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 |
|
A1 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,006,848 |
A→T |
24.3% |
K159* (AAA→TAA) |
ycbW → |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,006,848 | 0 | A | T | 24.3%
| 67.2
/ 21.1
| 37 | K159* (AAA→TAA) | ycbW | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (9/19); new base T (3/6); total (12/25) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.83e-01 |
CACTATGCCTGCTGGCACAACCCTGCGTTGTTATTGCGGGTCGCGCGATGCAGTTGGGCGACGCCATTAAAATCATGAACGACAGGCTGAAACCGCAGGTTAATGTTGACAGCTTCAGCCTCGAACAGGCAGTCTAA > W3110S.gb/1006780‑1006916
|
cACTATGCCTGCTGGCACAACCCTGCGTTGTTATTGCGGGTCGCGCGATGCAGTTGGGCGACGCCATTa < 1:947426/69‑1 (MQ=255)
cTATGCCTGCTGGCACAACCCTGCGTTGTTATTGCGGGTCGCGCGATGCAGTTGGGCGACGCCATTaaa < 1:1815250/69‑1 (MQ=255)
cTATGCCTGCTGGCACAACCCTGCGTTGTTATTGCGGGTCGCGCGATGCAGTTGGGCGACGCCATTaaa < 1:2122406/69‑1 (MQ=255)
aTGCCTGCTGGCACAACCCTGCGTTGTTATTGCGGGTCGCGCGATGCAGTTGGGCGACGCCATTa > 1:1772468/1‑65 (MQ=255)
aTGCCTGCTGGCACAACCCTGCGTTGTTATTGCGGGTCGCGCGATGCAGTTGGGCGACGCCATTa > 1:200891/1‑65 (MQ=255)
aTGCCTGCTGGCACAACCCTGCGTTGTTATTGCGGGTCGCGCGATGCAGTTGGGCGACGCCATTAAAAt > 1:3656518/1‑69 (MQ=255)
aTGCCTGCTGGCACAACCCTGCGTTGTTATTGCGGGTCGCGCGATGCAGTTGGGCGACGCCATTAAAAt > 1:1847286/1‑69 (MQ=255)
aTGCCTGCTGGCACAACCCTGCGTTGTTATTGCGGGTCGCGCGATGCAGTTGGGCGACGCCATTAAAAt > 1:2875332/1‑69 (MQ=255)
aTGCCTGCTGGCACAACCCTGCGTTGTTATTGCGGGTCGCGCGATGCAGTTGGGCGACGCCATTAAAAt > 1:2659134/1‑69 (MQ=255)
tGCCTGCTGGCACAACCCTGCGTTGTTATTGCGGGTCGCGCGATGCAGTTGGGCGACGCCATTtaa > 1:597668/1‑66 (MQ=255)
tGCCTGCTGGCACAACCCTGCGTTGTTATTGCGGGTCGCGCGATGCAGTTGGGCGACGCCATTtaa > 1:1789667/1‑66 (MQ=255)
tGCCTGCTGGCACAACCCTGCGTTGTTATTGCGGGTCGCGCGATGCAGTTGGGCGACGCCATTtaa > 1:3377926/1‑66 (MQ=255)
tGCCTGCTGGCACAACCCTGCGTTGTTATTGCGGGTCGCGCGATGCAGTTGGGCGACGCCATTAAAATc > 1:444616/1‑69 (MQ=255)
tGCCTGCTGGCACAACCCTGCGTTGTTATTGCGGGTCGCGCGATGCAGTTGGGCGACGCCATTAAAATc > 1:2284530/1‑69 (MQ=255)
ggCACAACCCTGCGTTGTTATTGCGGGTCGCGCGATGCAGTTGGGCTACGCCATTAAAATCATGAACGa < 1:1907115/69‑1 (MQ=255)
aaCCCTGCGTTGTTATTGCGGGTCGCGCGATGCAGTTGGGCGACGCCATTAAAATCATGAACGa < 1:1034446/64‑1 (MQ=255)
aCCCTGCGTTGTTATTGCGGGTCGCGCGATGCAGTTGGGCGACGCCATTTAAATCATGAACGACAGGc > 1:1939754/1‑68 (MQ=255)
aCCCTGCGTTGTTATTGCGGGTCGCGCGATGCAGTTGGGCGACGCCATTTAAATCATGAACGACAGGc > 1:921657/1‑68 (MQ=255)
aCCCTGCGTTGTTATTGCGGGTCGCGCGATGCAGTTGGGCGACGCCATTTAAATCATGAACGACAGGc > 1:2744387/1‑68 (MQ=255)
cacTGCGTTGTTATTGCGGGTCGCGCGATGCAGTTGGGCGACGCCATTAAAATCATGAACGa < 1:3122037/60‑1 (MQ=255)
ccTGCGTTGTTATTGCGGGTCGCGCGATGCAGTTGGGCGACGCCATTAAAATCATGAACGACAGGCTGa < 1:34827/69‑1 (MQ=255)
ccTGCGTTGTTATTGCGGGTCGCGCGATGCAGTTGGGCGACGCCATTAAAATCATGAACGACAGGCTGa < 1:3081334/69‑1 (MQ=255)
ccTGCGTTGTTATTGCGGGTCGCGCGATGCAGTTGGGCGACGCCATTAAAATCATGAACGACAGGATGa < 1:2795360/69‑1 (MQ=255)
ccTGCGTTGTTATTGCGGGTCGCGCGATGCAGTTGGGCGACGCCATTAAAATCATGAACGACAGGATGa < 1:2799621/69‑1 (MQ=255)
aTTGCGGGTCGCGCGATGCAGTTGGGCGACGCCATTAAAATCATGAACGACAGGCTGAAACCGCAGGtt < 1:3284205/69‑1 (MQ=255)
aTTGCGGGTCGCGCGATGCAGTTGGGCGACGCCATTAAAATCATGAACGACAGGCTGAAACCGCAGGtt < 1:2371536/69‑1 (MQ=255)
aTTGCGGGTCGCGCGATGCAGTTGGGCGACGCCATTAAAATCATGAACGACAGGCTGAAACCGCAGGtt < 1:3057344/69‑1 (MQ=255)
tGCGGGTCGCGCGATGCAGTTGGGCGACGCCATTTAAATCATGAACGACAGGCTGAAACCGCAGGTTa < 1:3389814/68‑1 (MQ=255)
gCGGGTCGCGCGATGCAGTTGGGCGACGCCATTAAAATCATGAACGACAGGCTGAAACCGCAGGTTaa < 1:2923304/68‑1 (MQ=255)
ggTCGCGCGATGCAGTTGGGCGACGCCATTAAAATCATGAACGACAGGCTGAAACCGCAGGTTAATGtt < 1:102599/69‑1 (MQ=255)
ggTCGCGCGATGCAGTTGGGCGACGCCATTAAAATCATGAACGACAGGCTGAAACCGCAGGTTAATGtt < 1:743031/69‑1 (MQ=255)
ggTCGCGCGATGCAGTTGGGCGACGCCATTAAAATCATGAACGACAGGCTGAAACCGCAGGTTAATGtt < 1:841074/69‑1 (MQ=255)
ggTCGCGCGATGCAGTTGGGCGACGCCATTAAAATCATGAACGACAGGCTGAAACCGCAGGTTAATGtt < 1:2035188/69‑1 (MQ=255)
gATGCAGTTGGGCGACGCCATTTAAATCATGAACGACAGGCTGAAACCGCAGGTTAATGTTGACAGCtt < 1:2841369/69‑1 (MQ=255)
gggCGACGCCATTAAAATCATGAACGACAGGCTGAAACCGCAGGTTAATGTTGACAGCTTCAGCCTCg > 1:420076/1‑68 (MQ=255)
aCGCCATTTAAATCATGAACGACAGGCTGAAACCGCAGGTTAATGTTGACAGCTTCAGCCTCGAACAgg < 1:2357176/69‑1 (MQ=255)
aCGCCATTTAAATCATGAACGACAGGCTGAAACCGCAGGTTAATGTTGACAGCTTCAGCCTCGAACAgg < 1:1352230/69‑1 (MQ=255)
aCGCCATTTAAATCATGAACGACAGGCTGAAACCGCAGGTTAATGTTGACAGCTTCAGCCTCGAACAgg < 1:562477/69‑1 (MQ=255)
aCGCCATTTAAATCATGAACGACAGGCTGAAACCGCAGGTTAATGTTGACAGCTTCAGCCTCGAACAgg < 1:416670/69‑1 (MQ=255)
gCCATTAAAATCATGAACGACAGGCTGAAACCGCAGGTTAATGTTGACAGCTTCAGCCTCGAACAGGCa < 1:2009769/69‑1 (MQ=255)
ccATTAAAATCATCAACGACAGGCTGAAACCGCAGGTTAATGtt < 1:924584/44‑1 (MQ=255)
ttAAAATCATGAACGACAGGCTGAAACCGCAGGTTAATGTTGACAGCTTCAGCCTCGAACAGGCAGTCt < 1:180977/69‑1 (MQ=255)
tAAAATCATGAACGACAGGCTGAAACCGCAGGTTAATGTTGACAGCTTCAGCCTCGAACAGGCAGTCt > 1:2176727/1‑68 (MQ=255)
tAAAATCATGAACGACAGGCTGAAACCGCAGGTTAATGTTGACAGCTTCAGCCTCGAACAGGCAGTCt > 1:2025100/1‑68 (MQ=255)
tAAAATCATGAACGACAGGCTGAAACCGCAGGTTAATGTTGACAGCTTCAGCCTCGAACAGGCAGTCt < 1:2239837/68‑1 (MQ=255)
aaaaTCATGAACGACAGGCTGAAACCGCAGGTTAATGtt < 1:3409868/39‑1 (MQ=255)
aaaaTCATGAACGACAGGCTGAAACCGCAGGTTAATGtt > 1:3177668/1‑39 (MQ=255)
aaaaTCATGAACGACAGGCTGAAACCGCAGGTTAATGtt > 1:2977230/1‑39 (MQ=255)
aaaaTCATGAACGACAGGCTGAAACCGCAGGTTAATGtt < 1:2120996/39‑1 (MQ=255)
aaaaTCATGAACGACAGGCTGAAACCGCAGGTTAATGTTGACAGCTTCAGCCTCGAACAGGCAGTCTaa > 1:1813695/1‑69 (MQ=255)
|
CACTATGCCTGCTGGCACAACCCTGCGTTGTTATTGCGGGTCGCGCGATGCAGTTGGGCGACGCCATTAAAATCATGAACGACAGGCTGAAACCGCAGGTTAATGTTGACAGCTTCAGCCTCGAACAGGCAGTCTAA > W3110S.gb/1006780‑1006916
|
| 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
