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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
910,932 |
G→A |
27.0% |
G58S (GGC→AGC) |
ycjV → |
predicted sugar transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 910,932 | 0 | G | A | 27.0%
| 109.0
/ 39.4
| 63 | G58S (GGC→AGC) | ycjV | predicted sugar transporter subunit |
| Reads supporting (aligned to +/- strand): ref base G (27/19); new base A (8/9); total (35/28) |
| Fisher's exact test for biased strand distribution p-value = 5.69e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.80e-01 |
TTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCAATATAGCGA > minE/910863‑910998
|
tttGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAgcgg > 1:2389796/1‑71 (MQ=255)
ttGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAgcggc > 1:734960/1‑71 (MQ=255)
ttGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAgcggc > 1:3799680/1‑71 (MQ=255)
tGTCGGCCCGTCGGGCTGCGGTAAGTCGCCCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAgcggcg > 1:3880915/1‑71 (MQ=255)
tGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAgcgg > 1:2161284/1‑69 (MQ=255)
gTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAgcggcgg > 1:277638/1‑71 (MQ=255)
cGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAgcggcggc > 1:3742553/1‑70 (MQ=255)
cGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAgcggcggc > 1:2329500/1‑70 (MQ=255)
ggaccGTCTGGCTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCAccagcggcg < 1:1592846/67‑1 (MQ=2)
ggaccGTCTGGCTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCAccagcggcg < 1:1619946/67‑1 (MQ=2)
ccGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGAt > 1:1711046/1‑69 (MQ=255)
ccGTCGGGCTGAGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGAt > 1:2792596/1‑69 (MQ=255)
cGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTg < 1:402850/71‑1 (MQ=255)
tctggCTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGtt > 1:2772037/4‑71 (MQ=9)
ctggCTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGtt > 1:3500159/3‑70 (MQ=16)
cGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGtt > 1:3393274/1‑70 (MQ=255)
gggCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGtt < 1:2482425/69‑1 (MQ=255)
gggCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGa > 1:3199998/1‑71 (MQ=255)
gggCTGCGGTAAGTCGACCACCCTGCGAATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGa > 1:405442/1‑71 (MQ=255)
ggCTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGTTCAt > 1:884731/1‑71 (MQ=16)
gCTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGttca < 1:3264086/69‑3 (MQ=16)
gCTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGTTCAt < 1:2602541/70‑1 (MQ=255)
cTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGttc < 1:3803538/67‑2 (MQ=255)
cTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGttc < 1:1165107/67‑2 (MQ=255)
tGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGa > 1:3366709/1‑71 (MQ=255)
tGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGa > 1:757461/1‑71 (MQ=255)
tGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGTTCATCg > 1:1239188/1‑70 (MQ=255)
gCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGAc > 1:3785816/1‑71 (MQ=255)
cGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGTTCATCggtg < 1:1457940/71‑4 (MQ=255)
cGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGTTCATCggt > 1:3516723/1‑68 (MQ=255)
cGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGTTCATCggt > 1:1997516/1‑68 (MQ=255)
gTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGAGGCGATCTGTTGATCGACGGc < 1:1072535/71‑1 (MQ=255)
gTAAGTCGACAACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAgcggcggcg > 1:178822/1‑54 (MQ=255)
aaGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCa > 1:547885/1‑70 (MQ=255)
aaGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCa > 1:237389/1‑70 (MQ=255)
aGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCaaa > 1:3891566/1‑71 (MQ=255)
cGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACg > 1:122709/1‑70 (MQ=255)
ccaccCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACgaatg < 1:2317138/71‑1 (MQ=255)
tacTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGTTCATCGGTGAGAAACggatgaat > 1:456523/3‑71 (MQ=255)
tacTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGTTCATCGGTGAGAAACggatgaat > 1:2320139/3‑71 (MQ=255)
cccTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTg < 1:182999/50‑1 (MQ=255)
cccTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACgaatgaat < 1:1210238/71‑1 (MQ=255)
ccTGCGCATGATTGCCGGGCTTGAGGAGATCAGAGGCGGCGATCTGTTGATCGACGGCAAACgaatgaat > 1:2466108/1‑70 (MQ=255)
acTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGTTCATCGGTGAGAAACggatgaat < 1:265057/69‑1 (MQ=255)
acTGCGCATGATTGCCGGGCTTGAGACGATCACCACCGGCGACCTGTTCATCGGTGAGAAACggatgaat < 1:258972/69‑1 (MQ=255)
tGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGAc > 1:2870064/1‑71 (MQ=255)
tGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGacc < 1:2039685/42‑3 (MQ=25)
cgcATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGt < 1:3079900/71‑1 (MQ=255)
gcATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGTTCATCGGTGAGAAACGGATGAATGAcact < 1:3139622/71‑4 (MQ=255)
cATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTc < 1:3528822/71‑1 (MQ=255)
aTGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTc > 1:508475/1‑70 (MQ=255)
ttGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAatgaatga > 1:3324965/1‑61 (MQ=255)
ttGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGc > 1:185290/1‑70 (MQ=255)
gCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCa < 1:411602/70‑1 (MQ=255)
ccGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCaaa < 1:3094100/71‑1 (MQ=255)
ccGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCaaa < 1:3546863/71‑1 (MQ=255)
cGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAg > 1:787759/1‑71 (MQ=255)
cGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGAAGGCAAACGAATGAATGACGTTCCAGCCa > 1:3686585/1‑68 (MQ=255)
ggCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACgaatgaa < 1:2016084/52‑1 (MQ=255)
ggCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTc < 1:3383577/60‑1 (MQ=255)
ggCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCa < 1:2495902/71‑1 (MQ=255)
cTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACg > 1:2175551/1‑71 (MQ=255)
ttGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACg > 1:299627/1‑70 (MQ=255)
gaggagATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCa < 1:2967968/70‑1 (MQ=255)
gagaTCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCAatat < 1:2144879/71‑1 (MQ=255)
aTCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCa < 1:529555/51‑1 (MQ=255)
aTCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCAATATAg > 1:1035646/1‑70 (MQ=255)
aTCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCAATATAGc > 1:2779520/1‑71 (MQ=255)
tCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCAATATAGCg < 1:2536765/71‑1 (MQ=255)
tCAGCGGCGGCGATCTGTTGATCGACGGAAAACGAATGAATGACGTTCCAGCCAAAGCACGCAATATAGCg < 1:736420/71‑1 (MQ=255)
cAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCa > 1:1083363/1‑49 (MQ=255)
cAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCa > 1:1745553/1‑49 (MQ=255)
cAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCa > 1:753462/1‑49 (MQ=255)
cAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCAATATAGCGa > 1:231175/1‑71 (MQ=255)
cggcggcgATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACg > 1:2544544/1‑57 (MQ=255)
cggcggcgATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACg > 1:2261490/1‑57 (MQ=255)
|
TTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCAATATAGCGA > minE/910863‑910998
|
| 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
