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 |
2,634,911 |
G→T |
31.4% |
A16A (GCG→GCT) |
ugpB → |
glycerol‑3‑phosphate transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,634,911 | 0 | G | T | 31.4%
| 64.7
/ 30.4
| 54 | A16A (GCG→GCT) | ugpB | glycerol‑3‑phosphate transporter subunit |
| Reads supporting (aligned to +/- strand): ref base G (16/21); new base T (11/6); total (27/27) |
| Fisher's exact test for biased strand distribution p-value = 2.41e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACAACAAGAGAGATAAACGATGAAACCGTTACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGTTAATGGGGAATGCACAGGCAGTGACGACCATTCCGTTCTGGCATTCTATGGAAGGGGAAC > minE/2634845‑2634972
|
acaacaAGAGAGATAAACGATGAAACCGTTACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGtt < 1:349104/69‑1 (MQ=255)
acaacaAGAGAGATAAACGATGAAACCGTTACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGtt < 1:2964495/69‑1 (MQ=255)
caacaaGAGAGATAAACGATGAAACCGTTACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGTTa > 1:3038010/1‑69 (MQ=255)
caacaaGAGAGATAAACGATGAAACCGTTACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGTTa < 1:2042462/69‑1 (MQ=255)
caacaaGAGAGATAAACGATGAAACCGTTACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGTTa < 1:2054401/69‑1 (MQ=255)
caacaaGAGAGATAAACGATGAAACCGTTACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGTTa > 1:2057340/1‑69 (MQ=255)
caacaaGAGAGATAAACGATGAAACCGTTACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGTTa > 1:2130741/1‑69 (MQ=255)
caacaaGAGAGATAAACGATGAAACCGTTACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGTTa < 1:218670/69‑1 (MQ=255)
caacaaGAGAGATAAACGATGAAACCGTTACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGTTa < 1:2560513/69‑1 (MQ=255)
caacaaGAGAGATAAACGATGAAACCGTTACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGTTa > 1:2890521/1‑69 (MQ=255)
caacaaGAGAGATAAACGATGAAACCGTTACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGTTa > 1:1109508/1‑69 (MQ=255)
caacaaGAGAGATAAACGATGAAACCGTTACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGTTa > 1:3141206/1‑69 (MQ=255)
caacaaGAGAGATAAACGATGAAACCGTTACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGTTa > 1:478535/1‑69 (MQ=255)
caacaaGAGAGATAAACGATGAAACCGTTACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGTTa > 1:531355/1‑69 (MQ=255)
caacaaGAGAGATAAACGATGAAACCGTTACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGTTa > 1:533871/1‑69 (MQ=255)
caacaaGAGAGATAAACGATGAAACCGTTACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGTTa > 1:691408/1‑69 (MQ=255)
caacaaGAGAGATAAACGATGAAACCGTTACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGTTa > 1:982335/1‑69 (MQ=255)
caacaaGAGAGATAAACGATGAAACCGTTACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGTTa < 1:99874/69‑1 (MQ=255)
caacaaGAGAGATAAACGATGAAACCGTTACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGTTa > 1:2019872/1‑69 (MQ=255)
caacaaGAGAGATAAACGATGAAACCGTTACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGTTa < 1:135429/69‑1 (MQ=255)
caacaaGAGAGATAAACGATGAAACCGTTACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGTTa < 1:2019942/69‑1 (MQ=255)
caacaaGAGAGATAAACGATGAAACCGTTACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGTTa < 1:162796/69‑1 (MQ=255)
aaCGATGAAACCGTTACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGTTAATGGGGAATGcaca > 1:3316586/1‑69 (MQ=255)
aaCGATGAAACCGTTACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGTTAATGGGGAATGcaca > 1:945423/1‑69 (MQ=255)
aaCGATGAAACCGTTACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGTTAATGGGGAATGcaca > 1:3386718/1‑69 (MQ=255)
aaCGATGAAACCGTTACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGTTAATGGGGAATGcaca > 1:1390509/1‑69 (MQ=255)
caaTGAAACCGTTACGTTATACAGCTTCAGCACTGGCGCTCGGACTGGCTTTAATGGCAAATGcgca > 1:62210/3‑67 (MQ=255)
caaTGAAACCGTTACGTTATACAGCTTCAGCACTGGCGCTCGGACTGGCTTTAATGGCAAATGcgca > 1:36396/3‑67 (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 > 1:1227032/1‑69 (MQ=255)
tataCAGCTTCAGCACTGGCGCTCGGACTGGCTTTAATGGCAAATGCGCAGGCAGTGACGACCATTCCg > 1:2176066/1‑69 (MQ=255)
tataCAGCTTCAGCACTGGCGCTCGGACTGGCTTTAATGGCAAATGCGCAGGCAGTGACGACCATTCCg > 1:3153349/1‑69 (MQ=255)
tataCAGCTTCAGCACTGGCGCTCGGACTGGCTTTAATGGCAAATGCGCAGGCAGTGACGACCATTCCg > 1:1661524/1‑69 (MQ=255)
tataCAGCTTCAGCACTGGCGCTCGGACTGGCTTTAATGGCAAATGCGCAAGCAGTGACGACCATTCCg > 1:1303927/1‑69 (MQ=255)
gCACTGGCGCTCGGACTGGCGTTAATGGGGAATGCACAGGCAGTGACGACCATTCCGTTCTGGCATTc < 1:1047574/68‑1 (MQ=255)
gCACTGGCGCTCGGACTGGCGTTAATGGGGAATGCACAGGCAGTGACGACCATTCCGTTCTGGCATTc < 1:636555/68‑1 (MQ=255)
gCACTGGCGCTCGGACTGGCGTTAATGGGGAATGCACAGGCAGTGACGACCATTCCGTTCTGGCATTc < 1:593123/68‑1 (MQ=255)
gCACTGGCGCTCGGACTGGCGTTAATGGGGAATGCACAGGCAGTGACGACCATTCCGTTCTGGCATTc < 1:135184/68‑1 (MQ=255)
gCACTGGCGCTCGGACTGGCGTTAATGGGGAATGCACAGGCAGTGACGACCATTCCGTTCTGGCATTc < 1:3365996/68‑1 (MQ=255)
gCACTGGCGCTCGGACTGGCGTTAATGGGGAATGCACAGGCAGTGACGACCATTCCGTTCTGGCATTc < 1:1508770/68‑1 (MQ=255)
gCACTGGCGCTCGGACTGGCGTTAATGGGGAATGCACAGGCAGTGACGACCATTCCGTTCTGGCATTc < 1:1531690/68‑1 (MQ=255)
gCACTGGCGCTCGGACTGGCGTTAATGGGGAATGCACAGGCAGTGACGACCATTCCGTTCTGGCATTc < 1:2772621/68‑1 (MQ=255)
gCACTGGCGCTCGGACTGGCGTTAATGGGGAATGCACAGGCAGTCACGACCATTCCGTTCTGGCATTc < 1:2989662/68‑1 (MQ=255)
aCTGGCTTTAATGGCAATTGCGCAGGCAGTGACGACCATTCCGTTCTGGCATTCTATGGAAGGGGAAc < 1:1545621/68‑1 (MQ=255)
aCTGGCTTTAATGGCAAATGCGCAGGCAGTGACGACCATTCCGTTCTGGCATTCTATGGAAGGGGAAc < 1:514084/68‑1 (MQ=255)
aCTGGCTTTAATGGCAAATGCGCAGGCAGTGACGACCATTCCGTTCTGGCATTCTATGGAAGGGGAAc < 1:20607/68‑1 (MQ=255)
aCTGGCTTTAATGGCAAATGCGCAGGCAGTGACGACCATTCCGTTCTGGCATTCTATGGAAGGGGAAc < 1:2962540/68‑1 (MQ=255)
aCTGGCTTTAATGGCAAATGCGCAGGCAGTGACGACCATTCCGTTCTGGCATTCTATGGAAGGGGAAc < 1:1954225/68‑1 (MQ=255)
aCTGGCTTTAATGGCAAATGCGCAGGCAGTGACGACCATTCCGTTCTGGCATTCTATGGAAGGGGAAc < 1:965446/68‑1 (MQ=255)
|
ACAACAAGAGAGATAAACGATGAAACCGTTACATTATACAGCTTCAGCACTGGCGCTCGGACTGGCGTTAATGGGGAATGCACAGGCAGTGACGACCATTCCGTTCTGGCATTCTATGGAAGGGGAAC > minE/2634845‑2634972
|
| 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
