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 |
2,122,104 |
C→A |
28.5% |
intergenic (+33/+81) |
yraP → / ← yraQ |
hypothetical protein/predicted permease |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,122,104 | 0 | C | A | 28.5%
| 132.3
/ 48.6
| 91 | intergenic (+33/+81) | yraP/yraQ | hypothetical protein/predicted permease |
| Reads supporting (aligned to +/- strand): ref base C (40/25); new base A (9/17); total (49/42) |
| Fisher's exact test for biased strand distribution p-value = 3.51e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.98e-01 |
CGGGTAACTACGGCGTTTACGTTTATTAAATAGCAGCCCCTTGTAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGTTTACGCCGCAT > minE/2122039‑2122164
|
cGGGTAACTACGGCGTTTACGTTTATTAAATAGCAGCCCCTTGTAATGCCTGATGCGACGCTTGCcgcg > 1:968474/1‑69 (MQ=255)
cGGGTAACTACGGCGTTTACGTTTATTAAATAGCAGCCCCTTGTAATGCCTGATGCGACGCTTGCcgcg > 1:2382637/1‑69 (MQ=255)
cGGGTAACTACGGCGTTTACGTTTATTAAATAGCAGCCCCTTGTAATGCCTGATGCGACGCTTGCcgcg > 1:2449500/1‑69 (MQ=255)
cGGGTAACTACGGCGTTTACGTTTATTAAATAGCAGCCCCTTGTAATGCCTGATGCGACGCTTGCcgcg > 1:1630521/1‑69 (MQ=255)
cGGGTAACTACGGCGTTTACGTTTATTAAATAGCAGCCCCTTGTAATGCCTGATGCGACGCTTGCcgcg > 1:142835/1‑69 (MQ=255)
ggTAACTACGGCGTTTACGTTTATTAAATAGCAG‑CCCTTGTAATGCCTGATGCGACGCTTGCAGCGTCt < 1:725578/69‑1 (MQ=38)
ggTAACTACGGCGTTTACGTTTATTAAATAGCAG‑CCCTTGTAATGCCTGATGCGACGCTTGCAGCGTCt < 1:1910455/69‑1 (MQ=38)
ggTAACTACGGCGTTTACGTTTATTAAATAGCAG‑CCCTTGTAATGCCTGATGCGACGCTTGCAGCGTCt < 1:2670112/69‑1 (MQ=38)
ggTAACTACGGCGTTTACGTTTATTAAATAGCAG‑CCCTTGTAATGCCTGATGCGACGCTTGCAGCGTCt < 1:2618662/69‑1 (MQ=38)
ggTAACTACGGCGTTTACGTTTATTAAATAGCAG‑CCCTTGTAATGCCTGATGCGACGCTTGCAGCGTCt < 1:750544/69‑1 (MQ=38)
ggTAACTACGGCGTTTACGTTTATTAAATAGCAG‑CCCTTGTAATGCCTGATGCGACGCTTGCAGCGTCt < 1:2850775/69‑1 (MQ=38)
ggTAACTACGGCGTTTACGTTTATTAAATAGCAG‑CCCTTGTAATGCCTGATGCGACGCTTGCAGCGTCt < 1:829008/69‑1 (MQ=38)
ggTAACTACGGCGTTTACGTTTATTAAATAGCAG‑CCCTTGTAATGCCTGATGCGACGCTTGCAGCGTCt < 1:3047725/69‑1 (MQ=38)
ggTAACTACGGCGTTTACGTTTATTAAATAGCAG‑CCCTTGTAATGCCTGATGCGACGCTTGCAGCGTCt < 1:365835/69‑1 (MQ=38)
ggTAACTACGGCGTTTACGTTTATTAAATAGCAG‑CCCTTGTAATGCCTGATGCGACGCTTGCAGCGTCt < 1:507930/69‑1 (MQ=38)
ggTAACTACGGCGTTTACGTTTATTAAATAGCAG‑CCCTTGTAATGCCTGATGCGACGCTTGCAGCGTCt < 1:2441750/69‑1 (MQ=38)
ggTAACTACGGCGTTTACGTTTATTAAATAGCAG‑CCCTTGTAATGCCTGATGCGACGCTTGCAGCGTCt < 1:1526564/69‑1 (MQ=38)
ggTAACTACGGCGTTTACGTTTATTAAATAGCAG‑CCCTTGTAATGCCTGATGCGACGCTTGCAGCGTCt < 1:2393759/69‑1 (MQ=38)
ggTAACTACGGCGTTTACGTTTATTAAATAGCAG‑CCCTTGTAATGCCTGATGCGACGCTTGCAGCGTCt < 1:825095/69‑1 (MQ=38)
ggTAACTACGGCGTTTACGTTTATTAAATAGCAG‑CCCTTGTAATGCCTGATGCGACGCTTGCAGCGTCt < 1:2298668/69‑1 (MQ=38)
ggTAACTACGGCGTTTACGTTTATTAAATAGCAG‑CCCTTGTAATGCCTGATGCGACGCTTGCAGCGTCt < 1:593634/69‑1 (MQ=38)
ggTAACTACGGCGTTTACGTTTATTAAATAGCAG‑CCCTTGTAATGCCTGATGCGACGCTTGCAGCGTCt < 1:61284/69‑1 (MQ=38)
gCGTTTACGTTTATTAAATAGCAGCCCCTTGTAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGcc < 1:1631147/69‑1 (MQ=255)
gCGTTTACGTTTATTAAATAGCAGCCCCTTGTAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGcc < 1:2892143/69‑1 (MQ=255)
gCGTTTACGTTTATTAAATAGCAGCCCCTTGTAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGcc < 1:672239/69‑1 (MQ=255)
gCGTTTACGTTTATTAAATAGCAGCCCCTTGTAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGcc < 1:1898642/69‑1 (MQ=255)
tacgtttaTTAAATAGCAG‑CCCTTGTAATGCCTGATGCGACGCTTGCAGCGTCTTATCAGGCCTACAAc > 1:2485855/1‑69 (MQ=21)
tacgtttaTTAAATAGCAG‑CCCTTGTAATGCCTGATGCGACGCTTGCAGCGTCTTATCAGGCCTACAAc > 1:2840175/1‑69 (MQ=21)
tacgtttaTTAAATAGCAG‑CCCTTGTAATGCCTGATGCGACGCTTGCAGCGTCTTATCAGGCCTACAAc > 1:2807964/1‑69 (MQ=21)
tacgtttaTTAAATAGCAG‑CCCTTGTAATGCCTGATGCGACGCTTGCAGCGTCTTATCAGGCCTACAAc > 1:2811926/1‑69 (MQ=21)
tacgtttaTTAAATAGCAG‑CCCTTGTAATGCCTGATGCGACGCTTGCAGCGTCTTATCAGGCCTACAAc > 1:2816663/1‑69 (MQ=21)
tacgtttaTTAAATAGCAG‑CCCTTGTAATGCCTGATGCGACGCTTGCAGCGTCTTATCAGGCCTACAAc > 1:2823748/1‑69 (MQ=21)
tacgtttaTTAAATAGCAG‑CCCTTGTAATGCCTGATGCGACGCTTGCAGCGTCTTATCAGGCCTACAAc > 1:523639/1‑69 (MQ=21)
tacgtttaTTAAATAGCAG‑CCCTTGTAATGCCTGATGCGACGCTTGCAGCGTCTTATCAGGCCTACAAc > 1:1503075/1‑69 (MQ=21)
tacgtttaTTAAATAGCAG‑CCCTTGTAATGCCTGATGCGACGCTTGCAGCGTCTTATCAGGCCTACAAc > 1:1424804/1‑69 (MQ=21)
tAGCAGCCCCTTGTAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCg < 1:2741980/68‑1 (MQ=255)
tAGCAGCCCCTTGTAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCg < 1:2737845/68‑1 (MQ=255)
tAGCAGCCCCTTGTAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCg < 1:855760/68‑1 (MQ=255)
tAGCAGCCCCTTGTAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCg < 1:2386239/68‑1 (MQ=255)
tAGCAGCCCCTTGTAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCg < 1:1068275/68‑1 (MQ=255)
tAGCAGCCCCTTGTAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCg < 1:1083570/68‑1 (MQ=255)
tAGCAGCCCCTTGTAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCg < 1:1371224/68‑1 (MQ=255)
tAGCAGCCCCTTGTAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCg < 1:1601892/68‑1 (MQ=255)
gTAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCg < 1:251922/56‑1 (MQ=255)
tGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCg > 1:21561/1‑68 (MQ=255)
ccTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCTTAGGTCAGATAAGGCGttt > 1:1590723/1‑69 (MQ=255)
ccTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGttt > 1:35188/1‑69 (MQ=255)
ccTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGttt > 1:170833/1‑69 (MQ=255)
ccTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGttt > 1:2878169/1‑69 (MQ=255)
ccTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGttt > 1:1659332/1‑69 (MQ=255)
ccTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGttt > 1:2905808/1‑69 (MQ=255)
ccTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGttt > 1:23644/1‑69 (MQ=255)
ccTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGttt > 1:2973060/1‑69 (MQ=255)
ccTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGttt > 1:2976917/1‑69 (MQ=255)
ccTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGttt > 1:3106398/1‑69 (MQ=255)
ccTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGttt > 1:3285370/1‑69 (MQ=255)
ccTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGttt > 1:3350021/1‑69 (MQ=255)
ccTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGttt > 1:2907771/1‑69 (MQ=255)
ccTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGttt > 1:674770/1‑69 (MQ=255)
ccTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGttt > 1:1250255/1‑69 (MQ=255)
ccTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGttt > 1:773875/1‑69 (MQ=255)
ccTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGttt > 1:837740/1‑69 (MQ=255)
ccTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGttt > 1:946746/1‑69 (MQ=255)
ccTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGttt > 1:1030179/1‑69 (MQ=255)
ccTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGttt > 1:1755711/1‑69 (MQ=255)
ccTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGttt > 1:2287663/1‑69 (MQ=255)
ccTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGttt > 1:2124976/1‑69 (MQ=255)
ccTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGttt > 1:2099067/1‑69 (MQ=255)
ccTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGttt > 1:2796905/1‑69 (MQ=255)
ccTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGttt > 1:2767876/1‑69 (MQ=255)
ccTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGttt > 1:1907027/1‑69 (MQ=255)
ccTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGttt > 1:1940030/1‑69 (MQ=255)
ccTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGttt > 1:1753468/1‑69 (MQ=255)
ccTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGttt > 1:2668276/1‑69 (MQ=255)
ccTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGtt > 1:1157982/1‑68 (MQ=255)
ccTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGtt > 1:250291/1‑68 (MQ=255)
tGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGTTTAcgc > 1:390504/1‑68 (MQ=255)
tGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGTTTAcgc > 1:125058/1‑68 (MQ=255)
tGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGTTTAcgc > 1:2533517/1‑68 (MQ=255)
tGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGTTTAcgc > 1:1890447/1‑68 (MQ=255)
gCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGTTTAcgccg < 1:1780945/69‑1 (MQ=255)
gCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGTTTAcgccg < 1:1531513/69‑1 (MQ=255)
gCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGTTTAcgccg < 1:1261367/69‑1 (MQ=255)
gCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGTTTAcgccg < 1:2434041/69‑1 (MQ=255)
gCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGTTTAcgccg < 1:2749247/69‑1 (MQ=255)
cGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGTTTAcgccg < 1:2052635/68‑1 (MQ=255)
aCGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGTTTACGCCGCAt > 1:2041814/1‑69 (MQ=255)
aCGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGTTTACGCCGCAt > 1:1251851/1‑69 (MQ=255)
aCGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGTTTACGCCGCAt > 1:291073/1‑69 (MQ=255)
aCGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGTTTACGCCGCAt > 1:247162/1‑69 (MQ=255)
gCTTGCCGCGTCTTATCAGGCCTACAACGATACaa < 1:2348367/35‑1 (MQ=255)
gCTTGCCGCGTCTTATCAGGCCTACAACGATACaa < 1:1781399/35‑1 (MQ=255)
gCTTGCCGCGTCTTATCAGGCCTACAACGATACaa < 1:1099307/35‑1 (MQ=255)
gCTTGCCGCGTCTTATCAGGCCTACAACGATACaa < 1:3300417/35‑1 (MQ=255)
gCTTGCCGCGTCTTATCAGGCCTACAACGATACaa < 1:1565443/35‑1 (MQ=255)
gCTTGCCGCGTCTTATCAGGCCTACAACGATACaa < 1:3352640/35‑1 (MQ=255)
|
CGGGTAACTACGGCGTTTACGTTTATTAAATAGCAGCCCCTTGTAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAACGATACAAACCGTAGGTCAGATAAGGCGTTTACGCCGCAT > minE/2122039‑2122164
|
| 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
