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 |
2,044,290 |
G→A |
42.0% |
A238A (GCG→GCA) |
yqiK → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,044,290 | 0 | G | A | 42.0%
| 19.0
/ 39.3
| 57 | A238A (GCG→GCA) | yqiK | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (10/23); new base A (13/11); total (23/34) |
| Fisher's exact test for biased strand distribution p-value = 1.02e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.28e-01 |
GCGAACGTAACGAAGTTGAACAGGATGTAGAAGTTGCGGTGCGTGAAAAAAATCGCGATGCGCTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCGTTTATGACGCTTGAGCAGGAGCAGCAGGTT > minE/2044229‑2044356
|
gcgAACGTAACGAAGTTGAACAGGATGTGGAAGTCGCAGTGCGTGAGAAAAACCGTGATGCACTTTcgc < 1:1022997/69‑1 (MQ=255)
gcgAACGTAACGAAGTTGAACAGGATGTGGAAGTCGCAGTGCGTGAGAAAAACCGTGATGCACTTTcgc < 1:225590/69‑1 (MQ=255)
gcgAACGTAACGAAGTTGAACAGGATGTGGAAGTCGCAGTGCGTGAGAAAAACCGTGATGCACTTTcgc < 1:2374282/69‑1 (MQ=255)
gcgAACGTAACGAAGTTGAACAGGATGTGGAAGTCGCAGTGCGTGAGAAAAACCGTGATGCACTTTcgc < 1:2469348/69‑1 (MQ=255)
gcgAACGTAACGAAGTTGAACAGGATGTGGAAGTCGCAGTGCGTGAGAAAAACCGTGATGCACTTTcgc < 1:1755652/69‑1 (MQ=255)
gcgAACGTAACGAAGTTGAACAGGATGTGGAAGTCGCAGTGCGTGAGAAAAACCGTGATGCACTTTcgc < 1:3002907/69‑1 (MQ=255)
gcgAACGTAACGAAGTTGAACAGGATGTGGAAGTCGCAGTGCGTGAGAAAAACCGTGATGCACTTTcgc < 1:3023459/69‑1 (MQ=255)
gcgAACGTAACGAAGTTGAACAGGATGTGGAAGTCGCAGTGCGTGAGAAAAACCGTGATGCACTTTcgc < 1:1478995/69‑1 (MQ=255)
gcgAACGTAACGAAGTTGAACAGGATGTGGAAGTCGCAGTGCGTGAGAAAAACCGTGATGCACTTTcgc < 1:3221523/69‑1 (MQ=255)
gcgAACGTAACGAAGTTGAACAGGATGTGGAAGTCGCAGTGCGTGAGAAAAACCGTGATGCACTTTcgc < 1:873387/69‑1 (MQ=255)
gcgAACGTAACGAAGTTGAACAGGATGTGGAAGCCGCAGTGCGTGAGAAAAACCGTGATGCACTTTcgc < 1:186851/69‑1 (MQ=255)
ttGAACAGGATGTGGAAGTCGCAGTGCGTGAGAAAAACCGTGATGCACTTTCGCTCAAGTTGGAGATTg > 1:235295/1‑69 (MQ=255)
ttGAACAGGATGTGGAAGTCGCAGTGCGTGAGAAAAACCGTGATGCACTTTCGCGCAAGTTGGAGATTg > 1:303857/1‑69 (MQ=255)
ttGAACAGGATGTGGAAGTCGCAGTGCGTGAGAAAAACCGTGATGCACTTTCGCGCAAGTTGGAGATTg > 1:345994/1‑69 (MQ=255)
ttGAACAGGATGTGGAAGTCGCAGTGCGTGAGAAAAACCGTGATGCACTTTCGCGCAAGTTGGAGATTg > 1:2956381/1‑69 (MQ=255)
ttGAACAGGATGTGGAAGTCGCAGTGCGTGAGAAAAACCGTGATGCACTTTCGCGCAAGTTGGAGATTg > 1:2872005/1‑69 (MQ=255)
ttGAACAGGATGTGGAAGTCGCAGTGCGTGAGAAAAACCGTGATGCACTTTCGCGCAAGTTGGAGATTg > 1:2753194/1‑69 (MQ=255)
ttGAACAGGATGTGGAAGTCGCAGTGCGTGAGAAAAACCGTGATGCACTTTCGCGCAAGTTGGAGATTg > 1:2676581/1‑69 (MQ=255)
ttGAACAGGATGTGGAAGTCGCAGTGCGTGAGAAAAACCGTGATGCACTTTCGCGCAAGTTGGAGATTg > 1:2656473/1‑69 (MQ=255)
ttGAACAGGATGTGGAAGTCGCAGTGCGTGAGAAAAACCGTGATGCACTTTCGCGCAAGTTGGAGATTg > 1:2654327/1‑69 (MQ=255)
ttGAACAGGATGTGGAAGTCGCAGTGCGTGAGAAAAACCGTGATGCACTTTCGCGCAAGTTGGAGATTg > 1:959056/1‑69 (MQ=255)
ttGAACAGGATGTGGAAGTCGCAGTGCGTGAGAAAAACCGTGATGCACTTTCGCGCAAGTTGGAGATTg > 1:961334/1‑69 (MQ=255)
ttGAACAGGATGTGGAAGTCGCAGTGCGTGAGAAAAACCGTGATGCACTTTCGCGCAAGTTGGAGATTg > 1:2635116/1‑69 (MQ=255)
ttGAACAGGATGTGGAAGTCGCAGTGCGTGAGAAAAACCGTGATGCACTTTCGCGCAAGTTGGAGATTg > 1:103551/1‑69 (MQ=255)
gAACAGGATGTAGAAGTTGCGGTGCGTGAAAAAAATCGCGATGCGCTATCGCGCAAGCTGGAGATTg > 1:533079/1‑67 (MQ=255)
gAACAGGATGTAGAAGTTGCGGTGCGTGAAAAAAATCGCGATGCGCTATCGCGCAAGCTGGAGATTg > 1:2105802/1‑67 (MQ=255)
gAACAGGATGTAGAAGTTGCGGTGCGTGAAAAAAATCGCGATGCGCTATCGCGCAAGCTGGAGATTg > 1:2585797/1‑67 (MQ=255)
gAACAGGATGTAGAAGTTGCGGTGCGTGAAAAAAATCGCGATGCGCTATCGCGCAAGCTGGAGATTg > 1:1247106/1‑67 (MQ=255)
gAACAGGATGTAGAAGTTGCGGTGCGTGAAAAAAATCGCGATGCGCTATCGCGCAAGCTGGAGATTg > 1:928756/1‑67 (MQ=255)
gAACAGGATGTAGAAGTTGCGGTGCGTGAAAAAAATCGCGATGCGCTATCGCGCAAGCTGGAGATTg > 1:1939834/1‑67 (MQ=255)
gAAGTTGCGGTGCGTGAAAAAAATCGCGATGCGCTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCg > 1:1656290/1‑69 (MQ=255)
gAAGTTGCGGTGCGTGAAAAAAATCGCGATGCGCTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCg < 1:1296782/69‑1 (MQ=255)
gAAGTTGCGGTGCGTGAAAAAAATCGCGATGCGCTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCg < 1:3328560/69‑1 (MQ=255)
gAAGTTGCGGTGCGTGAAAAAAATCGCGATGCGCTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCg < 1:3283288/69‑1 (MQ=255)
gAAGTTGCGGTGCGTGAAAAAAATCGCGATGCGCTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCg > 1:132695/1‑69 (MQ=255)
gAAGTTGCGGTGCGTGAAAAAAATCGCGATGCGCTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCg > 1:3049367/1‑69 (MQ=255)
gAAGTTGCGGTGCGTGAAAAAAATCGCGATGCGCTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCg < 1:140464/69‑1 (MQ=255)
gAAGTTGCGGTGCGTGAAAAAAATCGCGATGCGCTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCg < 1:1844711/69‑1 (MQ=255)
gAAGTTGCGGTGCGTGAAAAAAATCGCGATGCGCTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCg > 1:1807895/1‑69 (MQ=255)
gAAGTTGCGGTGCGTGAAAAAAATCGCGATGCGCTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCg < 1:1033423/69‑1 (MQ=255)
aaGTTGCGGTGCGTGAAAAAAATCGCGATGCGCTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCg < 1:3392373/68‑1 (MQ=255)
aGTTGCGGTGCGTGAAAAAAATCGCGATGCGCTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCGtt < 1:2242178/69‑1 (MQ=255)
aGTTGCGGTGCGTGAAAAAAATCGCGATGCGCTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCGtt < 1:417904/69‑1 (MQ=255)
aGTTGCGGTGCGTGAAAAAAATCGCGATGCGCTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCGtt < 1:988800/69‑1 (MQ=255)
aGTTGCGGTGCGTGAAAAAAATCGCGATGCGCTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCGtt < 1:2159315/69‑1 (MQ=255)
aGTTGCGGTGCGTGAAAAAAATCGCGATGCGCTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCGtt < 1:2413794/69‑1 (MQ=255)
aGTTGCGGTGCGTGAAAAAAATCGCGATGCGCTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCGtt < 1:246174/69‑1 (MQ=255)
aGTTGCGGTGCGTGAAAAAAATCGCGATGCGCTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCGtt < 1:590272/69‑1 (MQ=255)
aGTTGCGGTGCGTGAAAAAAATCGCGATGCGCTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCGtt < 1:601409/69‑1 (MQ=255)
aGTTGCGGTGCGTGAAAAAAATCGCGATGCGCTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCGtt < 1:983665/69‑1 (MQ=255)
aGTTGCGGTGCGTGAAAAAAATCGCGATGCGCTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCGtt < 1:2479879/69‑1 (MQ=255)
aGTTGCGGTGCGTGAAAAAAATCGCGATGCGCTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCGtt < 1:611847/69‑1 (MQ=255)
aGTTGCGGTGCGTGAAAAAAATCGCGATGCGCTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCGtt < 1:1005451/69‑1 (MQ=255)
aGTTGCGGTGCGTGAAAAAAATCGCGATGCGCTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCGtt < 1:160048/69‑1 (MQ=255)
aGTTGCGGTGCGTGAAAAAAATCGCGATGCGCTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCGtt < 1:1773124/69‑1 (MQ=255)
gTTGCGGTGCGTGAAAAAAATCGCGATGCGCTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCGtt < 1:1505975/68‑1 (MQ=255)
gCGGTGCGTGAAAAAAATCGCGATGCGCTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCGTTTAt < 1:2230436/68‑1 (MQ=255)
gcgcTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCGtt < 1:2692494/41‑1 (MQ=255)
cgcTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCGTTTATGACGCTTGAGCAGGAGCAGCAGGtt > 1:3093610/1‑68 (MQ=255)
cgcTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCGTTTATGACGCTTGAGCAGGAGCAGCAGGtt > 1:1517398/1‑68 (MQ=255)
cgcTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCGTTTATGACGCTTGAGCAGGAGCAGCAGGtt > 1:2995482/1‑68 (MQ=255)
cgcTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCGTTTATGACGCTTGAGCAGGAGCAGCAGGtt > 1:2978116/1‑68 (MQ=255)
cgcTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCGTTTATGACGCTTGAGCAGGAGCAGCAGGtt > 1:2642862/1‑68 (MQ=255)
cgcTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCGTTTATGACGCTTGAGCAGGAGCAGCAGGtt > 1:2049186/1‑68 (MQ=255)
cgcTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCGTTTATGACGCTTGAGCAGGAGCAGCAGGtt > 1:2325215/1‑68 (MQ=255)
cgcTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCGTTTATGACGCTTGAGCAGGAGCAGCAGGt > 1:3091072/1‑67 (MQ=255)
|
GCGAACGTAACGAAGTTGAACAGGATGTAGAAGTTGCGGTGCGTGAAAAAAATCGCGATGCGCTATCGCGCAAGCTGGAGATTGAACAGCAAGAAGCGTTTATGACGCTTGAGCAGGAGCAGCAGGTT > minE/2044229‑2044356
|
| 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
