATCGACTCCAGTgg > 1:775139/4‑68 (MQ=255)
ccgcGGCTGAATGAAGACATCGGCAAATCAAAGAACGGTGCTAACGGACGCAGTATCGACTCCAGTgg > 1:3094038/4‑68 (MQ=255)
ccgcGGCTGAATGAAGACATCGGCAAATCAAAGAACGGTGCTAACGGACGCAGTATCGACTCCAGTgg > 1:1187851/4‑68 (MQ=255)
ccgcGGCTGAATGAAGACATCGGCAAATCAAAGAACGGTGCTAACGGACGCAGTATCGACTCCAGTgg > 1:911651/4‑68 (MQ=255)
ccgcGGCTGAATGAAGACATCGGCAAATCAAAGAACGGTGCTAACGGACGCAGTATCGACTCCAGTgg > 1:3046505/4‑68 (MQ=255)
gCTGAACGACGACATCGGCAGATCAAAGAACGGTGCTAACGGACGCAGAATCGACTCCAGCGGGACaaa > 1:911544/1‑69 (MQ=255)
|
ATAGCCGCAGTAAGCTCAATACCATTTGCCGACAGCGGCGGCTGGATATATGGCCCACGGCTGAACGACGACATCGGCAGATCAAAGAACGGTGCTAACGGACGCAGAATCGACTCCAGCGGGACAAA > minE/413026‑413153
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
