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 |
1,576,150 |
G→A |
34.7% |
F298F (TTC→TTT) |
xapB ← |
xanthosine transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,576,150 | 0 | G | A | 34.7%
| 50.2
/ 37.4
| 69 | F298F (TTC→TTT) | xapB | xanthosine transporter |
| Reads supporting (aligned to +/- strand): ref base G (27/18); new base A (16/8); total (43/26) |
| Fisher's exact test for biased strand distribution p-value = 6.14e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.56e-01 |
AAACAATCATCGACAGCAGCAGCAAAATAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCG > minE/1576092‑1576215
|
aaaCAATCATCGACAGCAGCAGCAAAATAAATCCTGTTGTTGACGGATCGCCATAGGCGAAGAAGCCaa > 1:2017163/1‑69 (MQ=255)
aaaCAATCATCGACAGCAGCAGCAAAATAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCaa > 1:1662496/1‑69 (MQ=255)
aaaCAATCATCGACAGCAG‑AGCAAAATAAATCCGGTTGATGACGGATCGCCATAGGCGAAGAAGCCaaa > 1:1651805/1‑69 (MQ=255)
aaCAATCATCGACAGCAGCAGCAAAATAAATCCGGTTGTTGACGGATCGCCATAGGCgaaga > 1:616987/1‑62 (MQ=255)
aaCAATCATCGACAGCAGCAGCAAAATAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCaaa > 1:3083308/1‑69 (MQ=255)
aaCAATCATCGACAGCAGCAGCAAAATAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCaaa > 1:2509049/1‑69 (MQ=255)
aaCAATCATCGACAGCAGCAGCAAAATAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCaaa > 1:2647190/1‑69 (MQ=255)
aaCAATCATCGACAGCAGCAGCAAAATAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCaaa > 1:2418398/1‑69 (MQ=255)
aaCAATCATCGACAGCAGCAGCAAAATAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCaaa > 1:1497838/1‑69 (MQ=255)
aaCAATCATCGACAGCAGCAGCAAAATAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCaaa > 1:3038282/1‑69 (MQ=255)
aaCAATCATCGACAGCAGCAGCAAAATAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCaaa > 1:708529/1‑69 (MQ=255)
aaCAATCATCGACAGCAGCAGCAAAATAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCaaa > 1:1258970/1‑69 (MQ=255)
aaCAATCATCGACAGCAGCAGCAAAATAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCaaa > 1:2343327/1‑69 (MQ=255)
aaCAATCATCGACAGCAGCAGCAAAATAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCaa > 1:2746233/1‑68 (MQ=255)
aaCAATCATCGACAGCAGCAGCAAAATAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCaa > 1:926801/1‑68 (MQ=255)
cAATCATCGACAGCAGCAGCAAAATAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAg < 1:1789536/68‑1 (MQ=255)
cAATCATCGACAGCAGCAGCAAAATAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAg < 1:1075703/68‑1 (MQ=255)
cAATCATCGACAGCAGCAGCAAAATAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAg < 1:1857692/68‑1 (MQ=255)
cAATCATCGACAGCAGCAGCAAAATAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAg < 1:2315432/68‑1 (MQ=255)
cAATCATCGACAGCAGCAGCAAAATAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAg < 1:1632828/68‑1 (MQ=255)
cAATCATCGACAGCAGCAGCAAAATAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAg < 1:2996501/68‑1 (MQ=255)
cAATCATCGACAGCAGCAGCAAAATAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAg < 1:655019/68‑1 (MQ=255)
cAATCATCGACAGCAGCAGCAAAATAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAg < 1:1242963/68‑1 (MQ=255)
atcatcGACAGCAGCAGCAAAATAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAgcgc < 1:1260915/69‑1 (MQ=255)
atcGACAGCAGCAGCAAAATAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGc > 1:2592499/1‑69 (MQ=255)
gcagcaAAATAAATACGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGcc > 1:936849/1‑68 (MQ=255)
cagcaAAATAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGccac < 1:90322/69‑1 (MQ=255)
cagcaAAATAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGccac < 1:53191/69‑1 (MQ=255)
cagcaAAATAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGccac < 1:2103807/69‑1 (MQ=255)
cagcaAAATAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGccac < 1:1258314/69‑1 (MQ=255)
aaaaTAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGCCACCATa < 1:1398417/69‑1 (MQ=255)
aaaaTAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGCCACCATa < 1:1341646/69‑1 (MQ=255)
aaaaTAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGCCACCATa < 1:362461/69‑1 (MQ=255)
aaaaTAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGCCACCATa < 1:1561827/69‑1 (MQ=255)
aaataaatCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGcc > 1:2193407/1‑62 (MQ=255)
aaataaatCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGcc > 1:1572764/1‑62 (MQ=255)
aaataaatCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGcc > 1:760793/1‑62 (MQ=255)
aaataaatCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGcc > 1:291942/1‑62 (MQ=255)
aaataaatCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGcc > 1:339684/1‑62 (MQ=255)
aaataaatCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGcc > 1:3247490/1‑62 (MQ=255)
aaataaatCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGcc > 1:3182486/1‑62 (MQ=255)
gatggATCGCCATAGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGtt < 1:1596031/66‑1 (MQ=255)
gatggATCGCCATAGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGtt < 1:186537/66‑1 (MQ=255)
gatggATCGCCATAGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGtt < 1:357314/66‑1 (MQ=255)
gatggATCGCCATAGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGtt < 1:3171839/66‑1 (MQ=255)
gatggATCGCCATAGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGtt < 1:1863293/66‑1 (MQ=255)
gatggATCGCCATAGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGtt < 1:1515360/66‑1 (MQ=255)
gatggATCGCCATAGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGtt < 1:2580671/66‑1 (MQ=255)
gatggATCGCCATAGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGtt < 1:1800702/66‑1 (MQ=255)
gACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGccac < 1:2309410/47‑1 (MQ=255)
gCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGc > 1:1276088/1‑68 (MQ=255)
gCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGCTTTTAATGc > 1:3136816/1‑68 (MQ=255)
aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACacatc > 1:996730/1‑44 (MQ=37)
aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga > 1:1123922/1‑64 (MQ=255)
aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga > 1:766413/1‑64 (MQ=255)
aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga > 1:836047/1‑64 (MQ=255)
aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga > 1:901355/1‑64 (MQ=255)
aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga > 1:559691/1‑64 (MQ=255)
aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga > 1:471413/1‑64 (MQ=255)
aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga > 1:460814/1‑64 (MQ=255)
aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga > 1:45313/1‑64 (MQ=255)
aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga > 1:3321130/1‑64 (MQ=255)
aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga > 1:3048902/1‑64 (MQ=255)
aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga > 1:293713/1‑64 (MQ=255)
aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga > 1:2092086/1‑64 (MQ=255)
aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga > 1:1694877/1‑64 (MQ=255)
aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga > 1:1369850/1‑64 (MQ=255)
aGGCAAAGAAGCCAAAGCGCAGCGTCAACGCCACCATACTCATCAGCATGACGGTTTTAATAccga > 1:2616232/1‑64 (MQ=255)
ggCGAAGAAGCCAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCg > 1:447414/1‑69 (MQ=255)
ggCGAAGAAGCCAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCg > 1:971656/1‑69 (MQ=255)
|
AAACAATCATCGACAGCAGCAGCAAAATAAATCCGGTTGTTGACGGATCGCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCG > minE/1576092‑1576215
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
