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 |
2,301,363 |
G→A |
47.0% |
Y236Y (TAC→TAT) |
metL ← |
fused aspartokinase II and homoserine dehydrogenase II |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,301,363 | 0 | G | A | 47.0%
| 2.6
/ 41.1
| 51 | Y236Y (TAC→TAT) | metL | fused aspartokinase II and homoserine dehydrogenase II |
| Reads supporting (aligned to +/- strand): ref base G (18/9); new base A (14/10); total (32/19) |
| Fisher's exact test for biased strand distribution p-value = 5.75e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TCGCTGGCCTCATCCAGACGCAGCAACGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAGATGGTTACGCGAGAAACACCCGCCAGCGCACCGATTTGTGTCG > minE/2301295‑2301430
|
tCGCTGGCCTCATCCAGACGCAGCAACGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTg < 1:2030712/69‑1 (MQ=255)
tCGCTGGCCTCATCCAGACGCAGCAACGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTg < 1:1575875/69‑1 (MQ=255)
tCGCTGGCCTCATCCAGACGCAGCAACGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTg < 1:131666/69‑1 (MQ=255)
tCGCTGGCCTCATCCAGACGCAGCAACGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTg < 1:3245799/69‑1 (MQ=255)
cTGGCCTCATCCAGACGCAGCAACGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTGta < 1:618804/68‑1 (MQ=255)
ttCATCCAGACGCAGCAACGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCGCTATATAcccc > 1:1120486/2‑69 (MQ=255)
ttCATCCAGACGCAGCAACGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCGCTATATAcccc > 1:28218/2‑69 (MQ=255)
ttCATCCAGACGCAGCAACGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCGCTATATAcccc > 1:3055827/2‑69 (MQ=255)
ttCATCCAGACGCAGCAACGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCGCTATATAcccc > 1:1790432/2‑69 (MQ=255)
ttCATCCAGACGCAGCAACGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCGCTATATAcccc > 1:171681/2‑69 (MQ=255)
ccAGACGCAGCAACGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTg < 1:276454/56‑1 (MQ=255)
ccAGACGCAGCAACGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTg < 1:678141/56‑1 (MQ=255)
ccAGACGCAGCAACGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTg < 1:3371694/56‑1 (MQ=255)
ccAGACGCAGCAACGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTg < 1:1883804/56‑1 (MQ=255)
ccAGACGCAGCAACGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTg < 1:2828466/56‑1 (MQ=255)
ccAGACGCAGCAACGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTg < 1:2662726/56‑1 (MQ=255)
ccAGACGCAGCAACGGCAGAAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTg < 1:3291266/56‑1 (MQ=255)
aGACGCAGCAACGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTg < 1:3066877/54‑1 (MQ=255)
caACGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTg < 1:880994/46‑1 (MQ=255)
aaCGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAg > 1:1544740/1‑69 (MQ=255)
aaCGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAg > 1:905144/1‑69 (MQ=255)
aaCGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAg > 1:1409557/1‑69 (MQ=255)
aaCGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAg > 1:2897768/1‑69 (MQ=255)
aaCGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAg > 1:560808/1‑69 (MQ=255)
aaCGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAg > 1:1322447/1‑69 (MQ=255)
aaCGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAg > 1:1310821/1‑69 (MQ=255)
aaCGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAg > 1:1946340/1‑69 (MQ=255)
aaCGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAg > 1:1284631/1‑69 (MQ=255)
aTCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAGATGGTTACGCgaga < 1:1474981/66‑1 (MQ=255)
aTCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAGATGGTTACGCgaga < 1:2560977/66‑1 (MQ=255)
aTCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAGATGGTTACGCgaga < 1:2433075/66‑1 (MQ=255)
aTCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAGATGGTTACGCgaga < 1:3316026/66‑1 (MQ=255)
aTCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAGATGGTTACGCgaga < 1:114602/66‑1 (MQ=255)
aTCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAGATGGTTACGCgaga < 1:2056318/66‑1 (MQ=255)
aTCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAGATGGTTACGCgaga < 1:368714/66‑1 (MQ=255)
tttCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAGATGGTTACGCGAGAAACAcc > 1:1249806/1‑69 (MQ=255)
tttCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAGATGGTTACGCGAGAAACAcc > 1:2671538/1‑69 (MQ=255)
cgGGTCGGCGCTATATACCCCGGCGACGTCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCAcc > 1:2862053/1‑69 (MQ=255)
cgGGTCGGCGCTATATACCCCGGCGACGTCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCAcc > 1:316225/1‑69 (MQ=255)
cgGGTCGGCGCTATATACCCCGGCGACGTCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCAcc > 1:1876609/1‑69 (MQ=255)
cgGGTCGGCGCTATATACCCCGGCGACGTCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCAcc > 1:2537776/1‑69 (MQ=255)
cgGGTCGGCGCTATATACCCCGGCGACGTCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCAcc > 1:2403478/1‑69 (MQ=255)
cgGGTCGGCGCTATATACCCCGGCGACGTCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCAcc > 1:2293764/1‑69 (MQ=255)
cgGGTCGGCGCTATATACCCCGGCGACGTCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCAcc > 1:1806371/1‑69 (MQ=255)
cgGGTCGGCGCTATATACCCCGGCGACGTCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCAcc > 1:1081267/1‑69 (MQ=255)
cgGGTCGGCGCTATATACCCCGGCGACGTCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCAcc > 1:1037018/1‑69 (MQ=255)
cGGCGCTATATACCCCGGCGACGTCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCACCGAttt < 1:363356/69‑1 (MQ=255)
cGGCGCTATATACCCCGGCGACGTCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCACCGAttt < 1:960774/69‑1 (MQ=255)
cGGCGCTATATACCCCGGCGACGTCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCACCGAttt < 1:471174/69‑1 (MQ=255)
cGGCGCTATATACCCCGGCGACGTCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCACCGAttt < 1:555310/69‑1 (MQ=255)
cGGCGCTATATACCCCGGCGACGTCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCACCGAttt < 1:1132467/69‑1 (MQ=255)
cGGCGCTATATACCCCGGCGACGTCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCACCGAttt < 1:1139438/69‑1 (MQ=255)
cGGCGCTATATACCCCGGCGACGTCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCACCGAttt < 1:1357382/69‑1 (MQ=255)
cGGCGCTATATACCCCGGCGACGTCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCACCGAttt < 1:1395086/69‑1 (MQ=255)
cGGCGCTATATACCCCGGCGACGCCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCACCGAttt < 1:1820038/69‑1 (MQ=255)
ggCGCTATATACCCCGGCGACGTAACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCACCGAttt < 1:2964449/68‑1 (MQ=255)
ggCACTGTATACCCCGGCGACGTCGCTCCAGATGGTTACGCgaga < 1:3430247/45‑1 (MQ=255)
ggCACTGTATACCCCGGCGACGTCGCTCCAGATGGTTACGCGAGAAACACCCGCCAGCGCACCGAttt > 1:1247251/1‑68 (MQ=255)
ggCACTGTATACCCCGGCGACGTCGCTCCAGATGGTTACGCGAGAAACACCCGCCAGCGCACCGATTtg > 1:1062728/1‑69 (MQ=255)
ggCACTGTATACCCCGGCGACGTCGCTCCAGATGGTTACGCGAGAAACACCCGCCAGCGCACCGATTtg > 1:613260/1‑69 (MQ=255)
ggCACTGTATACCCCGGCGACGTCGCTCCAGATGGTTACGCGAGAAACACCCGCCAGCGCACCGATTtg > 1:1790112/1‑69 (MQ=255)
ggCACTGTATACCCCGGCGACGTCGCTCCAGATGGTTACGCGAGAAACACCCGCCAGCGCACCGATTtg > 1:1886709/1‑69 (MQ=255)
ggCACTGTATACCCCGGCGACGTCGCTCCAGATGGTTACGCGAGAAACACCCGCCAGCGCACCGATTtg > 1:2311460/1‑69 (MQ=255)
ggCACTGTATACCCCGGCGACGTCGCTCCAGATGGTTACGCGAGAAACACCC‑CCAGCGCACCGATTtgt > 1:773366/1‑69 (MQ=255)
gTATACCCCGGCGACGTCGCTCCAGATGGTTACGCGAGAAACACCCGCCAGCGCACCGATTTGTGTcg > 1:187046/1‑68 (MQ=255)
gTATACCCCGGCGACGTCGCTCCAGATGGTTACGCGAGAAACACCCGCCAGCGCACCGATTTGTGTcg > 1:349446/1‑68 (MQ=255)
gTATACCCCGGCGACGTCGCTCCAGATGGTTACGCGAGAAACACCCGCCAGCGCACCGATTTGTGTcg > 1:2127582/1‑68 (MQ=255)
gTATACCCCGGCGACGTCGCTCCAGATGGTTACGCGAGAAACACCCGCCAGCGCACCGATTTGTGTcg > 1:2654841/1‑68 (MQ=255)
gTATACCCCGGCGACGTCGCTCCAGATGGTTACGCGAGAAACACCCGCCAGCGCACCGATTTGTGTcg > 1:2751045/1‑68 (MQ=255)
|
TCGCTGGCCTCATCCAGACGCAGCAACGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAGATGGTTACGCGAGAAACACCCGCCAGCGCACCGATTTGTGTCG > minE/2301295‑2301430
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
