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 |
1,956,148 |
A→T |
47.4% |
intergenic (+91/+298) |
ygfA → / ← serA |
predicted ligase/D‑3‑phosphoglycerate dehydrogenase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,956,148 | 0 | A | T | 47.4%
| 37.5
/ 112.2
| 95 | intergenic (+91/+298) | ygfA/serA | predicted ligase/D‑3‑phosphoglycerate dehydrogenase |
| Reads supporting (aligned to +/- strand): ref base A (23/27); new base T (32/13); total (55/40) |
| Fisher's exact test for biased strand distribution p-value = 2.16e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.42e-01 |
Only 100 of 122 total aligned reads displayed.
GATTGACATCGTTGATTCTTTGACCTAATTTAGTGAGTAAGGGTAAGGGAGGATTGCTCCTCCCCTGAGACTGACTGTTAATAAGCGCTGAAACTTATGAGTAACAGTACAATCAGTATGATGACAAGTCGCATC > minE/1956081‑1956215
|
gATTGACATCGTTGATTCTTTGCCCTAATTTAGTGAGTAAGGGTAAGGGAGGATTGCTCCTCCCCTgag > 1:1979262/1‑69 (MQ=255)
gATTGACATCGTTGATTCTTTGACCTAATTTAGTGAGTAAGGGTAAGGGAGGATTGCTCCTCCCCTtag > 1:2395242/1‑69 (MQ=255)
gATTGACATCGTTGATTCTTTGACCTAATTTAGTGAGTAAGGGTAAGGGAGGATTGCTCCTCCCCTgag > 1:2110176/1‑69 (MQ=255)
gATTGACATCGTTGATTCTTTGACCTAATTTAGTGAGTAAGGGTAAGGGAGGATTGCTCCTCCCCTgag > 1:3363106/1‑69 (MQ=255)
gATTGACATCGTTGATTCTTTGACCTAATTTAGTGAGTAAGGGTAAGGGAGGATTGCTCCTCCCCTgag > 1:255975/1‑69 (MQ=255)
gATTGACATCGTTGATTCTTTGACCTAATTTAGTGAGTAAGGGTAAGGGAGGATTGCTCCTCCCCTgag < 1:1176102/69‑1 (MQ=255)
gATTGACATCGTTGATTCTTTGACCTAATTTAGTGAGTAAGGGTAAGGGAGGATTGCTCCTCCCCTgag > 1:2293049/1‑69 (MQ=255)
gATTGACATCGTTGATTCTTTGACCTAATTTAGTGAGTAAGGGTAAGGGAGGATTGCTCCTCCCCTgag > 1:2328455/1‑69 (MQ=255)
tGACATCGTTGATTCTTTGACCTAATTTAGTGAGTAAGGGTAAGGGAGGATTGCTCCTCCCCTGAgact > 1:461079/1‑69 (MQ=255)
tGACATCGTTGATTCTTTGACCTAATTTAGTGAGTAAGGGTAAGGGAGGATTGCTCCTCCCCTGAgact > 1:2209050/1‑69 (MQ=255)
tGACATCGTTGATTCTTTGACCTAATTTAGTGAGTAAGGGTAAGGGAGGATTGCTCCTCCCCTGAgact > 1:602477/1‑69 (MQ=255)
tGACATCGTTGATTCTTTGACCTAATTTAGTGAGTAAGGGTAAGGGAGGATTGCTCCTCCCCTGAgact > 1:1401840/1‑69 (MQ=255)
cATCTTTGATTCTTTGACCTAATTTAGTGAGTAAGGGTAAGGGAGGATTGCTCCTCCCCTGAgactga < 1:2397082/68‑1 (MQ=255)
cATCGTTGATTCTTTGACCTAATTTAGTGAGTAAGGGTAAGGGAGGATTGCTCCTCCCCTGAgactga < 1:2319020/68‑1 (MQ=255)
cATCGTTGATTCTTTGACCTAATTTAGTGAGTAAGGGTAAGGGAGGATTGCTCCTCCCCTGAgactga < 1:139158/68‑1 (MQ=255)
cATCGTTGATTCTTTGACCTAATTTAGTGAGTAAGGGTAAGGGAGGATTGCTCCTCCCCTGAgactga < 1:1373058/68‑1 (MQ=255)
cATCGTTGATTCTTTGACCTAATTTAGTGAGTAAGGGTAAGGGAGGATTGCTCCTCCCCTGAgactga < 1:288999/68‑1 (MQ=255)
cATCGTTGATTCTTTGACCTAATTTAGTGAGTAAGGGTAAGGGAGGATTGCTCCTCCCCTGAgactga < 1:845511/68‑1 (MQ=255)
cATCGTTGATTCTTTGACCTAATTTAGTGAGTAAGGGTAAGGGAGGATTGCTCCTCCCCTGAgactga < 1:2506543/68‑1 (MQ=255)
cATCGTTGATTCTTTGACCTAATTTAGTGAGTAAGGGTAAGGGAGGATTGCTCCTCCCCTGAgactga < 1:2563286/68‑1 (MQ=255)
cGTTGATTCTTTGACCTAATTTAGTGAGTAAGGGTAAGGGAGGATTGCTCCTCCCCTGAGACTGACTGt < 1:2910423/69‑1 (MQ=255)
cGTTGATTCTTTGACCTAATTTAGTGAGTAAGGGTAAGGGAGGATTGCTCCTCCCCTGAGACTGACTGt < 1:461285/69‑1 (MQ=255)
cGTTGATTCTTTGACCTAATTTAGTGAGTAAGGGTAAGGGAGGATTGCTCCTCCCCTGAGACTGACTGt < 1:919930/69‑1 (MQ=255)
gTTGATTCTTTGACCTAATTTAGTGAGTAAGGGTAAGGGAGGATTGCTCCTCCCCTGAGACTGACTGtt > 1:826659/1‑69 (MQ=255)
tGACCTAATTTAGTGAGTAAGGGTAAGGGAGGATTGCTCCTCCCCTGAGACTGACTGt < 1:979755/58‑1 (MQ=255)
aaTTTAGTGAGTAAGGGTAAGGGAGGATTGTTCCTCCCCTGTGACTGACTGTTAATAAGCTGGGAAACt < 1:2732735/69‑1 (MQ=21)
aaTTTAGTGAGTAAGGGTAAGGGAGGATTGTTCCTCCCCTGTGACTGACTGTTAATAAGCTGGGAAACt < 1:2988063/69‑1 (MQ=21)
aaTTTAGTGAGTAAGGGTAAGGGAGGATTGTTCCTCCCCTGTGACTGACTGTTAATAAGCTGGGAAACt < 1:2219436/69‑1 (MQ=21)
aaTTTAGTGAGTAAGGGTAAGGGAGGATTGTTCCTCCCCTGTGACTGACTGTTAATAAGCTGGGAAACt < 1:2141316/69‑1 (MQ=21)
aaTTTAGTGAGTAAGGGTAAGGGAGGATTGTTCCTCCCCTGTGACTGACTGTTAATAAGCTGGGAAACt < 1:3041282/69‑1 (MQ=21)
aaTTTAGTGAGTAAGGGTAAGGGAGGATTGTTCCTCCCCTGTGACTGACTGTTAATAAGCTGGGAAACt < 1:3154489/69‑1 (MQ=21)
aaTTTAGTGAGTAAGGGTAAGGGAGGATTGTTCCTCCCCTGTGACTGACTGTTAATAAGCTGGGAAACt < 1:1263475/69‑1 (MQ=21)
aaTTTAGTGAGTAAGGGTAAGGGAGGATTGTTCCTCCCCTGTGACTGACTGTTAATAAGCTGGGAAACt < 1:753942/69‑1 (MQ=21)
aaTTTAGTGAGTAAGGGTAAGGGAGGATTGTTCCTCCCCTGTGACTGACTGTTAATAAGCTGGGAAACt < 1:654515/69‑1 (MQ=21)
aaTTTAGTGAGTAAGGGTAAGGGAGGATTGTTCCTCCCCTGTGACTGACTGTTAATAAGCTGGGAAACt < 1:636111/69‑1 (MQ=21)
aaTTTAGTGAGTAAGGGTAAGGGAGGATTGTTCCTCCCCTGTGACTGACTGTTAATAAGCTGGGAAACt < 1:1947979/69‑1 (MQ=21)
aaTTTAGTGAGTAAGGGTAAGGGAGGATTGCTCCTCCCCTGAGACTGACTGTTAATAAGCGCTGAAACt < 1:918779/69‑1 (MQ=255)
ttAGTGAGTAAGGGTAAGGGAGGATTGTTCCTCCCCTGTGACTGACTGTtaataa > 1:224935/1‑55 (MQ=39)
ttAGTGAGTAAGGGTAAGGGAGGATTGTTCCTCCCCTGTGACTGACTGTTAATAAGCTGGGAAACtt > 1:1232773/1‑67 (MQ=21)
ttAGTGAGTAAGGGTAAGGGAGGATTGTTCCTCCCCTGTGACTGACTGTTAATAAGCTGGGAAACtt > 1:256654/1‑67 (MQ=21)
ttAGTGAGTAAGGGTAAGGGAGGATTGTTCCTCCCCTGTGACTGACTGTTAATAAGCTGGGAAACtt > 1:898190/1‑67 (MQ=21)
ttAGTGAGTAAGGGTAAGGGAGGATTGTTCCTCCCCTGTGACTGACTGTTAATAAGCTGGGAAACtt > 1:2532201/1‑67 (MQ=21)
ttAGTGAGTAAGGGTAAGGGAGGATTGTTCCTCCCCTGTGACTGACTGTTAATAAGCTGGGAAACtt > 1:2844873/1‑67 (MQ=21)
ttAGTGAGTAAGGGTAAGGGAGGATTGTTCCTCCCCTGTGACTGACTGTTAATAAGCTGGGAAACtt > 1:1211094/1‑67 (MQ=21)
ttAGTGAGTAAGGGTAAGGGAGGATTGTTCCTCCCCTGTGACTGACTGTTAATAAGCTGGGAAACtt > 1:2854725/1‑67 (MQ=21)
ttAGTGAGTAAGGGTAAGGGAGGATTGTTCCTCCCCTGTGACTGACTGTTAATAAGCTGGGAAACtt > 1:850626/1‑67 (MQ=21)
ttAGTGAGTAAGGGTAAGGGAGGATTGTTCCTCCCCTGTGACTGACTGTTAATAAGCTGGGAAACtt > 1:152641/1‑67 (MQ=21)
ttAGTGAGTAAGGGTAAGGGAGGATTGTTCCTCCCCTGTGACTGACTGTTAATAAGCTGGGAAACtt > 1:2392232/1‑67 (MQ=21)
ttAGTGAGTAAGGGTAAGGGAGGATTGTTCCTCCCCTGTGACTGACTGTTAATAAGCTGGGAAACtt > 1:1271572/1‑67 (MQ=21)
ttAGTGAGTAAGGGTAAGGGAGGATTGTTCCTCCCCTGTGACTGACTGTTAATAAGCTGGGAAACtt > 1:1812320/1‑67 (MQ=21)
ttAGTGAGTAAGGGTAAGGGAGGATTGTTCCTCCCCTGTGACTGACTGTTAATAAGCTGGGAAACtt > 1:528746/1‑67 (MQ=21)
ttAGTGAGTAAGGGTAAGGGAGGATTGTTCCTCCCCTGTGACTGACTGTTAATAAGCTGGGAAACtt > 1:231328/1‑67 (MQ=21)
ttAGTGAGTAAGGGTAAGGGAGGATTGTTCCTCCCCTGTGACTGACTGTTAATAAGCTGGGAAACtt > 1:64374/1‑67 (MQ=21)
ttAGTGAGTAAGGGTAAGGGAGGATTGTTCCTCCCCTGTGACTGACTGTTAATAAGCTCGGAAACtt > 1:982191/1‑67 (MQ=25)
ttAGTGAGTAAGGGTAAGGGAGGATTGCTCCTCCCCTGAGACTGACTGTTAATAAGCGCTGAAACtt < 1:539630/67‑1 (MQ=255)
ttAGTGAGTAAGGGTAAGGGAGGATTGCTCCTCCCCTGAGACTGACTGTTAATAAGCGCTGAAACtt < 1:1110299/67‑1 (MQ=255)
ttAGTGAGTAAGGGTAAGGGAGGATTGCTCCTCCCCTGAGACTGACTGTTAATAAGCGCTGAAACtt < 1:2223254/67‑1 (MQ=255)
ttAGTGAGTAAGGGTAAGGGAGGATTGCTCCTCCCCTGAGACTGACTGTTAATAAGCGCTGAAACtt < 1:1276646/67‑1 (MQ=255)
ttAGTGAGTAAGGGTAAGGCAGGATTGTTCCTCCCCTGTgactg > 1:1389105/1‑44 (MQ=255)
gAGTAAGGGTAAGGGAGGATTGCTCCTCCCCTGAGACTGACTGTTAATAAGCGCTGAAACTTATGAGt < 1:469255/68‑1 (MQ=255)
gAGTAAGGGTAAGGGAGGATTGCTCCTCCCCTGAGACTGACTGTTAATAAGCGCTGAAACTTATGAGt < 1:3259641/68‑1 (MQ=255)
ggaggaTTGCTCCTCCCCTGAGACTGACTGTTAATAAGCGCTGAAACTTATGAGTAACAGTACAATCAg > 1:3127275/1‑69 (MQ=255)
ggaggaTTGCTCCTCCCCTGAGACTGACTGTTAATAAGCGCTGAAACTTATGAGTAACAGTACAATCAg > 1:534675/1‑69 (MQ=255)
ggaggaTTGCTCCTCCCCTGAGACTGACTGTTAATAAGCGCTGAAACTTATGAGTAACAGTACAATCAg > 1:1474023/1‑69 (MQ=255)
ggaggaTTGCTCCTCCCCTGAGACTGACTGTTAATAAGCGCTGAAACTTATGAGTAACAGTACAATCAg > 1:397651/1‑69 (MQ=255)
ggaggaTTGCTCCTCCCCTGAGACTGACTGTTAATAAGCGCTGAAACTTATGAGTAACAGTACAATCAg > 1:1226073/1‑69 (MQ=255)
ggaggaTTGCTCCTCCCCTGAGACTGACTGTTAATAAGCGCTGAAACTTATGAGTAACAGTACAATCAg > 1:3024078/1‑69 (MQ=255)
ggaggaTTGCTCCTCCCCTGAGACTGACTGTTAATAAGCGCTGAAACTTATGAGTAACAGTACAATCAg > 1:2387928/1‑69 (MQ=255)
ggaggaTTGCTCCTCCCCTGAGACTGACTGTTAATAAGCGCTGAAACTTATGAGTAACAGTACAATCAg > 1:2527023/1‑69 (MQ=255)
ggaggaTTGCTCCTCCCCTGAGACTGACTGTTAATAAGCGCTGAAACTTATGAGTAACAGTACAATCAg > 1:939474/1‑69 (MQ=255)
aggaTTGTTCCTCCCCTGTGACTGACTGTTAATAAGCTGGGAAACTTATGAGTAACAGTACAATCAGt > 1:1220807/1‑68 (MQ=18)
aggaTTGTTCCTCCCCTGTGACTGACTGTTAATAAGCTGGGAAACTTATGAGTAACAGTACAATCAGt > 1:1868031/1‑68 (MQ=18)
aggaTTGTTCCTCCCCTGTGACTGACTGTTAATAAGCTGGGAAACTTATGAGTAACAGTACAATCAGt > 1:910071/1‑68 (MQ=18)
aggaTTGTTCCTCCCCTGTGACTGACTGTTAATAAGCTGGGAAACTTATGAGTAACAGTACAATCAGt > 1:3367122/1‑68 (MQ=18)
aggaTTGTTCCTCCCCTGTGACTGACTGTTAATAAGCTGGGAAACTTATGAGTAACAGTACAATCAGt > 1:1414714/1‑68 (MQ=18)
aggaTTGTTCCTCCCCTGTGACTGACTGTTAATAAGCTGGGAAACTTATGAGTAACAGTACAATCAGt > 1:2965056/1‑68 (MQ=18)
aggaTTGTTCCTCCCCTGTGACTGACTGTTAATAAGCTGGGAAACTTATGAGTAACAGTACAATCAGt > 1:2454470/1‑68 (MQ=18)
aggaTTGTTCCTCCCCTGTGACTGACTGTTAATAAGCTGGGAAACTTATGAGTAACAGTACAATCAGt > 1:1526160/1‑68 (MQ=18)
gaTTGCTCCTCCCCTGAGACTGACTGTTAATAAGCGCTGAAACTTATGAGTAACAGTACAATCAGTatg < 1:1123261/69‑1 (MQ=255)
gCTCCTCCCCTGAGACTGACTGTTAATAAGCGCTGa < 1:1861580/36‑1 (MQ=255)
gCTCCTCCCCTGAGACTGACTGTTAATAAGCGCTGAAACTTATGAGTAACAGTAc > 1:2641591/1‑55 (MQ=255)
gCTCCTCCCCTGAGACTGACTGTTAATAAGCGCTGAAACTTATGAGTAACAGTAc > 1:1801411/1‑55 (MQ=255)
gCTCCTCCCCTGAGACTGACTGTTAATAAGCGCTGAAACTTATGAGTAACAGTAc > 1:3396765/1‑55 (MQ=255)
gCTCCTCCCCTGAGACTGACTGTTAATAAGCGCTGAAACTTATGAGTAACAGTAc > 1:2676539/1‑55 (MQ=255)
gCTCCTCCCCTGAGACTGACTGTTAATAAGCGCTGAAACTTATGAGTAACAGTAc > 1:3347772/1‑55 (MQ=255)
gCTCCTCCCCTGAGACTGACTGTTAATAAGCGCTGAAACTTATGAGTAACAGTAc > 1:1561351/1‑55 (MQ=255)
gagaCTGACTGTTAATAAGCGCTGAAACTTATGAGTAACGGTACAATCAGTATGATGACAAGTCGcatc < 1:1242522/69‑1 (MQ=255)
gagaCTGACTGTTAATAAGCGCTGAAACTTATGAGTAACAGTACAATCAGTATGATGACAAGTCGcatc < 1:2081061/69‑1 (MQ=255)
gagaCTGACTGTTAATAAGCGCTGAAACTTATGAGTAACAGTACAATCAGTATGATGACAAGTCGcatc < 1:1027410/69‑1 (MQ=255)
gagaCTGACTGTTAATAAGCGCTGAAACTTATGAGTAACAGTACAATCAGTATGATGACAAGTCGcatc < 1:1096163/69‑1 (MQ=255)
gagaCTGACTGTTAATAAGCGCTGAAACTTATGAGTAACAGTACAATCAGTATGATGACAAGTCGcatc < 1:92689/69‑1 (MQ=255)
gagaCTGACTGTTAATAAGCGCTGAAACTTATGAGTAACAGTACAATCAGTATGATGACAAGTCGcatc < 1:2356505/69‑1 (MQ=255)
gagaCTGACTGTTAATAAGCGCTGAAACTTATGAGTAACAGTACAATCAGTATGATGACAAGTCGcatc < 1:1111869/69‑1 (MQ=255)
gagaCTGACTGTTAATAAGCGCTGAAACTTATGAGTAACAGTACAATCAGTATGATGACAAGTCGcatc < 1:912596/69‑1 (MQ=255)
gagaCTGACTGTTAATAAGCGCTGAAACTTATGAGTAACAGTACAATCAGTATGATGACAAGTCGcatc < 1:2983423/69‑1 (MQ=255)
gagaCTGACTGTTAATAAGCGCTGAAACTTATGAGTAACAGTACAATCAGTATGATGACAAGTCGcatc < 1:2999838/69‑1 (MQ=255)
gagaCTGACTGTTAATAAGCGCTGAAACTTATGAGTAACAGTACAATCAGTATGATGACAAGTCGcatc < 1:3065415/69‑1 (MQ=255)
gagaCTGACTGTTAATAAGCGCTGAAACTTATGAGTAACAGTACAATCAGTATGATGACAAGTCGcatc < 1:1864977/69‑1 (MQ=255)
gagaCTGACTGTTAATAAGCGCTGAAACTTATGAGTAACAGTACAATCAGTATGATGACAAGTCGcatc < 1:520414/69‑1 (MQ=255)
agaCTGACTGTTAATAAGCGCTGAAACTTATGAGTAACAGTAc < 1:569138/43‑1 (MQ=255)
|
GATTGACATCGTTGATTCTTTGACCTAATTTAGTGAGTAAGGGTAAGGGAGGATTGCTCCTCCCCTGAGACTGACTGTTAATAAGCGCTGAAACTTATGAGTAACAGTACAATCAGTATGATGACAAGTCGCATC > minE/1956081‑1956215
|
| 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
