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 |
2,117,769 |
C→T |
38.2% |
K218K (AAG→AAA) |
yraL ← |
predicted methyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,117,769 | 0 | C | T | 38.2%
| 32.6
/ 36.3
| 60 | K218K (AAG→AAA) | yraL | predicted methyltransferase |
| Reads supporting (aligned to +/- strand): ref base C (5/32); new base T (7/16); total (12/48) |
| Fisher's exact test for biased strand distribution p-value = 1.83e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.88e-01 |
TGTGCTTTATGACCTTCGACAATCAGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTACCCACGCCAGCAGCTCGCCAACGGGCGCGCCGTGAATGGTTTCCCAGGTTTTGGTCAG > minE/2117710‑2117831
|
tgtgCTTTATGACCTTCGACAATCAGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTAcc < 1:2842798/66‑1 (MQ=255)
tgtgCTTTATGACCTTCGACAATCAGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTAcc < 1:702984/66‑1 (MQ=255)
gtgCTTTATGACCTTCGACAATCAGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTACCCAc < 1:2959514/68‑1 (MQ=255)
tgCTTTATGACCTTCGACAATCAGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTAcc < 1:554223/64‑1 (MQ=255)
cTTTATGACCTTCGACAATCAGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTACCCACGc < 1:2532129/67‑1 (MQ=255)
cTTTATGACCTTCGACAATCAGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTACCCACGc < 1:95854/67‑1 (MQ=255)
gACCTTCGACAATCAGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTACCCACGCCagcagc < 1:375520/68‑1 (MQ=255)
gACCTTCGACAATCAGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTACCCACGCCagcagc < 1:2419477/68‑1 (MQ=255)
gACCTTCGACAATCAGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTACCCACGCCagcagc < 1:2138174/68‑1 (MQ=255)
gACCTTCGACAATCAGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTACCCACGCCagcagc < 1:2137635/68‑1 (MQ=255)
gACCTTCGACAATCAGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTACCCACGCCagcagc < 1:2124668/68‑1 (MQ=255)
gACCTTCGACAATCAGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTACCCACGCCagcagc < 1:3184271/68‑1 (MQ=255)
gACCTTCGACAATCAGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTACCCACGCCagcagc < 1:3203401/68‑1 (MQ=255)
gACCTTCGACAATCAGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTACCCACGCCagcagc < 1:3265722/68‑1 (MQ=255)
gACCTTCGACAATCAGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTACCCACGCCagcagc < 1:45833/68‑1 (MQ=255)
aCCTTCGACAATCAGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTACCCACGCCAGCAGCTc > 1:1896421/1‑69 (MQ=255)
ttCGACAATCAGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCTTTTACCCACGCCAGCAGCTCGcc > 1:1650597/1‑69 (MQ=255)
ttCGACAATCAGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCTTTTACCCACGCCAGCAGCTCGcc > 1:1538776/1‑69 (MQ=255)
ttCGACAATCAGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCTTTTACCCACGCCAGCAGCTCGcc > 1:1440300/1‑69 (MQ=255)
ttCGACAATCAGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCTTTTACCCACGCCAGCAGCTCGcc > 1:1410010/1‑69 (MQ=255)
ttCGACAATCAGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCTTTTACCCACGCCAGCAGCTCGcc > 1:2677673/1‑69 (MQ=255)
ttCGACAATCAGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCTTTTACCCACGCCAGCAGCTCGcc > 1:2614995/1‑69 (MQ=255)
ttCGACAATCAGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCTTTTACCCACGCCAGCAGCTCGc > 1:1616722/1‑68 (MQ=255)
aTCAGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTACCCACGCCAGCAGCTCGCCAACggg > 1:3063467/1‑68 (MQ=255)
cAGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTACCCACGCCAGCAGCTCGCCAACGGgcgc > 1:535230/1‑69 (MQ=255)
cAGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTACCCACGCCAGCAGCTCGCCAACGGgcgc > 1:1024286/1‑69 (MQ=255)
cAGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTACCCACGCCAGCAGCTCGCCAACGGgcg > 1:950510/1‑68 (MQ=255)
aGCACCATTTCGCCTTTGCGACTGTTTTCATCTTCCTTTACCCACGCCAGCAGCTCGcc < 1:123374/59‑1 (MQ=255)
aGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTACCCACGCCAGCATCTCGcc < 1:988964/59‑1 (MQ=255)
aGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTACCCACGCCAGCAGCTCGcc < 1:2322525/59‑1 (MQ=255)
aGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTACCCACGCCAGCAGCTCGcc < 1:922399/59‑1 (MQ=255)
aGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTACCCACGCCAGCAGCTCGcc < 1:2244720/59‑1 (MQ=255)
aGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTACCCACGCCAGCAGCTCGcc < 1:2012483/59‑1 (MQ=255)
aGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTACCCACGCCAGCAGCTCGcc < 1:905560/59‑1 (MQ=255)
aGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTACCCACGCCAGCAGCTCGcc < 1:3046149/59‑1 (MQ=255)
aGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTACCCACGCCAGCAGCTCGcc < 1:724284/59‑1 (MQ=255)
aGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTACCCACGCCAGCAGCTCGcc < 1:1639481/59‑1 (MQ=255)
aGCACCATTTCGCCTTAGCGACGGTTTTCATCTTCCTTTACCCACGCCAGCAGCTCGcc < 1:1729891/59‑1 (MQ=255)
gCACCATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTACCCACGCCAGCAGCTCGcc < 1:1764554/58‑1 (MQ=255)
aCCATCTCGCCTTTGCTAGGGTTTTCATCTTCTTTGATCCACGCCAGCAGTTCGCCGACCGACGTGCCg < 1:826162/69‑1 (MQ=255)
aCCATCTCGCCTTTGCTAGGGTTTTCATCTTCTTTGATCCACGCCAGCAGTTCGCCGACCGACGTGCCg < 1:343799/69‑1 (MQ=255)
aCCATCTCGCCTTTGCTAGGGTTTTCATCTTCTTTGATCCACGCCAGCAGTTCGCCGACCGACGTGCCg < 1:1677852/69‑1 (MQ=255)
aCCATCTCGCCTTTGCTAGGGTTTTCATCTTCTTTGATCCACGCCAGCAGTTCGCCGACCGACGTGCCg < 1:1621926/69‑1 (MQ=255)
aCCATCTCGCCTTTGCTAGGGTTTTCATCTTCTTTGATCCACGCCAGCAGTTCGCCGACCGACGTGCCg < 1:1488913/69‑1 (MQ=255)
aCCATCTCGCCTTTGCTAGGGTTTTCATCTTCTTTGATCCACGCCAGCAGTTCGCCGACCGACGTGCCg < 1:1021509/69‑1 (MQ=255)
aCCATCTCGCCTTTGCTAGGGTTTTCATCTTCTTTGATCCACGCCAGCAGTTCGCCGACCGACGTGCCg < 1:1298352/69‑1 (MQ=255)
aCCATCTCGCCTTTGCTAGGGTTTTCATCTTCTTTGATCCACGCCAGCAGTTCGCCGACCGACGTGCCg < 1:2516590/69‑1 (MQ=255)
aCCATCTCGCCTTTGCTAGGGTTTTCATCTTCTTTGATCCACGCCAGCAGTTCGCCGACCGACGTGCCg < 1:3331439/69‑1 (MQ=255)
aCCATCTCGCCTTTGCTAGGGTTTTCATCTTCTTTGATCCACGCCAGCAGTTCGCCGACCGACGTGCCg < 1:3185971/69‑1 (MQ=255)
aCCATCTCGCCTTTGCTAGGGTTTTCATCTTCTTTGATCCACGCCAGCAGTTCGCCGACCGACGTGCCg < 1:2821540/69‑1 (MQ=255)
aCCATCTCGCCTTTGCTAGGGTTTTCATCTTCTTTGATCCACGCCAGCAGTTCGCCGACCGACGTGCCg < 1:2003196/69‑1 (MQ=255)
aCCATCTCGCCTTTGCTAGGGTTTTCATCTTATTTGATCCACGCCAGCAGTTCGCCGACCGACGTGCCg < 1:397237/69‑1 (MQ=255)
ccATCTCGCCTTTGCTAGGGTTTTCATCTTCTTTGATCCACGCCAGCAGTTCGCCGACCGACGTGCCg < 1:455454/68‑1 (MQ=255)
ccATCTCGCCTTTGCTAGGGTTTTCATCTTCTTTGATCCACGCCAGCAGTTCGCCGACCGACGTGCCg < 1:3096337/68‑1 (MQ=255)
cATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTACCCACGCCAGCAGCTCGCCAACGGGCGCGCCGTg < 1:343785/69‑1 (MQ=255)
cATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTACCCACGCCAGCAGCTCGCCAACGGGCGCGCCGTg < 1:2444317/69‑1 (MQ=255)
cATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTACCCACGCCAGCAGCTCGCCAACGGGCGCGCCGTg < 1:137833/69‑1 (MQ=255)
cATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTACCCACGCCAGCAGCTCGCCAACGGGCGCGCCGTg < 1:2977454/69‑1 (MQ=255)
tCGCCTTTGCTAGGGTTTTCATCTTCTTTGATCCACGCCAGCAGTTCGCCGACCGACGTGCCg < 1:60605/63‑1 (MQ=255)
cTTTGCGACGGTTTTCATCTTCCTTTACCCACGCCAGCAGCTCGCCAACGGGCGCGCCGTGAATGGtt < 1:1969299/68‑1 (MQ=255)
tcttctTTTACCCACGCCAGCAGCTCGCCAACGGGCGCGCCGTGAATGGTTTCCCAGGTTTTGGTTAg < 1:2473716/68‑1 (MQ=255)
tcttctTTTACCCACGCCAGCAGCTCGCCAACGGGCGCGCCGTGAATGGTTTCCCAGGTTTTGGTTAg < 1:852710/68‑1 (MQ=255)
tcttctTTTACCCACGCCAGCAGCTCGCCAACGGGCGCGCCGTGAATGGTTTCCCAGGTTTTGGTTAg < 1:767572/68‑1 (MQ=255)
tcttctTTTACCCACGCCAGCAGCTCGCCAACGGGCGCGCCGTGAATGGTTTCCCAGGTTTTGGTTAg < 1:677633/68‑1 (MQ=255)
tcttctTTTACCCACGCCAGCAGCTCGCCAACGGGCGCGCCGTGAATGGTTTCCCAGGTTTTGGTTAg < 1:1969373/68‑1 (MQ=255)
tcttctTTTACCCACGCCAGCAGCTCGCCAACGGGCGCGCAGTGAATGGTTTCCCAGGTTTTGGTTAg < 1:3173322/68‑1 (MQ=255)
tcttctTTTACCCACGCCAGCAGCTCGCCAACGGGCGCGCAGTGAATGGTTTCCCAGGTTTTGGTTAg < 1:650221/68‑1 (MQ=255)
|
TGTGCTTTATGACCTTCGACAATCAGCACCATTTCGCCTTTGCGACGGTTTTCATCTTCCTTTACCCACGCCAGCAGCTCGCCAACGGGCGCGCCGTGAATGGTTTCCCAGGTTTTGGTCAG > minE/2117710‑2117831
|
| 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
