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 |
2,301,387 |
G→A |
43.0% |
I228I (ATC→ATT) |
metL ← |
fused aspartokinase II and homoserine dehydrogenase II |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,301,387 | 0 | G | A | 43.0%
| 15.8
/ 41.5
| 58 | I228I (ATC→ATT) | metL | fused aspartokinase II and homoserine dehydrogenase II |
| Reads supporting (aligned to +/- strand): ref base G (21/12); new base A (14/11); total (35/23) |
| Fisher's exact test for biased strand distribution p-value = 5.97e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.74e-01 |
AACGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAGATGGTTACGCGAGAAACACCCGCCAGCGCACCGATTTGTGTCGCGGAATAGTCGGAACCGT > minE/2301319‑2301448
|
aaCGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAg > 1:1409557/1‑69 (MQ=255)
aaCGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAg > 1:905144/1‑69 (MQ=255)
aaCGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAg > 1:560808/1‑69 (MQ=255)
aaCGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAg > 1:2897768/1‑69 (MQ=255)
aaCGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAg > 1:1946340/1‑69 (MQ=255)
aaCGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAg > 1:1322447/1‑69 (MQ=255)
aaCGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAg > 1:1544740/1‑69 (MQ=255)
aaCGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAg > 1:1284631/1‑69 (MQ=255)
aaCGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAg > 1:1310821/1‑69 (MQ=255)
aTCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAGATGGTTACGCgaga < 1:368714/66‑1 (MQ=255)
aTCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAGATGGTTACGCgaga < 1:1474981/66‑1 (MQ=255)
aTCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAGATGGTTACGCgaga < 1:3316026/66‑1 (MQ=255)
aTCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAGATGGTTACGCgaga < 1:114602/66‑1 (MQ=255)
aTCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAGATGGTTACGCgaga < 1:2056318/66‑1 (MQ=255)
aTCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAGATGGTTACGCgaga < 1:2433075/66‑1 (MQ=255)
aTCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAGATGGTTACGCgaga < 1:2560977/66‑1 (MQ=255)
tttCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAGATGGTTACGCGAGAAACAcc > 1:2671538/1‑69 (MQ=255)
tttCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAGATGGTTACGCGAGAAACAcc > 1:1249806/1‑69 (MQ=255)
cgGGTCGGCGCTATATACCCCGGCGACGTCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCAcc > 1:2293764/1‑69 (MQ=255)
cgGGTCGGCGCTATATACCCCGGCGACGTCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCAcc > 1:1876609/1‑69 (MQ=255)
cgGGTCGGCGCTATATACCCCGGCGACGTCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCAcc > 1:2537776/1‑69 (MQ=255)
cgGGTCGGCGCTATATACCCCGGCGACGTCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCAcc > 1:2403478/1‑69 (MQ=255)
cgGGTCGGCGCTATATACCCCGGCGACGTCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCAcc > 1:2862053/1‑69 (MQ=255)
cgGGTCGGCGCTATATACCCCGGCGACGTCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCAcc > 1:1806371/1‑69 (MQ=255)
cgGGTCGGCGCTATATACCCCGGCGACGTCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCAcc > 1:316225/1‑69 (MQ=255)
cgGGTCGGCGCTATATACCCCGGCGACGTCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCAcc > 1:1081267/1‑69 (MQ=255)
cgGGTCGGCGCTATATACCCCGGCGACGTCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCAcc > 1:1037018/1‑69 (MQ=255)
cGGCGCTATATACCCCGGCGACGTCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCACCGAttt < 1:363356/69‑1 (MQ=255)
cGGCGCTATATACCCCGGCGACGTCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCACCGAttt < 1:471174/69‑1 (MQ=255)
cGGCGCTATATACCCCGGCGACGTCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCACCGAttt < 1:555310/69‑1 (MQ=255)
cGGCGCTATATACCCCGGCGACGTCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCACCGAttt < 1:960774/69‑1 (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 > 1:1886709/1‑69 (MQ=255)
ggCACTGTATACCCCGGCGACGTCGCTCCAGATGGTTACGCGAGAAACACCCGCCAGCGCACCGATTtg > 1:2311460/1‑69 (MQ=255)
ggCACTGTATACCCCGGCGACGTCGCTCCAGATGGTTACGCGAGAAACACCCGCCAGCGCACCGATTtg > 1:1790112/1‑69 (MQ=255)
ggCACTGTATACCCCGGCGACGTCGCTCCAGATGGTTACGCGAGAAACACCC‑CCAGCGCACCGATTtgt > 1:773366/1‑69 (MQ=255)
gTATACCCCGGCGACGTCGCTCCAGATGGTTACGCGAGAAACACCCGCCAGCGCACCGATTTGTGTcg > 1:349446/1‑68 (MQ=255)
gTATACCCCGGCGACGTCGCTCCAGATGGTTACGCGAGAAACACCCGCCAGCGCACCGATTTGTGTcg > 1:187046/1‑68 (MQ=255)
gTATACCCCGGCGACGTCGCTCCAGATGGTTACGCGAGAAACACCCGCCAGCGCACCGATTTGTGTcg > 1:2127582/1‑68 (MQ=255)
gTATACCCCGGCGACGTCGCTCCAGATGGTTACGCGAGAAACACCCGCCAGCGCACCGATTTGTGTcg > 1:2654841/1‑68 (MQ=255)
gTATACCCCGGCGACGTCGCTCCAGATGGTTACGCGAGAAACACCCGCCAGCGCACCGATTTGTGTcg > 1:2751045/1‑68 (MQ=255)
ataCCCCGGCGACGTCACTCCAAATGGTTACGCGAGAAaca > 1:601731/1‑41 (MQ=255)
ataCCCCGGCGACGTCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCACCGATTTGTGTCGCgg > 1:405599/1‑69 (MQ=255)
ataCCCCGGCGACGTCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCACCGATTTGTGTCGCgg > 1:811752/1‑69 (MQ=255)
ataCCCCGGCGACGTCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCACCGATTTGTGTCGCgg > 1:1102316/1‑69 (MQ=255)
ataCCCCGGCGACGTCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCACCGATTTGTGTCGCgg > 1:93398/1‑69 (MQ=255)
gACGTCGCTCCAGATGGTTACGCGAGAAACACCCGCCAGCGCACCGATTTGTGTCGCGGAATAGTCGGa > 1:2086835/1‑69 (MQ=255)
gACGTCGCTCCAGATGGTTACGCGAGAAACACCCGCCAGCGCACCGATTTGTGTCGCGGAATAGTCGGa > 1:2469621/1‑69 (MQ=255)
gACGTCGCTCCAGATGGTTACGCGAGAAACACCCGCCAGCGCACCGATTTGTGTCGCGGAATAGTCGGa > 1:2452164/1‑69 (MQ=255)
gACGTCGCTCCAGATGGTTACGCGAGAAACACCCGCCAGCGCACCGATTTGTGTCGCGGAATAGTCGGa > 1:88065/1‑69 (MQ=255)
gACGTCGCTCCAGATGGTTACGCGAGAAACACCCGCCAGCGCACCGATTTGTGTCGCGGAATAGTCGGa > 1:3217258/1‑69 (MQ=255)
aCGTCACTCCAAATGGTTACGCGAGAAACACCCGCCAGCGCACCGAttt < 1:1133108/49‑1 (MQ=39)
tCGCTCCAGATGGTTACGCGAGAAACACCCGCCAGCGCACCGATTTGTGTCGCGGAATAGTCGGAAcc > 1:212154/1‑68 (MQ=255)
tCGCTCCAGATGGTTACGCGAGAAACACCCGACAGCGCACCGATTTGTGTCGCGGAATAGTCGGAAcc > 1:792087/1‑68 (MQ=255)
cGCTCCAGATGGTTACGCGAGAAACACCCGCCAGCGCACCGATTTGTGTCGCGGAATAGTCGGAACCGt < 1:1920577/69‑1 (MQ=255)
cGCTCCAGATGGTTACGCGAGAAACACCCGCCAGCGCACCGATTTGTGTCGCGGAATAGTCGGAACCGt < 1:374549/69‑1 (MQ=255)
cGCTCCAGATGGTTACGCGAGAAACACCCGCCAGCGCACCGATTTGTGTCGCGGAATAGTCGGAACCGt < 1:41085/69‑1 (MQ=255)
gCTCCAGATGGTTACGCGAGAAACACCCGCCAGCGCACCGATTTGTGTCGCGGAATAGTCGGAACCGt < 1:271457/68‑1 (MQ=255)
|
AACGGCAGCAGGCAGGCATCTTTCACTTTACGCGGGTCGGCACTGTATACCCCGGCGACGTCGCTCCAGATGGTTACGCGAGAAACACCCGCCAGCGCACCGATTTGTGTCGCGGAATAGTCGGAACCGT > minE/2301319‑2301448
|
| 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
