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 |
|
A5 F17 I0 R2
|
162 |
60.6 |
4616657 |
98.5% |
4547407 |
62.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,521,572 |
G→A |
14.1% |
L157L (CTG→CTA) |
glpX → |
fructose 1,6‑bisphosphatase II |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,521,572 | 0 | G | A | 14.1%
| 174.4
/ 17.5
| 64 | L157L (CTG→CTA) | glpX | fructose 1,6‑bisphosphatase II |
| Reads supporting (aligned to +/- strand): ref base G (35/20); new base A (4/5); total (39/25) |
| Fisher's exact test for biased strand distribution p-value = 2.96e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.80e-01 |
TGAACCTGCCGCTGGCGGATAACCTGCGCAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAATGCAGCAACTCGGCGTA > W3110S.gb/3521505‑3521638
|
tGAACCTGCCGCTGGCGGATAACCTGCGCAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACg > 1:4117628/1‑71 (MQ=255)
aaCCTGCCGCTGGCGGATAACCTGCGCAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACgg > 1:2935567/1‑70 (MQ=255)
aaCCTGCCGCTGGCGGATAACCTGCGCAATGTAGCGGCGGCGCTCGGAAAACCGTTGAGCGAACTGACgg > 1:4122443/1‑70 (MQ=255)
aCCTGCCGCTGGCGGATAACCTGCGCAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTAACGGTa < 1:3933328/71‑1 (MQ=255)
cTGCCGCTGGCGGATAACCTGCGCAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTAACGGTAAc < 1:2486905/71‑1 (MQ=255)
cGCTGGCGGATAACCTGCGCAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACGAtt > 1:1495199/1‑71 (MQ=255)
cTGGCGGATAACCTGCGCAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCt < 1:3477276/71‑1 (MQ=255)
ggCGGATAACCTGCGCAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTgg > 1:794539/1‑71 (MQ=255)
gCGGATAACCTGCGCAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTgg > 1:4440279/1‑70 (MQ=255)
ggATAACCTGCGCAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTa < 1:2646022/71‑1 (MQ=255)
ggATAACCTGCGCAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTa < 1:290807/71‑1 (MQ=255)
gATAACCTGCGCAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTaa < 1:2468480/71‑1 (MQ=255)
gATAACCTGCGCAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTaa < 1:1821530/71‑1 (MQ=255)
aaCCTGCGCAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTAACGGTAACGATTCTg > 1:96570/1‑63 (MQ=255)
aCCTGCGCAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAAcca > 1:1477781/1‑71 (MQ=255)
tGCGCAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAAccacgc > 1:263074/1‑71 (MQ=255)
tGCGCAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAAccacgc > 1:111196/1‑71 (MQ=255)
gcgcAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACGAtt > 1:214103/1‑55 (MQ=255)
gcgcAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTAACGGTAAc < 1:4402551/51‑1 (MQ=255)
cgcAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAAccacgcc < 1:1104704/70‑1 (MQ=255)
gcAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAAccacgccac < 1:2973455/71‑1 (MQ=255)
tGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCt > 1:154530/1‑55 (MQ=255)
tGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATg > 1:2664155/1‑71 (MQ=255)
gTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGAc > 1:1387786/1‑38 (MQ=255)
gTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAAcca > 1:1176647/1‑60 (MQ=255)
gcggcggcgCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGt > 1:1476100/1‑71 (MQ=255)
cggcggcgCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTaa < 1:1492735/52‑1 (MQ=255)
cggcggcgCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGtt < 1:4428286/71‑1 (MQ=255)
ggcggcgCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCt < 1:1420346/45‑1 (MQ=255)
gcggcgCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTaaa > 1:4332671/1‑51 (MQ=255)
cggcgCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTAt > 1:684268/1‑70 (MQ=255)
ggcgCTCGGCAAACCGTTGAGCGAACTGCCGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCg > 1:2959971/1‑71 (MQ=255)
gcgcTCGGCAAACCGTTGAGCGAACTAACGGTAACGATTCTGGCTAAACCACGCCACGATg < 1:3486864/61‑1 (MQ=255)
cgcTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCt > 1:3465992/1‑71 (MQ=255)
gcTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTg > 1:893384/1‑40 (MQ=255)
gcTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCg < 1:3199221/68‑1 (MQ=255)
gcTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCg < 1:3979360/68‑1 (MQ=255)
gcTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCt > 1:4436518/1‑70 (MQ=255)
gcTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCt > 1:1996117/1‑70 (MQ=255)
gcTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTg < 1:3249583/71‑1 (MQ=255)
cTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGa < 1:524300/71‑1 (MQ=255)
tCGGCAAACCGTTGAGCGAACTAACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGa > 1:452432/1‑70 (MQ=255)
ggCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAAt > 1:1400573/1‑71 (MQ=255)
ggCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAAt > 1:3064762/1‑71 (MQ=255)
ggCAAACCGTTGAGCGAACTAACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGaaa > 1:3845019/1‑70 (MQ=255)
gCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAATg < 1:85417/71‑1 (MQ=255)
cAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAATg > 1:1043659/1‑70 (MQ=255)
aCCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAATgcag > 1:4330867/1‑70 (MQ=255)
ccGTTGAGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAATgcagca < 1:4051727/71‑1 (MQ=255)
cGTTGAGCGAACTGACGGTAACGATTCTGGCTAAAccac > 1:1387208/1‑39 (MQ=255)
ttGAGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTa < 1:2796129/52‑1 (MQ=255)
tGAGCGAACTAACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAATGCAGCAACTc > 1:4178351/1‑71 (MQ=255)
gAGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCg > 1:4411042/1‑47 (MQ=255)
gAGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATGGCTGAAATGCAGCAACTCg > 1:4152280/1‑71 (MQ=255)
gAGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCg > 1:3376046/1‑53 (MQ=255)
gAGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCg > 1:2747611/1‑53 (MQ=255)
aGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAATGCAGCAACTCg < 1:1921430/70‑1 (MQ=255)
gCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAATGCAGCAACTCGGc < 1:692506/71‑1 (MQ=255)
gCGAACTAACGGTAACGATTCTGGCTAAAccacgccac < 1:3795895/38‑1 (MQ=255)
gAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAATGCAGCAACTCGGCg > 1:4284084/1‑70 (MQ=255)
gAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAATGCAGCAACTCGGCg > 1:4067976/1‑70 (MQ=255)
aaCTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAATGCAGCAACTCGGCGTa > 1:134244/1‑71 (MQ=255)
aaCTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAATGCAGCAACTCGGCGTa < 1:3662380/71‑1 (MQ=255)
cTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAATGCAGCAACTCGGCGTa > 1:2631815/1‑69 (MQ=255)
|
TGAACCTGCCGCTGGCGGATAACCTGCGCAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAATGCAGCAACTCGGCGTA > W3110S.gb/3521505‑3521638
|
| 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
