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 |
1,625,686 |
G→A |
48.9% |
L251L (CTG→CTA) |
talA → |
transaldolase A |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,625,686 | 0 | G | A | 48.9%
| ‑2.2
/ 37.6
| 45 | L251L (CTG→CTA) | talA | transaldolase A |
| Reads supporting (aligned to +/- strand): ref base G (7/16); new base A (13/9); total (20/25) |
| Fisher's exact test for biased strand distribution p-value = 7.46e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CAAATCCTCGCCTTAACCGGCTGCGATCGACTGACTATCGCACCGAATTTACTGAAGGAGCTGCAGGAAAAAGTTTCGCCAGTGGTACGTAAATTAATCCCACCTTCT > minE/1625624‑1625731
|
cAAATCCTCGCCTTAACCGGCTGCGATCGACTGACTATCGCACCGAATTTACTGAAGGAGCTGCAGGa > 1:893354/1‑68 (MQ=255)
cTCGCCTTAACCGGCTGCGATCGACTGACTATCGCACCGAATTTACTGAAGGAGCTGCAGGAAAAAGt < 1:2171118/68‑1 (MQ=255)
cTTAACCGGCTGCGACCGACTGACTATCGCACCGAATTTGCTGAAGGAGCTACAGGAAAAAGTTTCGcc < 1:1084521/69‑1 (MQ=38)
cTTAACCGGCTGCGACCGACTGACTATCGCACCGAATTTGCTGAAGGAGCTACAGGAAAAAGTTTCGcc < 1:80998/69‑1 (MQ=38)
cTTAACCGGCTGCGACCGACTGACTATCGCACCGAATTTGCTGAAGGAGCTACAGGAAAAAGTTTCGcc < 1:696296/69‑1 (MQ=38)
cTTAACCGGCTGCGACCGACTGACTATCGCACCGAATTTGCTGAAGGAGCTACAGGAAAAAGTTTCGcc < 1:3311216/69‑1 (MQ=38)
cTTAACCGGCTGCGACCGACTGACTATCGCACCGAATTTGCTGAAGGAGCTACAGGAAAAAGTTTCGcc < 1:3252421/69‑1 (MQ=38)
cTTAACCGGCTGCGACCGACTGACTATCGCACCGAATTTGCTGAAGGAGCTACAGGAAAAAGTTTCGcc < 1:2298231/69‑1 (MQ=38)
cTTAACCGGCTGCGACCGACTGACTATCGCACCGAATTTGCTGAAGGAGCTACAGGAAAAAGTTTCGcc < 1:1452148/69‑1 (MQ=38)
cTTAACCGGCTGCGACCGACTGACTATCGCACCGAATTTGCTGAAGGAGCTACAGGAAAAAGTTTCGcc < 1:1165466/69‑1 (MQ=38)
cTTAACCGGCTGCGACCGACTGACTATCGCACCGAATTTGCTGAAGGAGCTACAGGAAAAAGTTTCGcc < 1:1267816/69‑1 (MQ=38)
cTGCGATCGACTGACTATCGCACCGAATTTACTGAAGGAGCTGCAGGAAAAAGTTTCGCCAGTGGTACg < 1:1257599/69‑1 (MQ=255)
cTGCGATCGACTGACTATCGCACCGAATTTACTGAAGGAGCTGCAGGAAAAAGTTTCGCCAGTGGTACg < 1:2200530/69‑1 (MQ=255)
tGCGATCGACTGACTATCGCACCGAATTTACTGAAGGAGCTGCAGGAAAAAGTTTCGCCAGTGGTACg < 1:3101339/68‑1 (MQ=255)
tCGACTGACTATCGCACCGAATTTACTGAAGGAGCTGCAGGAAAAAGTTTCGCCAGTGGTACGTAAAtt < 1:1068485/69‑1 (MQ=255)
tCGACTGACTATCGCACCGAATTTACTGAAGGAGCTGCAGGAAAAAGTTTCGCCAGTGGTACGTAAAtt < 1:3356215/69‑1 (MQ=255)
cGACTTACTATCGCACCGAATTTACTGAAGGAGCTGCAGGAAAAAGTTTCGCCAGTGGTACGTAAATTa < 1:127947/69‑1 (MQ=255)
cGACTGACTATCGCACCGAATTTACTGAAGGAGCTGCAGGAAAAAGTTTCGCCAGTGGTACGTAAATTa > 1:1114997/1‑69 (MQ=255)
cGACTGACTATCGCACCGAATTTACTGAAGGAGCTGCAGGAAAAAGTTTCGCCAGTGGTACGTAAATTa < 1:3301760/69‑1 (MQ=255)
cGACTGACTATCGCACCGAATTTACTGAAGGAGCTGCAGGAAAAAGTTTCGCCAGTGGTACGTAAATTa < 1:1208348/69‑1 (MQ=255)
cGACTGACTATCGCACCGAATTTACTGAAGGAGCTGCAGGAAAAAGTTTCGCCAGTGGTACGTAAATTa < 1:369828/69‑1 (MQ=255)
cGACTGACTATCGCACCGAATTTACTGAAGGAGCTGCAGGAAAAAGTTTCGCCAGTGGTACGTAAATTa < 1:557080/69‑1 (MQ=255)
gactgactATCGCACCGAATTTACTGAAGGAGCTGCAGGAAAAAGTTTCGCCAGTGGTACGTAAATTa < 1:2740843/68‑1 (MQ=255)
gactgactATCGCACCGAATTTACTGAAGGAGCTGCAGGAAAAAGTTTCGCCAGTGGTACGTAAATTa < 1:2864003/68‑1 (MQ=255)
gactATCGCACCGAATTTACTGAAGGAGCTGCAGGAAAAAGTTTCGCCAGTGGTACGTAAATTAATccc < 1:2321562/69‑1 (MQ=255)
gactATCGCACCGAATTTACTGAAGGAGCTGCAGGAAAAAGTTTCGCCAGTGGTACGTAAATTAATccc < 1:3236972/69‑1 (MQ=255)
gactATCGCACCGAATTTACTGAAGGAGCTGCAGGAAAAAGTTTCGCCAGTGGTACGTAAATTAATccc < 1:3240913/69‑1 (MQ=255)
ctATCGCACCGAATTTGCTGAAGGAGCTACAGGAAAAAGTTTCGCCAGTGGTACGTAAATTAATCCCAc > 1:47712/1‑69 (MQ=255)
ctATCGCACCGAATTTGCTGAAGGAGCTACAGGAAAAAGTTTCGCCAGTGGTACGTAAATTAATCCCAc > 1:643989/1‑69 (MQ=255)
ctATCGCACCGAATTTGCTGAAGGAGCTACAGGAAAAAGTTTCGCCAGTGGTACGTAAATTAATCCCAc > 1:1929701/1‑69 (MQ=255)
ctATCGCACCGAATTTGCTGAAGGAGCTACAGGAAAAAGTTTCGCCAGTGGTACGTAAATTAATCCCAc > 1:3311762/1‑69 (MQ=255)
ctATCGCACCGAATTTGCTGAAGGAGCTACAGGAAAAAGTTTCGCCAGTGGTACGTAAATTAATCCCAc > 1:167965/1‑69 (MQ=255)
ctATCGCACCGAATTTGCTGAAGGAGCTACAGGAAAAAGTTTCGCCAGTGGTACGTAAATTAATCCCAc > 1:3307421/1‑69 (MQ=255)
ctATCGCACCGAATTTGCTGAAGGAGCTACAGGAAAAAGTTTCGCCAGTGGTACGTAAATTAATCCCAc > 1:2222553/1‑69 (MQ=255)
ctATCGCACCGAATTTGCTGAAGGAGCTACAGGAAAAAGTTTCGCCAGTGGTACGTAAATTAATCCCAc > 1:3129412/1‑69 (MQ=255)
ctATCGCACCGAATTTGCTGAAGGAGCTACAGGAAAAAGTTTCGCCAGTGGTACGTAAATTAATCCCAc > 1:2121087/1‑69 (MQ=255)
ctATCGCACCGAATTTGCTGAAGGAGCTACAGGAAAAAGTTTCGCCAGTGGTACGTAAATTAATCCCAc > 1:2670825/1‑69 (MQ=255)
ctATCGCACCGAATTTGCTGAAGGAGCTACAGGAAAAAGTTTCGCCAGTGGTACGTAAATTAATCCCAc > 1:25490/1‑69 (MQ=255)
ctATCGCACCGAATTTGCTGAAGGAGCTACAGGAAAAAGTTTCGCCAGTGGTACGTAAATTAATCCCAc > 1:225377/1‑69 (MQ=255)
ctATCGCACCGAATTTGCTGAAGGAGCTACAGGAAAAAGTTTCGCCAGTGGTACGTAAATTAATCCCAc > 1:2194285/1‑69 (MQ=255)
gCACCGAATTTACTGAAGGAGCTGCAGGAAAAAGTTTCGCCAGTGGTACGTAAATTAATCCCACCtt > 1:2022624/1‑67 (MQ=255)
gCACCGAATTTACTGAAGGAGCTGCAGGAAAAAGTTTCGCCAGTGGTACGTAAATTAATCCCACCtt > 1:2439038/1‑67 (MQ=255)
gCACCGAATTTACTGAAGGAGCTGCAGGAAAAAGTTTCGCCAGTGGTACGTAAATTAATCCCACCtt > 1:2415937/1‑67 (MQ=255)
gCACCGAATTTACTGAAGGAGCTGCAGGAAAAAGTTTCGCCAGTGGTACGTAAATTAATCCCACCtt > 1:1428539/1‑67 (MQ=255)
aCCGAATTTACTGAAGGAGCTGCAGGAAAAAGTTTCGCCAGTGGTACGTAAATTAATCCCACCTtct > 1:1271889/1‑67 (MQ=255)
|
CAAATCCTCGCCTTAACCGGCTGCGATCGACTGACTATCGCACCGAATTTACTGAAGGAGCTGCAGGAAAAAGTTTCGCCAGTGGTACGTAAATTAATCCCACCTTCT > minE/1625624‑1625731
|
| 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
