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 |
330,220 |
A→G |
20.8% |
G496G (GGT→GGC) |
ybaL ← |
predicted transporter with NAD(P)‑binding Rossmann‑fold domain |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 330,220 | 0 | A | G | 20.8%
| 116.6
/ 23.0
| 86 | G496G (GGT→GGC) | ybaL | predicted transporter with NAD(P)‑binding Rossmann‑fold domain |
| Reads supporting (aligned to +/- strand): ref base A (21/47); new base G (14/4); total (35/51) |
| Fisher's exact test for biased strand distribution p-value = 7.85e-04 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.53e-01 |
CATAATGGGCGCGGGCAATAATCTCAATATCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCATTTTGCACATTCCAGATGC > minE/330156‑330277
|
cATAATGGGCGCGGGCAATAATCTCAATATCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCg > 1:1196223/1‑69 (MQ=255)
cATAATGGGCGCGGGCAATAATCTCAATATCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCg > 1:503313/1‑69 (MQ=255)
cATAATGGGCGCGGGCAATAATCTCAATATCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCg > 1:1361152/1‑69 (MQ=255)
aTAATGGGCGCGGGCAATAATCTCAATATCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGc < 1:2365651/69‑1 (MQ=255)
aTAATGGGCGCGGGCAATAATCTCAATATCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGc < 1:2805311/69‑1 (MQ=255)
aTAATGGGCGCGGGCAATAATCTCAATATCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGc < 1:1602325/69‑1 (MQ=255)
aTAATGGGCGCGGGCAATAATCTCAATATCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGc < 1:2053425/69‑1 (MQ=255)
aTAATGGGCGCGGGCAATAATCTCAATATCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGc < 1:648538/69‑1 (MQ=255)
aTGGGCGCGGGCAATAATCTCAATATCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTc < 1:1255383/69‑1 (MQ=255)
aTGGGCGCGGGCAATAATCTCAATATCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTc < 1:1508399/69‑1 (MQ=255)
aTGGGCGCGGGCAATAATCTCAATATCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTc < 1:488657/69‑1 (MQ=255)
aTGGGCGCGGGCAATAATCTCAATATCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTc < 1:965247/69‑1 (MQ=255)
aTGGGCGCGGGCAATAATCTCAATATCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTc < 1:1040204/69‑1 (MQ=255)
tGGGCGCGGTCAATAATCTCAATATCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTc < 1:1586949/68‑1 (MQ=255)
tGGGCGCGGGCAATAATCTCAATATCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTc < 1:790020/68‑1 (MQ=255)
aataatCTCAATATCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTc < 1:2217930/57‑1 (MQ=255)
aatCTCAATATCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGaa > 1:1148485/1‑68 (MQ=255)
tatCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAgg < 1:1747147/68‑1 (MQ=255)
tatCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAgg > 1:2143186/1‑68 (MQ=255)
tatCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAgg < 1:1489540/68‑1 (MQ=255)
tatCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAgg > 1:2521851/1‑68 (MQ=255)
tatCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAgg < 1:2983711/68‑1 (MQ=255)
tatCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAgg < 1:3038917/68‑1 (MQ=255)
tatCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAg < 1:2373875/67‑1 (MQ=255)
tatCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAg < 1:311248/67‑1 (MQ=255)
tatCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAg < 1:690625/67‑1 (MQ=255)
tatCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAg < 1:2376900/67‑1 (MQ=255)
atCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAgg < 1:1607717/67‑1 (MQ=255)
tCCGGATTTTTCGCGCGGGCAGATGCCATAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATc > 1:2352162/1‑69 (MQ=255)
tCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCGGGATc > 1:3112691/1‑69 (MQ=255)
tCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATc > 1:869849/1‑69 (MQ=255)
tCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATc > 1:3093926/1‑69 (MQ=255)
tCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATc > 1:1410553/1‑69 (MQ=255)
tCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATc > 1:3098009/1‑69 (MQ=255)
tCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATc > 1:2723385/1‑69 (MQ=255)
tCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATc > 1:36298/1‑69 (MQ=255)
tCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATc > 1:1154569/1‑69 (MQ=255)
cGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTCAt > 1:1039703/1‑44 (MQ=255)
cGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTCAt > 1:1567620/1‑44 (MQ=255)
aTTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCa < 1:457031/69‑1 (MQ=255)
aTTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCa < 1:1637264/69‑1 (MQ=255)
aTTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCa < 1:226254/69‑1 (MQ=255)
aTTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCa < 1:233599/69‑1 (MQ=255)
aTTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCa < 1:2013303/69‑1 (MQ=255)
tttttCGCGCGGGCAGATGCCACAATCTCACCCGCTTCATAACCGTTGGTAATCGTCAGGATCAGCCa < 1:385182/68‑1 (MQ=255)
cgcgGGCAGATGCCACAATCTCGCCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCATTTTGca < 1:633339/68‑1 (MQ=255)
cgcgGGCAGATGCCACAATCTCGCCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCATTTTGca < 1:2054182/68‑1 (MQ=255)
cgcgGGCAGATGCCACAATCTCGCCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCATTTTGca < 1:3115821/68‑1 (MQ=255)
cgcgGGCAGATGCCACAATCTCGCCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCATTTTGca < 1:448501/68‑1 (MQ=255)
gggCAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCATTTTGCACAtt < 1:2769078/69‑1 (MQ=255)
ggCAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCATTTTGCACAtt < 1:1901057/68‑1 (MQ=255)
cAGATGCCACAATCTCACCCGCTTCATAAGCGTTGGGAATCGTCAGGATCAGCCATTTTGCACATTCCa < 1:3206430/69‑1 (MQ=255)
cAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCATTTTGCACATTCCa < 1:1615198/69‑1 (MQ=255)
cAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCATTTTGCACATTCCa < 1:623779/69‑1 (MQ=255)
cAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCATTTTGCACATTCCa < 1:2634192/69‑1 (MQ=255)
cAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCATTTTGCACATTCCa < 1:1229154/69‑1 (MQ=255)
cAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCATTTTGCACATTCCa < 1:2425146/69‑1 (MQ=255)
cAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCATTTTGCACATTCCa < 1:1178547/69‑1 (MQ=255)
cAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCATTTTGCACATTCCa < 1:2906927/69‑1 (MQ=255)
cAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCATTTTGCACATTCCa < 1:2936613/69‑1 (MQ=255)
cAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCATTTTGCACATTCCa < 1:2969880/69‑1 (MQ=255)
cAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCATTTTGCACATTCCa < 1:1441647/69‑1 (MQ=255)
cAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCATTTTGCACATTCCa < 1:2288959/69‑1 (MQ=255)
aGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCATTTTGCACATTCCa < 1:1768507/68‑1 (MQ=255)
aGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCATTTTGCACATTCCa < 1:516111/68‑1 (MQ=255)
tGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCATTTTGCACATTCCAGATg < 1:3153765/69‑1 (MQ=255)
tGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCATTTTGCACATTCCAGATg < 1:2839203/69‑1 (MQ=255)
tGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCATTTTGCACATTCCAGATg < 1:135739/69‑1 (MQ=255)
gCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCATTTTGCACATTCCAGATgc > 1:684127/1‑69 (MQ=255)
gCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCATTTTGCACATTCCAGATgc > 1:1900391/1‑69 (MQ=255)
gCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCATTTTGCACATTCCAGATgc > 1:3430835/1‑69 (MQ=255)
gCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCATTTTGCACATTCCAGATgc > 1:798090/1‑69 (MQ=255)
cacaATCTCGCCCGCTTCATAGCCGTTGGGAATCGTCAGGATCAg > 1:2074364/1‑45 (MQ=38)
cacaATCTCGCCCGCTTCATAGCCGTTGGGAATCGTCAGGATCAGCCa > 1:1396967/1‑48 (MQ=39)
cacaATCTCGCCCGCTTCATAGCCGTTGGGAATCGTCAGGATCAGCCa > 1:2561553/1‑48 (MQ=39)
cacaATCTCGCCCGCTTCATAGCCGTTGGGAATCGTCAGGATCAGCCAt > 1:1830547/1‑49 (MQ=39)
cacaATCTCGCCCGCTTCATAGCCGTTGGGAATCGTCAGGATCAGCCAt > 1:1174910/1‑49 (MQ=39)
cacaATCTCGCCCGCTTCATAGCCGTTGGGAATCGTCAGGATCAGCCAt > 1:1911938/1‑49 (MQ=39)
cacaATCTCGCCCGCTTCATAGCCGTTGGGAATCGTCAGGATCAGCCAt > 1:1979345/1‑49 (MQ=39)
cacaATCTCGCCCGCTTCATAGCCGTTGGGAATCGTCAGGATCAGCCAt > 1:558982/1‑49 (MQ=39)
cacaATCTCGCCCGCTTCATAGCCGTTGGGAATCGTCAGGATCAGCCAt > 1:864090/1‑49 (MQ=39)
cacaATCTCGCCCGCTTCATAGCCGTTGGGAATCGTCAGGATCAGCCAt > 1:1468360/1‑49 (MQ=39)
cacaATCTCGCCCGCTTCATAGCCGTTGGGAATCGTCAGGATCAGCCAt > 1:253029/1‑49 (MQ=39)
cacaATCTCGCCCGCTTCATAGCCGTTGGGAATCGTCAGGATCAGCCAt > 1:1092363/1‑49 (MQ=39)
cacaATCTCGCCCGCTTCATAGCCGTTGGGAATCGTCAGGATCAGCCAt > 1:2747900/1‑49 (MQ=39)
cacaATCTCGCCCGCTTCATAGCCGTTGGGAATCGTCAGGATCAGCCAt > 1:1468000/1‑49 (MQ=39)
aCCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCATTTTGca < 1:1649570/46‑1 (MQ=255)
aCCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCATTTTGca < 1:997614/46‑1 (MQ=255)
aCCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCATTTTGca < 1:1504572/46‑1 (MQ=255)
aCCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCATTTTGca < 1:2510276/46‑1 (MQ=255)
aCCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCATTTTGca < 1:3320825/46‑1 (MQ=255)
aCCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCATTTTGca < 1:267945/46‑1 (MQ=255)
aCCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCATTTTGca < 1:3182324/46‑1 (MQ=255)
|
CATAATGGGCGCGGGCAATAATCTCAATATCCGGATTTTTCGCGCGGGCAGATGCCACAATCTCACCCGCTTCATAACCGTTGGGAATCGTCAGGATCAGCCATTTTGCACATTCCAGATGC > minE/330156‑330277
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
