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 |
1,239,208 |
C→T |
40.6% |
L341L (CTG→CTA) |
zwf ← |
glucose‑6‑phosphate dehydrogenase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,239,208 | 0 | C | T | 40.6%
| 26.1
/ 42.8
| 64 | L341L (CTG→CTA) | zwf | glucose‑6‑phosphate dehydrogenase |
| Reads supporting (aligned to +/- strand): ref base C (4/34); new base T (12/14); total (16/48) |
| Fisher's exact test for biased strand distribution p-value = 2.52e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.94e-01 |
TTCTTTAAACAGATTCAGTTCAGGTGTTTTGAAATAGACCACGACTTCAGAACATTTGGTCGGCAGACGTTTACCAGTACGCAGGTAGAATGGCACACCGGCCCAGCGCCAGTTATCAATGTCG > minE/1239145‑1239268
|
ttCTTTAAACAGATTCAGTTCAGGTGTTTTGAAATAGACCACGACTTCAGAACATTTGGTCGGCAGACg < 1:1725034/69‑1 (MQ=255)
tCTTTAAACAGATTCAGTTCAGGTGTTTTGAAATAGACCACGACTTCAGAACATTTGGTCGGCAGACGt < 1:1168361/69‑1 (MQ=255)
tCTTTAAACAGATTCAGTTCAGGTGTTTTGAAATAGACCACGACTTCAGAACATTTGGTCGGCAGACGt < 1:2788838/69‑1 (MQ=255)
tCTTTAAACAGATTCAGTTCAGGTGTTTTGAAATAGACCACGACTTCAGAACATTTGGTCGGCAGACGt < 1:3407270/69‑1 (MQ=255)
tCTTTAAACAGATTCAGTTCAGGTGTTTTGAAATAGACCACGACTTCAGAACATTTGGTCGGCAGACGt < 1:2096884/69‑1 (MQ=255)
cTTTAAACAGATTCAGTTCAGGTGTTTTGAAATAGACCACGACTTCAGAACATTTGGTCGGCAGACGt < 1:2426714/68‑1 (MQ=255)
cTTTAAACAGATTCAGTTCAGGTGTTTTGAAATAGACCACGACTTCAGAACATTTGGTCGGCAGACGt < 1:201772/68‑1 (MQ=255)
cAGATTCAGTTCAGGTGTTTTGAAATAGACCACGACTTCAGAACATTTGGTCGGCAGACGTTTACCAGt < 1:876510/69‑1 (MQ=255)
cAGATTCAGTTCAGGTGTTTTGAAATAGACCACGACTTCAGAACATTTGGTCGGCAGACGTTTACCAGt < 1:2424741/69‑1 (MQ=255)
cAGATTCAGTTCAGGTGTTTTGAAATAGACCACGACTTCAGAACATTTGGTCGGCAGACGTTTACCAGt < 1:2330842/69‑1 (MQ=255)
cAGATTCAGTTCAGGTGGTTTGAAATAGACCACGACTTCAGAACATTTGGTCGGCAGACGTTTACCAGt < 1:2265074/69‑1 (MQ=255)
tcagGTGTTTTGAAATAGACCACGACTTCAGAACATTTGGTCGGCAGACGTTTACCAGTACGCAGGTAg < 1:1027921/69‑1 (MQ=255)
tcagGTGTTTTGAAATAGACCACGACTTCAGAACATTTGGTCGGCAGACGTTTACCAGTACGCAGGTAg < 1:2663200/69‑1 (MQ=255)
tcagGTGTTTTGAAATAGACCACGACTTCAGAACATTTGGTCGGCAGACGTTTACCAGTACGCAGGTAg < 1:2667282/69‑1 (MQ=255)
tcagGTGTTTTGAAATAGACCACGACTTCAGAACATTTGGTCGGCAGACGTTTACCAGTACGCAGGTAg < 1:2196972/69‑1 (MQ=255)
tcagGTGTTTTGAAATAGACCACGACTTCAGAACATTTGGTCGGCAGACGTTTACCAGTACGCAGGTAg > 1:2196092/1‑69 (MQ=255)
tcagGTGTTTTGAAATAGACCACGACTTCAGAACATTTGGTCGGCAGACGTTTACCAGTACGCAGGTAg < 1:851632/69‑1 (MQ=255)
tcagGTGTTTTGAAATAGACCACGACTTCAGAACATTTGGTCGGCAGACGTTTACCAGTACGCAGGTAg < 1:1324071/69‑1 (MQ=255)
tcagGTGTTTTGAAATAGACCACGACTTCAGAACATTTGGTCGGCAGACGTTTACCAGTACGCAGGTAg < 1:1716368/69‑1 (MQ=255)
tcagGTGTTTTGAAATAGACCACGACTTCAGAACATTTGGTCGGCAGACGTTTACCAGTACGCAGGTAg < 1:1588770/69‑1 (MQ=255)
cagGTGTTTTGAAATATACCACGACTTCAGAACATTTGGTCGGTAGACGTTTACCAg < 1:3213126/57‑1 (MQ=255)
cagGTGTTTTGAAATAGACCACGACTTCAGAACATTTGGTCGGTAGACGTTTACCAg < 1:1923860/57‑1 (MQ=255)
cagGTGTTTTGAAATAGACCACGACTTCAGAACATTTGGTCGGTAGACGTTTACCAg < 1:2501644/57‑1 (MQ=255)
cagGTGTTTTGAAATAGACCACGACTTCAGAACATTTGGTCGGTAGACGTTTACCAg < 1:121240/57‑1 (MQ=255)
cagGTGTTTTGAAATAGACCACGACTTCAGAACATTTGGTCGGTAGACGTTTACCAg < 1:3424868/57‑1 (MQ=255)
cagGTGTTTTGAAATAGACCACGACTTCAGAACATTTGGTCGGTAGACGTTTACCAg < 1:2208782/57‑1 (MQ=255)
cagGTGTTTTGAAATAGACCACGACTTCAGAACATTTGGTCGGTAGACGTTTACCAg < 1:1597026/57‑1 (MQ=255)
cagGTGTTTTGAAATAGACCACGACTTCAGAACATTTGGTCGGTAGACGTTTACCAg < 1:3074962/57‑1 (MQ=255)
cagGTGTTTTGAAATAGACCACGACTTCAGAACATTTGGTCGGTAGACGTTTACCAg < 1:314079/57‑1 (MQ=255)
cagGTGTTTTGAAATAGACCACGACTTCAGAACATTTGGTCGGTAGACGTTTACCAg < 1:2061033/57‑1 (MQ=255)
cagGTGTTTTGAAATAGACCACGACTTCAGAACATTTGGTCGGTAGACGTTTACCAg < 1:3161002/57‑1 (MQ=255)
cagGTGTTTTGAAATAGACCACGACTTCAGAACATTTGGTCGGTAGACGTTTACCAg < 1:2032274/57‑1 (MQ=255)
agGTGTTTTGAAATAGACCACGACTTCAGAACATTTGGTCAGTAGACGTTTACCAg < 1:3271782/56‑1 (MQ=255)
ttGAAATAGACCACGACTTCAGAACATTTGGTCGGCAGACGTTTACCAGTACGCATGTAGAATgg < 1:2364134/65‑1 (MQ=255)
ttGAAATAGACCACGACTTCAGAACATTTGGTCGGCAGACGTTTACCAGTACGCAGGTAGAATgg < 1:3403947/65‑1 (MQ=255)
ttGAAATAGACCACGACTTCAGAACATTTGGTCGGCAGACGTTTACCAGTACGCAGGTAGAATgg < 1:291193/65‑1 (MQ=255)
ttGAAATAGACCACGACTTCAGAACATTTGGTCGGCAGACGTTTACCAGTACGCAGGTAGAATgg < 1:2903351/65‑1 (MQ=255)
ttGAAATAGACCACGACTTCAGAACATTTGGTCGGCAGACGTTTACCAGTACGCAGGTAGAATgg < 1:922956/65‑1 (MQ=255)
ttGAAATAGACCACGACTTCAGAACATTTGGTCGGCAGACGTTTACCAGTACGCAGGTAGAATgg < 1:1115582/65‑1 (MQ=255)
ttGAAATAGACCACGACTTCAGAACATTTGGTCGGCAGACGTTTACCAGTACGCAGGTAGAATgg < 1:2446488/65‑1 (MQ=255)
ttGAAATAGACCACGACTTCAGAACATTTGGTCGGCAGACGTTTACCAGTACGCAGGTAGAATgg < 1:2320257/65‑1 (MQ=255)
ttGAAATAGACCACGACTTCAGAACATTTGGTCGGCAGACGTTTACCAGTACGCAGGTAGAATgg < 1:2049145/65‑1 (MQ=255)
ttGAAATAGACCACGACTTCAGAACATTTGGTCGGCAGACGTTTACCAGTACGCAGGTAGAATGGcaca > 1:943904/1‑69 (MQ=255)
tGAAATAGACCACGACTTCAGAACATTTGGTCGGCAGACGTTTACCAGTACGCAGGTAGAATgg < 1:2613479/64‑1 (MQ=255)
aaTAGACCACGACTTCAGAACATTTGGTCGGTAGACGTTTACCAg < 1:4197/45‑1 (MQ=255)
tAGACCACGACTTCAGAACATTTGGTCGGCAGACGttt < 1:52686/38‑1 (MQ=255)
tAGACCACGACTTCAGAACATTTGGTCGGCAGACGttt < 1:2156823/38‑1 (MQ=255)
tAGACCACGACTTCAGAACATTTGGTCGGCAGACGttt < 1:508232/38‑1 (MQ=255)
tAGACCACGACTTCAGAACATTTGGTAGGCAGACGTTTACCAGTACGCAGGTAGAATGGCACACCgg > 1:1276224/1‑67 (MQ=255)
tAGACCACGACTTCAGAACATTAGGTCGGCAGACGTTTACCAGTACGCAGGTAGAATGGCACACCgg > 1:1616264/1‑67 (MQ=255)
ttCAGAACATTTGGTCGGCAGACGTTTACCAGTACGCAGGTAGAATGGCACACCGGCCCAGCGCCAGtt < 1:955326/69‑1 (MQ=255)
ttCAGAACATTTGGTCGGCAGACGTTTACCAGTACGCAGGTAGAATGGCACACCGGCCCAGCGCCAGtt < 1:212855/69‑1 (MQ=255)
ttGGTCGGTAGACGTTTACCAGTACGCAGGTAGAATGGCACACCGGCCCAGGGCCAGTTATCAATGTCg > 1:1921209/1‑69 (MQ=255)
ttGGTCGGTAGACGTTTACCAGTACGCAGGTAGAATGGCACACCGGCCCAGCGCCAGTTATCAATGTc > 1:365602/1‑68 (MQ=255)
ttGGTCGGTAGACGTTTACCAGTACGCAGGTAGAATGGCACACCGGCCCAGCGCCAGTTATCAATGTCg > 1:1239862/1‑69 (MQ=255)
ttGGTCGGTAGACGTTTACCAGTACGCAGGTAGAATGGCACACCGGCCCAGCGCCAGTTATCAATGTCg > 1:1151115/1‑69 (MQ=255)
ttGGTCGGTAGACGTTTACCAGTACGCAGGTAGAATGGCACACCGGCCCAGCGCCAGTTATCAATGTCg > 1:1457844/1‑69 (MQ=255)
ttGGTCGGTAGACGTTTACCAGTACGCAGGTAGAATGGCACACCGGCCCAGCGCCAGTTATCAATGTCg > 1:583292/1‑69 (MQ=255)
ttGGTCGGTAGACGTTTACCAGTACGCAGGTAGAATGGCACACCGGCCCAGCGCCAGTTATCAATGTCg > 1:1455803/1‑69 (MQ=255)
ttGGTCGGTAGACGTTTACCAGTACGCAGGTAGAATGGCACACCGGCCCAGCGCCAGTTATCAATGTCg > 1:1856511/1‑69 (MQ=255)
ttGGTCGGTAGACGTTTACCAGTACGCAGGTAGAATGGCACACCGGCCCAGCGCCAGTTATCAATGTCg > 1:2941740/1‑69 (MQ=255)
ttGGTCGGTAGACGTTTACCAGTACGCAGGTAGAATGGCACACCGGCCCAGCGCCAGTTATCAATGTCg > 1:2569572/1‑69 (MQ=255)
ttGGTCGGTAGACGTTTACCAGTACGCAGGTAGAATGGCACACCGGCCCAGCGCCAGTTATCAAAGTc > 1:839689/1‑68 (MQ=255)
ttGGTCGGTAGACGTTTACCAGTACGCAGGTAGAATGGCACACAGGCCCAGCGCCAGTTATCAATGTc > 1:21141/1‑68 (MQ=255)
|
TTCTTTAAACAGATTCAGTTCAGGTGTTTTGAAATAGACCACGACTTCAGAACATTTGGTCGGCAGACGTTTACCAGTACGCAGGTAGAATGGCACACCGGCCCAGCGCCAGTTATCAATGTCG > minE/1239145‑1239268
|
| 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
