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 R2
|
260 |
44.3 |
3360226 |
90.5% |
3041004 |
64.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,833,686 |
G→A |
21.9% |
P4L (CCA→CTA) |
astC ← |
succinylornithine transaminase, PLP‑dependent |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,833,686 | 0 | G | A | 21.9%
| 80.8
/ 18.6
| 41 | P4L (CCA→CTA) | astC | succinylornithine transaminase, PLP‑dependent |
| Reads supporting (aligned to +/- strand): ref base G (12/20); new base A (3/6); total (15/26) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.86e-01 |
GGTATAAAGGGTGCCGGAGCGTAAACAGGTATCATCCATTCATCAAAGTTTTCACGCGTAATTGGCTGAGACATAGCGACCTCTACAGTAAATAATTCGTTATTTATATGTTAATAATAAG > W3110S.gb/1833623‑1833743
|
ggTATAAAGGGTGCCGGAGCGTAAACAGGTATCATCCATTCATCAAAGTTTTCACGCGTAATTGTCTgaga < 1:916734/71‑1 (MQ=255)
ggTATAAAGGGTGCCGGAGCGTAAACAGGTATCATCCATTCATCAAAGTTTTCACGCGTAATTGGCTgaga < 1:1226653/71‑1 (MQ=255)
ggTATAAAGGGTGCCGGAGCGTAAACAGGTATCATCCATTCATCAAAGTTTTCACGCGTAATTGGCTgaga < 1:2747298/71‑1 (MQ=255)
ggTATAAAGGGTGCCGGAGCGTAAACAGGTATCATCCATTCATCAAAGTTTTCACGCGTAATTGGCTgaga < 1:2264564/71‑1 (MQ=255)
ggTATAAAGGGTGCCGGAGCGTAAACAGGTATCATCCATTCATCAAAGTTTTCACGCGTAATTGGCTgaga < 1:2058786/71‑1 (MQ=255)
ggTATAAAGGGTGCCGGAGCGTAAACAGGTATCATCCATTCATCAAAGTTTTCACGCGTAATTGGCTgaga < 1:1672395/71‑1 (MQ=255)
ggTATAAAGGGTGCCGGAGCGTAAACAGGTATCATCCATTCATCAAAGTTTTCACGCGTAATTGGCTgaga < 1:1561594/71‑1 (MQ=255)
ggTATAAAGGGTGCCGGAGCGTAAACAGGTATCATCCATTCATCAAAGTTTTCACGCGTAATTGGCTgaga < 1:1224669/71‑1 (MQ=255)
ggTATAAAGGGTGCCGGAGCGTAAACAGGTATCATCCATTCATCAAAGTTTTCACGCGTAATTGGCTgaga < 1:969113/71‑1 (MQ=255)
gTATAAAGGGTGCCGGAGCGTAAACAGGTATCATCCATTCATCAAAGTTTTCACGCGTAATTGGCTgaga < 1:633014/70‑1 (MQ=255)
ggAGCGTAAACAGGTATCATCCATTCATCAAAGTTTTCACGCGTAATTg > 1:2280771/1‑49 (MQ=255)
ggAGCGTAAACAGGTATCATCCATTCATCAAAGTTTTCACGCGTAATTGGCTGAGACATa > 1:80616/1‑60 (MQ=255)
ggAGCGTAAACAGGTATCATCCATTCATCAAAGTTTTCACGCGTAATTGGCTGAGACATa > 1:2483351/1‑60 (MQ=255)
cATTCATCAAAGTTTTCACGCGTAATTAGCTGAGACATAGCGACCTCTACAGTAAATAATTCGt < 1:1825322/64‑1 (MQ=255)
cATTCATCAAAGTTTTCACGCGTAATTAGCTGAGACATAGCGACCTCTACAGTAAATAATTCGt < 1:700408/64‑1 (MQ=255)
cATTCATCAAAGTTTTCACGCGTAATTAGCTGAGACATAGCGACCTCTACAGTAAATAATTCGt < 1:534957/64‑1 (MQ=255)
cATTCATCAAAGTTTTCACGCGTAATTAGCTGAGACATAGCGACCTCTACAGTAAATAATTCGt < 1:1766655/64‑1 (MQ=255)
cATTCATCAAAGTTTTCACGCGTAATTAGCTGAGACATAGCGACCTCTACAGTAAATAATTCGt < 1:1751181/64‑1 (MQ=255)
cATTCATCAAAGTTTTCACGCGTAATTAGCTGAGACATAGCGACCTCTACAGTAAATAATTCGt < 1:2988067/64‑1 (MQ=255)
ttCATCAAAGTTTTCACGCGTAATTAGCTGAGACATAGCGCCCTCTACAGTAAATAATTCGtta > 1:3304188/1‑64 (MQ=255)
ttCATCAAAGTTTTCACGCGTAATTAGCTGAGACATAGCGACCTCTACAGTAAATAATTCGtta > 1:951443/1‑64 (MQ=255)
ttCATCAAAGTTTTCACGCGTAATTAGCTGAGACATAGCGACCTCTACAGTAAATAATTCGtta > 1:2952828/1‑64 (MQ=255)
aaaGTTTTCACGCGTAATTGGCTGAGACATAGCGACCTCTACAGTAAATAATTCGTTATTTATATGTtaa > 1:1793060/1‑70 (MQ=255)
aaaGTTTTCACGCGTAATTGGCTGAGACATAGCGACCTCTACAGTAAATAATTCGTTATTTATATGTtaa > 1:691652/1‑70 (MQ=255)
ttCACGCGTAATTGGCTGAGACATAGCGACCTCTACAGTAAATAATTCGTTATTTATATGTTAATAATAAg > 1:989195/1‑71 (MQ=255)
ttCACGCGTAATTGGCTGAGACATAGCGACCTCTACAGTAAATAATTCGTTATTTATATGTTAATAATAAg > 1:46318/1‑71 (MQ=255)
ttCACGCGTAATTGGCTGAGACATAGCGACCTCTACAGTAAATAATTCGTTATTTATATGTTAATAATAAg > 1:717622/1‑71 (MQ=255)
ttCACGCGTAATTGGCTGAGACATAGCGACCTCTACAGTAAATAATTCGTTATTTATATGTTAATAATAAg > 1:1473470/1‑71 (MQ=255)
ttCACGCGTAATTGGCTGAGACATAGCGACCTCTACAGTAAATAATTCGTTATTTATATGTTAATAATAAg > 1:2512470/1‑71 (MQ=255)
ttCACGCGTAATTGGCTGAGACATAGCGACCTCTACAGTAAATAATTCGTTATTTATATGTTAATAATAAg > 1:2408119/1‑71 (MQ=255)
ttCACGCGTAATTGGCTGAGACATAGCGACCTCTACAGTAAATAATTCGTTATTTATATGTTAATAATAAg > 1:1982893/1‑71 (MQ=255)
ttCACGCGTAATTGGCTGAGACATAGCGACCTCTACAGTAAATAATTCGTTATTTATATGTTAATAATAAg > 1:1984059/1‑71 (MQ=255)
tAATTGGCTGAGACATAGCGACCTCTACAGTAAATAATTCGTTATTTATATGt < 1:2527669/53‑1 (MQ=255)
tAATTGGCTGAGACATAGCGACCTCTACAGTAAATAATTCGTTATTTATATGt < 1:1586236/53‑1 (MQ=255)
tAATTGGCTGAGACATAGCGACCTCTACAGTAAATAATTCGTTATTTATATGt < 1:1820405/53‑1 (MQ=255)
tAATTGGCTGAGACATAGCGACCTCTACAGTAAATAATTCGTTATTTATATGt < 1:795752/53‑1 (MQ=255)
tAATTGGCTGAGACATAGCGACCTCTACAGTAAATAATTCGTTATTTATATGt < 1:1829983/53‑1 (MQ=255)
tAATTGGCTGAGACATAGCGACCTCTACAGTAAATAATTCGTTATTTATATGt < 1:3283534/53‑1 (MQ=255)
tAATTGGCTGAGACATAGCGACCTCTACAGTAAATAATTCGTTATTTATATGt < 1:3260450/53‑1 (MQ=255)
tAATTGGCTGAGACATAGCGACCTCTACAGTAAATAATTCGTTATTTATATGt < 1:3010769/53‑1 (MQ=255)
tAATTGGCTGAGACATAGCGACCTCTACAGTAAATAATTCGTTATTTATATGt < 1:2959597/53‑1 (MQ=255)
tAATTGGCTGAGACATAGCGACCTCTACAGTAAATAATTCGTTATTTATATGt < 1:2622498/53‑1 (MQ=255)
ggCTGAGACATAGCGACCTCTACAGTAAATAATTCGTTATTTATATGTtaa > 1:218476/1‑51 (MQ=255)
ggCTGAGACATAGCGACCTCTACAGTAAATAATTCGTTATTTATATGTtaa > 1:325409/1‑51 (MQ=255)
ggCTGAGACATAGCGACCTCTACAGTAAATAATTCGTTATTTATATGTtaa > 1:1982728/1‑51 (MQ=255)
ggCTGAGACATAGCGACCTCTACAGTAAATAATTCGTTATTTATATGTtaa > 1:194038/1‑51 (MQ=255)
ggCTGAGACATAGCGACCTCTACAGTAAATAATTCGTTATTTATATGTtaa > 1:1915327/1‑51 (MQ=255)
ggCTGAGACATAGCGACCTCTACAGTAAATAATTCGTTATTTATATGTtaa > 1:3161538/1‑51 (MQ=255)
ggCTGAGACATAGCGACCTCTACAGTAAATAATTCGTTATTTATATGTtaa > 1:3013922/1‑51 (MQ=255)
ggCTGAGACATAGCGACCTCTACAGTAAATAATTCGTTATTTATATGTtaa > 1:1598212/1‑51 (MQ=255)
ggCTGAGACATAGCGACCTCTACAGTAAATAATTCGTTATTTATATGTtaa > 1:1327218/1‑51 (MQ=255)
|
GGTATAAAGGGTGCCGGAGCGTAAACAGGTATCATCCATTCATCAAAGTTTTCACGCGTAATTGGCTGAGACATAGCGACCTCTACAGTAAATAATTCGTTATTTATATGTTAATAATAAG > W3110S.gb/1833623‑1833743
|
| 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
