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 |
278,904 |
C→T |
64.2% |
L69L (TTG→TTA) |
cyoB ← |
cytochrome o ubiquinol oxidase subunit I |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 278,904 | 0 | C | T | 64.2%
| 41.3
/ 39.1
| 67 | L69L (TTG→TTA) | cyoB | cytochrome o ubiquinol oxidase subunit I |
| Reads supporting (aligned to +/- strand): ref base C (10/14); new base T (28/15); total (38/29) |
| Fisher's exact test for biased strand distribution p-value = 7.65e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.44e-01 |
GAGCCTGCTGGCTACGCATCATAATGGCGTCAGCAAAACCACGCAGCAACATCACAATCGCCACGATGATATACATGATACCGAGGCGTTTATGGTCGACGG > minE/278858‑278959
|
gagCCTGCTGGCTACGCATCATAATGGCGTCAGCAAAACCACGCAGCAACATCACAATCGCCACgatga < 1:3295949/69‑1 (MQ=255)
gagCCTGCTGGCTACGCATCATAATGGCGTCAGCAAAACCACGCAGCAACATCACAATCGCCACgatga < 1:2075149/69‑1 (MQ=255)
gagCCTGCTGGCTACGCATCATAATGGCGTCAGCAAAACCACGCAGCAACAACACAATCGCCACgatga < 1:922717/69‑1 (MQ=255)
ccTGCTGGCTACGCATCATAATGGCGTCAGCAAAACCACGCAGCAACATCACAATCGCCACGATGata > 1:928628/1‑68 (MQ=255)
ccTGCTGGCTACGCATCATAATGGCGTCAGCAAAACCACGCAGCAACATCACAATCGCCACGATGata > 1:1770453/1‑68 (MQ=255)
ggCTACGCATCATAATGGCGTCAGCAAAACCACGCAGCAACATCACAATCGCCACGATGATATACAt < 1:2642316/67‑1 (MQ=255)
ggCTACGCATCATAATGGCGTCAGCAAAACCACGCAGCAACATCACAATCGCCACGATGATATACAt < 1:999159/67‑1 (MQ=255)
ggCTACGCATCATAATGGCGTCAGCAAAACCACGCAGCAACATCACAATCGCCACGATGATATACAt < 1:3115307/67‑1 (MQ=255)
ggCTACGCATCATAATGGCGTCAGCAAAACCACGCAGCAACATCACAATCGCCACGATGATATACAt < 1:2968220/67‑1 (MQ=255)
ggCTACGCATCATAATGGCGTCAGCAAAACCACGCAGCAACATCACAATCGCCACGATGATATACAt < 1:2928116/67‑1 (MQ=255)
ggCTACGCATCATAATGGCGTCAGCAAAACCACGCAGCAACATCACAATCGCCACGATGATATACAt < 1:2583941/67‑1 (MQ=255)
ggCTACGCATCATAATGGCGTCAGCAAAACCACGCAGCAACATCACAATCGCCACGATGATATACAt < 1:1114356/67‑1 (MQ=255)
ggCTACGCATCATAATGGCGTCAGCAAAACCACGCAGCAACATCACAATCGCCACGATGATATACAt < 1:1200972/67‑1 (MQ=255)
tACGCATCATAATGGCGTCAGCAAAACCACGCAGCAACATCACAATCGCCACGATGATATATATGATa > 1:2245009/1‑68 (MQ=255)
tACGCATCATAATGGCGTCAGCAAAACCACGCAGCAACATCACAATCGCCACGATGATATACATGATa > 1:2704193/1‑68 (MQ=255)
tACGCATCATAATGGCGTCAGCAAAACCACGCAGCAACATCACAATCGCCACGATGATATACATGATa > 1:2437405/1‑68 (MQ=255)
tACGCATCATAATGGCGTCAGCAAAACCACGCAGCAACATCACAATCGCCACGATGATATACATGATa > 1:3153137/1‑68 (MQ=255)
tACGCATCATAATGGCGTCAGCAAAACCACGCAGCAACATCACAATCGCCACGATGATATACATGATa > 1:2148368/1‑68 (MQ=255)
tACGCATCATAATGGCGTCAGCAAAACCACGCAGCAACATCACAATCGCCACGATGATATACATGATa > 1:1783802/1‑68 (MQ=255)
atAATGGCGTCAGCAAACCCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCg > 1:2624016/1‑68 (MQ=255)
atAATGGCGTCAGCAAAACCACGCAGTAACATCACAATCGCCACgatgat > 1:2650699/1‑50 (MQ=255)
atAATGGCGTCAGCAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAgg > 1:3029980/1‑66 (MQ=255)
atAATGGCGTCAGCAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCg > 1:897355/1‑68 (MQ=255)
atAATGGCGTCAGCAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCg > 1:1740130/1‑68 (MQ=255)
atAATGGCGTCAGCAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCg > 1:2766094/1‑68 (MQ=255)
atAATGGCGTCAGCAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCg > 1:1406489/1‑68 (MQ=255)
atAATGGCGTCAGCAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCg > 1:3030597/1‑68 (MQ=255)
atAATGGCGTCAGCAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCg > 1:3108862/1‑68 (MQ=255)
atAATGGCGTCAGCAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCg > 1:3147027/1‑68 (MQ=255)
atAATGGCGTCAGCAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCg > 1:736943/1‑68 (MQ=255)
atAATGGCGTCAGCAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCg > 1:796815/1‑68 (MQ=255)
atAATGGCGTCAGCAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCg > 1:3285032/1‑68 (MQ=255)
atAATGGCGTCAGCAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCg > 1:781851/1‑68 (MQ=255)
atAATGGCGTCAGCAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCg > 1:1334822/1‑68 (MQ=255)
atAATGGCGTCAGCAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCg > 1:451692/1‑68 (MQ=255)
atAATGGCGTCAGCAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCg > 1:561616/1‑68 (MQ=255)
atAATGGCGTCAGCAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCg > 1:606915/1‑68 (MQ=255)
atAATGGCGTCAGCAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCg > 1:1546592/1‑68 (MQ=255)
atAATGGCGTCAGCAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCg > 1:1663470/1‑68 (MQ=255)
atAATGGCGTCAGCAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCg > 1:1747734/1‑68 (MQ=255)
atAATGGCGTCAGCAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCg > 1:1632872/1‑68 (MQ=255)
atAATGGCGTCAGCAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCg > 1:1892522/1‑68 (MQ=255)
atAATGGCGTCAGCAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCg > 1:1975872/1‑68 (MQ=255)
atAATGGCGTCAGCAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCg > 1:246991/1‑68 (MQ=255)
atAATGGCGTCAGCAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCg > 1:2626674/1‑68 (MQ=255)
atAATGGCGTCAGCAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCg > 1:1030168/1‑68 (MQ=255)
atAATGCCGTCAGCAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCg > 1:5731/1‑68 (MQ=255)
aTGGCGTCAGCAAAACCACGCAGCAACATCACAATCGCCACGATGATATACAt < 1:778482/53‑1 (MQ=255)
aTGGCGTCAGCAAAACCACGCAGCAACATCACAATCGCCACGATGATATACAt < 1:64424/53‑1 (MQ=255)
aTGGCGTCAGCAAAACCACGCAGCAACATCACAATCGCCACGATGATATACATGATACCGAGGCGTTTa > 1:1258025/1‑69 (MQ=255)
aTGGCGTCAGCAAAACCACGCAGCAACATCACAATCGCCACGATGATATACATGATACCGAGGCGTTTa > 1:2652101/1‑69 (MQ=255)
gTCAGCAAAACCACGCAGCAACATCACAATCGCCACGATGATATACATGATACCGAGGCGTTTATGGTc < 1:2211906/69‑1 (MQ=255)
cAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCGTTTATGGTCGACgg < 1:2789557/69‑1 (MQ=255)
cAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCGTTTATGGTCGACgg < 1:1460579/69‑1 (MQ=255)
cAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCGTTTATGGTCGACgg < 1:2922444/69‑1 (MQ=255)
cAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCGTTTATGGTCGACgg < 1:1419033/69‑1 (MQ=255)
cAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCGTTTATGGTCGACgg < 1:1972855/69‑1 (MQ=255)
cAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCGTTTATGGTCGACgg < 1:750535/69‑1 (MQ=255)
cAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCGTTTATGGTCGACgg < 1:3020340/69‑1 (MQ=255)
cAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCGTTTATGGTCGACgg < 1:200126/69‑1 (MQ=255)
cAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCGTTTATGGTCGACgg < 1:2036302/69‑1 (MQ=255)
cAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCGTTTATGGTCGACgg < 1:542311/69‑1 (MQ=255)
cAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCGTTTATGGTCGACgg < 1:2120399/69‑1 (MQ=255)
cAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCGTTTATGGTCGACgg < 1:2371379/69‑1 (MQ=255)
cAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCGTTTATGGTCGACgg < 1:3141656/69‑1 (MQ=255)
cAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCGTTTATGGTCGACgg < 1:1374916/69‑1 (MQ=255)
cAAAACCACGCAGTAACATCACAATCGCCACGATGATATACATGATACCGAGGCGTTTATGGTCGACgg < 1:2547975/69‑1 (MQ=255)
|
GAGCCTGCTGGCTACGCATCATAATGGCGTCAGCAAAACCACGCAGCAACATCACAATCGCCACGATGATATACATGATACCGAGGCGTTTATGGTCGACGG > minE/278858‑278959
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
