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 |
2,574,961 |
T→C |
58.4% |
R212R (CGT→CGC) |
glyS → |
glycine tRNA synthetase, beta subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,574,961 | 0 | T | C | 58.4%
| 24.5
/ 45.4
| 68 | R212R (CGT→CGC) | glyS | glycine tRNA synthetase, beta subunit |
| Reads supporting (aligned to +/- strand): ref base T (14/14); new base C (9/30); total (24/44) |
| Fisher's exact test for biased strand distribution p-value = 3.61e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGGGCGAGCCGGAATTCACCATCGATAACGCCGATCAGTATCCGGAAATTCTGCGTGAGCGTGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGAAGATTAAAGCCGATGCCGAAGAAGC > minE/2574900‑2575023
|
tGGGCGAGCCGGAATTCACCATCGATAACGCCGATCAGTATCCGGAAATTCTGCGTGAGCGTGGGaaa < 1:1767300/68‑1 (MQ=255)
tGGGCGAGCCGGAATTCACCATCGATAACGCCGATCAGTATCCGGAAATTCTGCGTGAGCGTGGGaaa < 1:2138781/68‑1 (MQ=255)
tGGGCGAGCCGGAATTCACCATCGATAACGCCGATCAGTATCCGGAAATTCTGCGTGAGCGTGGGaaa < 1:2818792/68‑1 (MQ=255)
cACCATCGATAACGCCGATCAGTATCCGGAAATTCTGCGTGAGCGTGGGATAGTCATCGCCGATTa > 1:2276609/1‑66 (MQ=255)
cACCATCGATAACGCCGATCAGTATCCGGAAATTCTGCGTGAGCGTGGGAAAGTCATCGCCGATTa > 1:1996328/1‑66 (MQ=255)
cACCATCGATAACGCCGATCAGTATCCGGAAATTCTGCGTGAGCGTGGGAAAGTCATCGCCGATTa > 1:84266/1‑66 (MQ=255)
cACCATCGATAACGCCGATCAGTATCCGGAAATTCTGCGTGAGCGTGGGAAAGTCATCGCCGATTa > 1:2058439/1‑66 (MQ=255)
cACCATCGATAACGCCGATCAGTATCCGGAAATTCTGCGTGAGCGTGGGAAAGTCATCGCCGATTa > 1:2079316/1‑66 (MQ=255)
cACCATCGATAACGCCGATCAGTATCCGGAAATTCTGCGTGAGCGTGGGAAAGTCATCGCCGATTa > 1:323498/1‑66 (MQ=255)
cACCATCGATAACGCCGATCAGTATCCGGAAATTCTGCGTGAGCGTGGGAAAGTCATCGCCGATTa > 1:2122155/1‑66 (MQ=255)
cACCATCGATAACGCCGATCAGTATCCGGAAATTCTGCGTGAGCGTGGGAAAGTCATCGCCGATTa > 1:3085984/1‑66 (MQ=255)
cACCATCGATAACGCCGATCAGTATCCGGAAATTCTGCGTGAGCGTGGGAAAGTCATCGCCGATTa > 1:1478665/1‑66 (MQ=255)
gATAACGCCGATCAGTATCCGGAAATTCTGCGTGAGCGTGGGAAAGTCATCGCCGATTACGAAGAAc > 1:1012317/1‑67 (MQ=255)
gATAACGCCGATCAGTATCCGGAAATTCTGCGTGAGCGTGGGAAAGTCATCGCCGATTACGAAGAAc > 1:543760/1‑67 (MQ=255)
gATAACGCCGATCAGTATCCGGAAATTCTGCGTGAGCGTGGGAAAGTCATCGCCGATTACGAAGAAc > 1:1153500/1‑67 (MQ=255)
gATAACGCCGATCAGTATCCGGAAATTCTGCGTGAGCGTGGGAAAGTCATCGCCGATTACGAAGAACGt < 1:139361/69‑1 (MQ=255)
gATAACGCCGATCAGTATCCGGAAATTCTGCGTGAGCGTGGGAAAGTCATCGCCGATTACGAAGAACGt < 1:913388/69‑1 (MQ=255)
aatgCCGATCAGTATCCGGAAATTCTGCGTGAGCGGGGGAAAGTCATCGCCGATTACGAAGAACGTAAg > 1:1193824/4‑69 (MQ=255)
aatgCCGATCAGTATCCGGAAATTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTaa > 1:3070867/4‑68 (MQ=255)
aatgCCGATCAGTATCCGGAAATTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTaa > 1:1038953/4‑68 (MQ=255)
aatgCCGATCAGTATCCGGAAATTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAg > 1:1570856/4‑69 (MQ=255)
aatgCCGATCAGTATCCGGAAATTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAg > 1:2400634/4‑69 (MQ=255)
aatgCCGATCAGTATCCGGAAATTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAg > 1:2466092/4‑69 (MQ=255)
aatgCCGATCAGTATCCGGAAATTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAg > 1:2593085/4‑69 (MQ=255)
aatgCCGATCAGTATCCGGAAATTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAg > 1:2982305/4‑69 (MQ=255)
aatgCCGATCAGTATCCGGAAATTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAg > 1:1780939/4‑69 (MQ=255)
aatgCCGATCAGTATCCGGAAATTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAg > 1:3393487/4‑69 (MQ=255)
cGATCAGTATCCGGAAATTCTGCGTGAGCGTGGGAAAGTCTTCGCCGATTACGAAGAACGTAAGGCGaa < 1:397070/69‑1 (MQ=255)
cGATCAGTATCCGGAAATTCTGCGTGAGCGTGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGaa < 1:3211272/69‑1 (MQ=255)
cGATCAGTATCCGGAAATTCTGCGTGAGCGTGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGaa < 1:2981195/69‑1 (MQ=255)
cGATCAGTATCCGGAAATTCTGCGTGAGCGTGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGaa < 1:1537603/69‑1 (MQ=255)
cGATCAGTATCCGGAAATTCTGCGTGAGCGTGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGaa < 1:2133105/69‑1 (MQ=255)
cGATCAGTATCCGGAAATTCTGCGTGAGCGTGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGaa < 1:1186369/69‑1 (MQ=255)
cGATCAGTATCCGGAAATTCTGCGTGAGCGTGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGaa < 1:2522712/69‑1 (MQ=255)
cGATCAGTATCCGGAAATTCTGCGTGAGCGTGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGaa < 1:2438825/69‑1 (MQ=255)
cGGAAATTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGAAGATTAAAGcc < 1:1293934/68‑1 (MQ=255)
cGGAAATTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGAAGATTAAAGcc < 1:3058523/68‑1 (MQ=255)
cGGAAATTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGAAGATTAAAGcc < 1:3227001/68‑1 (MQ=255)
cGGAAATTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGAAGATTAAAGcc < 1:1460484/68‑1 (MQ=255)
cGGAAATTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGAAGATTAAAGcc < 1:361088/68‑1 (MQ=255)
cGGAAATTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGAAGATTAAAGcc < 1:2156694/68‑1 (MQ=255)
cGGAAATTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGAAGATTAAAGcc < 1:11599/68‑1 (MQ=255)
cGGAAATTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGAAGATTAAAGcc < 1:1558110/68‑1 (MQ=255)
cGGAAATTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGAAGATTAAAGcc < 1:689850/68‑1 (MQ=255)
cGGAAATTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGAAGATTAAAGcc < 1:1981128/68‑1 (MQ=255)
cGGAAATTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGAAGATTAAAGcc < 1:1866031/68‑1 (MQ=255)
cGGAAATTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGAAGATTAAAGcc < 1:1825869/68‑1 (MQ=255)
ggAAATTCTGCGTGAGCGTGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGAAGATTAAAGcc < 1:1102920/67‑1 (MQ=255)
ggAAATTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGAAGATTAAAGCCg < 1:1992296/68‑1 (MQ=255)
aaaTTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGAAGATTAAAGCCg < 1:404378/66‑1 (MQ=255)
aaaTTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGAAGATTAAAGCCg < 1:1640581/66‑1 (MQ=255)
aaaTTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGAAGATTAAAGCCg < 1:447178/66‑1 (MQ=255)
aaaTTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGAAGATTAAAGCCg < 1:344989/66‑1 (MQ=255)
aaaTTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGAAGATTAAAGCCg < 1:741977/66‑1 (MQ=255)
aaaTTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGAAGATTAAAGCCg < 1:1142664/66‑1 (MQ=255)
aaaTTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGAAGATTAAAGCCg < 1:3323889/66‑1 (MQ=255)
aaaTTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGAAGATTAAAGCCg < 1:326199/66‑1 (MQ=255)
aaaTTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGAAGATTAAAGCCg < 1:1367964/66‑1 (MQ=255)
aaaTTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGAAGATTAAAGCCg < 1:1402870/66‑1 (MQ=255)
aaaTTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGAAGATTAAAGCCg < 1:2383071/66‑1 (MQ=255)
aaaTTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGAAGATTAAAGCCg < 1:1464231/66‑1 (MQ=255)
aaaTTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGAAGATTAAAGCCg < 1:1600650/66‑1 (MQ=255)
aaaTTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGAAGATTAAAGCCg < 1:1937108/66‑1 (MQ=255)
aaaTTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGAAGATTAAAGCCg < 1:187158/66‑1 (MQ=255)
aaaTTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGAAGATTAAAGCCg < 1:1733154/66‑1 (MQ=255)
aaTTCTGCGTGAGCGCGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGAAGATTAAAGCCg < 1:2181883/65‑1 (MQ=255)
tGAGCGTGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGAAGATTAAAGCCGATGCCGaagaag > 1:2436848/1‑68 (MQ=255)
tGAGCGTGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGAAGATTAAAGCCGATGCCGAAGAagc > 1:9733/1‑69 (MQ=255)
|
TGGGCGAGCCGGAATTCACCATCGATAACGCCGATCAGTATCCGGAAATTCTGCGTGAGCGTGGGAAAGTCATCGCCGATTACGAAGAACGTAAGGCGAAGATTAAAGCCGATGCCGAAGAAGC > minE/2574900‑2575023
|
| 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
