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 |
2,634,919 |
G→C |
53.1% |
G19A (GGG→GCG) ‡ |
ugpB → |
glycerol‑3‑phosphate transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,634,919 | 0 | G | C | 53.1%
| 0.2
/ 35.0
| 32 | G19A (GGG→GCG) ‡ | ugpB | glycerol‑3‑phosphate transporter subunit |
| Reads supporting (aligned to +/- strand): ref base G (4/11); new base C (11/6); total (15/17) |
| Fisher's exact test for biased strand distribution p-value = 4.16e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.09e-01 |
AACGATGAAACCGTTACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGTTAATGGGGAATGCACAGGCAGTGACGACCATTCCGTTCTGGCATTCTATGGAAGGGGAACTGGGTA > minE/2634860‑2634978
|
aaCGATGAAACCGTTACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGTTAATGGGGAATGcaca > 1:3316586/1‑69 (MQ=255)
aaCGATGAAACCGTTACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGTTAATGGGGAATGcaca > 1:3386718/1‑69 (MQ=255)
aaCGATGAAACCGTTACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGTTAATGGGGAATGcaca > 1:945423/1‑69 (MQ=255)
aaCGATGAAACCGTTACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGTTAATGGGGAATGcaca > 1:1390509/1‑69 (MQ=255)
caaTGAAACCGTTACGTTATACAGCTTCAGCACTGGCGCTCGGACTGGCTTTAATGGCAAATGcgca > 1:36396/3‑67 (MQ=255)
caaTGAAACCGTTACGTTATACAGCTTCAGCACTGGCGCTCGGACTGGCTTTAATGGCAAATGcgca > 1:62210/3‑67 (MQ=255)
gTTACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGTTAATGGGGAATGCACAGGCAGTgacgac < 1:1941179/69‑1 (MQ=255)
tACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGTTAATGGGGAATGCACAGGCAGTGACGACCa < 1:1149695/69‑1 (MQ=255)
tataCAGCTTCAGCACTGGCGCTCGGACTGGCTTTAATGGCAAATGCGCAGGCAGTGACGACCATTcc > 1:3008322/1‑68 (MQ=255)
tataCAGCTTCAGCACTGGCGCTCGGACTGGCTTTAATGGCAAATGCGCAGGCAGTGACGACCATTcc > 1:1229075/1‑68 (MQ=255)
tataCAGCTTCAGCACTGGCGCTCGGACTGGCTTTAATGGCAAATGCGCAGGCAGTGACGACCATTCCg > 1:1619304/1‑69 (MQ=255)
tataCAGCTTCAGCACTGGCGCTCGGACTGGCTTTAATGGCAAATGCGCAGGCAGTGACGACCATTCCg > 1:706968/1‑69 (MQ=255)
tataCAGCTTCAGCACTGGCGCTCGGACTGGCTTTAATGGCAAATGCGCAGGCAGTGACGACCATTCCg > 1:1661524/1‑69 (MQ=255)
tataCAGCTTCAGCACTGGCGCTCGGACTGGCTTTAATGGCAAATGCGCAGGCAGTGACGACCATTCCg > 1:1227032/1‑69 (MQ=255)
tataCAGCTTCAGCACTGGCGCTCGGACTGGCTTTAATGGCAAATGCGCAGGCAGTGACGACCATTCCg > 1:2176066/1‑69 (MQ=255)
tataCAGCTTCAGCACTGGCGCTCGGACTGGCTTTAATGGCAAATGCGCAGGCAGTGACGACCATTCCg > 1:3153349/1‑69 (MQ=255)
tataCAGCTTCAGCACTGGCGCTCGGACTGGCTTTAATGGCAAATGCGCAAGCAGTGACGACCATTCCg > 1:1303927/1‑69 (MQ=255)
gCACTGGCGCTCGGACTGGCGTTAATGGGGAATGCACAGGCAGTGACGACCATTCCGTTCTGGCATTc < 1:636555/68‑1 (MQ=255)
gCACTGGCGCTCGGACTGGCGTTAATGGGGAATGCACAGGCAGTGACGACCATTCCGTTCTGGCATTc < 1:593123/68‑1 (MQ=255)
gCACTGGCGCTCGGACTGGCGTTAATGGGGAATGCACAGGCAGTGACGACCATTCCGTTCTGGCATTc < 1:3365996/68‑1 (MQ=255)
gCACTGGCGCTCGGACTGGCGTTAATGGGGAATGCACAGGCAGTGACGACCATTCCGTTCTGGCATTc < 1:2772621/68‑1 (MQ=255)
gCACTGGCGCTCGGACTGGCGTTAATGGGGAATGCACAGGCAGTGACGACCATTCCGTTCTGGCATTc < 1:135184/68‑1 (MQ=255)
gCACTGGCGCTCGGACTGGCGTTAATGGGGAATGCACAGGCAGTGACGACCATTCCGTTCTGGCATTc < 1:1508770/68‑1 (MQ=255)
gCACTGGCGCTCGGACTGGCGTTAATGGGGAATGCACAGGCAGTGACGACCATTCCGTTCTGGCATTc < 1:1531690/68‑1 (MQ=255)
gCACTGGCGCTCGGACTGGCGTTAATGGGGAATGCACAGGCAGTGACGACCATTCCGTTCTGGCATTc < 1:1047574/68‑1 (MQ=255)
gCACTGGCGCTCGGACTGGCGTTAATGGGGAATGCACAGGCAGTCACGACCATTCCGTTCTGGCATTc < 1:2989662/68‑1 (MQ=255)
aCTGGCTTTAATGGCAATTGCGCAGGCAGTGACGACCATTCCGTTCTGGCATTCTATGGAAGGGGAAc < 1:1545621/68‑1 (MQ=255)
aCTGGCTTTAATGGCAAATGCGCAGGCAGTGACGACCATTCCGTTCTGGCATTCTATGGAAGGGGAAc < 1:965446/68‑1 (MQ=255)
aCTGGCTTTAATGGCAAATGCGCAGGCAGTGACGACCATTCCGTTCTGGCATTCTATGGAAGGGGAAc < 1:2962540/68‑1 (MQ=255)
aCTGGCTTTAATGGCAAATGCGCAGGCAGTGACGACCATTCCGTTCTGGCATTCTATGGAAGGGGAAc < 1:20607/68‑1 (MQ=255)
aCTGGCTTTAATGGCAAATGCGCAGGCAGTGACGACCATTCCGTTCTGGCATTCTATGGAAGGGGAAc < 1:1954225/68‑1 (MQ=255)
aCTGGCTTTAATGGCAAATGCGCAGGCAGTGACGACCATTCCGTTCTGGCATTCTATGGAAGGGGAAc < 1:514084/68‑1 (MQ=255)
gggAATGCACAGGCAGTGACGACCATTCCGTTCTGGCATTCTATGGAAGGGGAACTGGGTa < 1:1666810/61‑1 (MQ=255)
gggAATGCACAGGCAGTGACGACCATTCCGTTCTGGCATTCTATGGAAGGGGAACTGGGTa < 1:884900/61‑1 (MQ=255)
gggAATGCACAGGCAGTGACGACCATTCCGTTCTGGCATTCTATGGAAGGGGAACTGGGTa < 1:1575609/61‑1 (MQ=255)
gggAATGCACAGGCAGTGACGACCATTCCGTTCTGGCATTCTATGGAAGGGGAACTGGGTa < 1:1650626/61‑1 (MQ=255)
gggAATGCACAGGCAGTGACGACCATTCCGTTCTGGCATTCTATGGAAGGGGAACTGGGTa < 1:3263388/61‑1 (MQ=255)
gggAATGCACAGGCAGTGACGACCATTCCGTTCTGGCATTCTATGGAAGGGGAACTGGGTa < 1:2650858/61‑1 (MQ=255)
gggAATGCACAGGCAGTGACGACCATTCCGTTCTGGCATTCTATGGAAGGGGAACTGGGTa < 1:3017730/61‑1 (MQ=255)
gggAATGCACAGGCAGTGACGACCATTCCGTTCTGGCATTCTATGGAAGGGGAACTGGGTa < 1:2699041/61‑1 (MQ=255)
gggAATGCACAGGCAGTGACGACCATTCCGTTCTGGCATTCTATGGAAGGGGAACTGGGTa < 1:2785442/61‑1 (MQ=255)
gggAATGCAAAGGCAGTGACGACCATTCCGTTCTGGCATTCTATGGAAGGGGAACTGGGTa < 1:734330/61‑1 (MQ=255)
|
AACGATGAAACCGTTACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGTTAATGGGGAATGCACAGGCAGTGACGACCATTCCGTTCTGGCATTCTATGGAAGGGGAACTGGGTA > minE/2634860‑2634978
|
| 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
