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 |
|
A1 F21 I0 R1
|
476 |
35.3 |
2812105 |
96.7% |
2719305 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,271,945 |
A→G |
42.5% |
R261R (CGA→CGG) |
yeiR → |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,271,945 | 0 | A | G | 42.5%
| 12.6
/ 50.0
| 40 | R261R (CGA→CGG) | yeiR | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (6/17); new base G (5/12); total (11/29) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.63e-01 |
CAGGCCTGCGGCTGGATATTCGACGCTGATACGGTATTCGACACCATTGGCATTCTGGAATGGGCGCGACTTGCACCGGTGGAACGCGTCAAAGGCGTGCTGCGTATTCCCGAAGGGCTGGTGCGAATCAACCGT > W3110S.gb/2271877‑2272011
|
cAGGCCTGCGGCTGGATATTCGACGCTGATACGGTATTCGACACCATTGGCATTCTGGAATGGGCGCGagt > 1:11110/1‑69 (MQ=255)
aGGCCTGCGGCTGGATATTCGACGCTGATACGGTATTCGACACCATTGGCATTCTGGAATTGGCGCGACtt > 1:291796/1‑71 (MQ=255)
aGGCCTGCGGCTGGATATTCGACGCTGATACGGTATTCGACACCATTGGCATTCTGGAATGGGCGCGACtt > 1:170100/1‑71 (MQ=255)
ccTGCGGCTGGATATTCGACGCTGATACGGTATTCGACACCATTGGCATTCTGGAATGGGCGCGACTTGCa > 1:762856/1‑71 (MQ=255)
cGGCTGGATATTCGACGCTGATACGGTATTCGACACCATTGGCATTCTGGAATGGGCGCGACTTGCAcc < 1:972875/69‑1 (MQ=255)
cGGCTGGATATTCGACGCTGATACGGTATTCGACACCATTGGCATTCTGGAATGGGCGCGACTTGCAcc < 1:969594/69‑1 (MQ=255)
cGGCTGGATATTCGACGCTGATACGGTATTCGACACCATTGGCATTCTGGAATGGGCGCGACTTGCAcc < 1:2585530/69‑1 (MQ=255)
cTGGATATTCGACGCTGATACGGTATTCGACACCATTGGCATTCTGGAATGGGCGCGGCTTGCACCGGTgg < 1:1489563/71‑1 (MQ=255)
cTGGATATTCGACGCTGATACGGTATTCGACACCATTGGCATTCTGGAATGGGCGCGGCTTGCACCGGTgg < 1:1592782/71‑1 (MQ=255)
cTGGATATTCGACGCTGATACGGTATTCGACACCATTGGCATTCTGGAATGGGCGCGGCTTGCACCGGTgg < 1:2176405/71‑1 (MQ=255)
ggATATTCGACGCTGATACGGTATTCGACACCATTGGCATTCTGGAATGGGCGCGGCTTGCACCGGTGGaa > 1:718518/1‑71 (MQ=255)
gACGCTGATACGGTATTCGACACCATTGGCATTCTGGAATGGGCGCGACTTGCACCGGTGGAACGCGTCa < 1:1322870/70‑1 (MQ=255)
gACGCTGATACGGTATTCGACACCATTGGCATTCTGGAATGGGCGCGACTTGCACCGGTGGAACGCGTCa < 1:2664558/70‑1 (MQ=255)
cGCTGATACGGTATTCGACACCATTGGCATTCTGGAATGGGCGCGACTTGCACCGGTGGAACGCGTCAAAg < 1:2441373/71‑1 (MQ=255)
gCTGATAGGGTATTCGACACCATTGGCATTCTGGAATGGGCGCGGCTTGc < 1:18093/50‑1 (MQ=39)
cTGATACGGTATTCGACACCATTGGCATTCTGGAATGGGCGCGGCTTGCACCGGTGGAACGCGTCa < 1:1650487/66‑1 (MQ=255)
cTGATACGGTATTCGACACCATTGGCATTCTGGAATGGGCGCGGCTTGCACCGGTGGAACGCGTCa < 1:330441/66‑1 (MQ=255)
cTGATACGGTATTCCACACCATTGGCATTCTGGAATGGGCGCGGCTTGCACCGGTGGAACGCGTCa < 1:2693169/66‑1 (MQ=255)
aCGGTATTCGACACCATTGGCATTCTGGAATGGGCGCGGCTTGCACCGGTGGAACGCGTCAAAGGCGtgct > 1:900327/1‑71 (MQ=255)
cGGTATTCGACACCATTGGCATTCTGGAATGGGCGCGGCTTGCAcc > 1:1157850/1‑46 (MQ=255)
cGGTATTCGACACCATTGGCATTCTGGAATGGGAGCGGCTTGCAcc > 1:2321116/1‑46 (MQ=38)
gTATTCGACACCATTGGCATTCTGGAATGGGCGCGGCTTGCACCGGTGGAACGCGTCAAAGGCGTGCTGCg < 1:1905492/71‑1 (MQ=255)
gTATTCGACACCATTGGCATTCTGGAATGGGCGCGACTTGCACCGGTGGAACGCGTCAAAGGCGTGCTGCg < 1:1026946/71‑1 (MQ=255)
tATTCGACACCATTGGCATTCTGGAATGGGCGCGACTTGCACCGGTGGAACGCGTCAAAGGCGTGCTGCGt < 1:2205049/71‑1 (MQ=255)
ttCGACACCATTGGCATTCTGGAATGGGCGCGGCTTGCACCGGTGGAACGCGTCAAAGGCGtg > 1:345464/1‑63 (MQ=255)
ttCGACACCATTGGCATTCTGGAATGGGCGCGGCTTGCACCGGTGGAACGCGTCAAAGGCGTGCTGCGTAt < 1:961269/71‑1 (MQ=255)
acacCATTGGCATTCTGGAATGGGCGCGGCTTGCACCGGTGGAACGCGTCAAAGGCGTGCTGCg < 1:2113930/64‑1 (MQ=255)
acCATTGGCATTCTGGAATGGGCGCGACTTGCACCGGTGGAACGCGTCAAAGGCGTGCTGCGTATTCCCGa < 1:240559/71‑1 (MQ=255)
ccATTGGCATTCTGGAATGGGCGCGACTTGCACCGGTgg < 1:362952/39‑1 (MQ=255)
ccATTGGCATTCTGGAATGGGCGCGACTTGCACCGGTgg < 1:1204761/39‑1 (MQ=255)
cATTGGCATTCTGGAATGGGCGCGGCTTGCACCGGTGGAACGCGTCaaa < 1:1651500/49‑1 (MQ=255)
aTTGGCATTCTGGAATGGGCGCGACTTGCACCGGTGGAACGCGTCAAAGGCGt < 1:2686482/53‑1 (MQ=255)
aTTGGCATTCTGGAATGGGCGCGACTTGCACCGGTGGAACGCGTCAAAGGCGt < 1:431646/53‑1 (MQ=255)
ttCTGGAATGGGCGCGACTTGCACCGGTGGAACGCGTCAAAGGCGTGCTGCg < 1:328502/52‑1 (MQ=255)
cTGGAATGGGCGCGACTTGCACCGGTGGAACGCGTCAAAGGCGTGCTGCGTATTCCCGAAGGGCTGGTGc > 1:1041107/1‑70 (MQ=255)
gAATGGGCGCGACTTGCACCGGTGGAACGCGTCAAAGGCGTGCTGCGTATTCCCGAAGGGCTGGTGCGa < 1:727938/69‑1 (MQ=255)
gAATGGGCGCGACTTGCACCGGTGGAACGCGTCAAAGGCGTGCTGCGTATTCCCGAAGGGCTGGTGCGa < 1:1741551/69‑1 (MQ=255)
tGGGCGCGGCTTGCACCGGTGGAACGCGTCAAAGGCGTGCTGCGTATTCCCGAAg < 1:409136/55‑1 (MQ=255)
tGGGCGCGACTTGCACCGGTCGAACGCGTCAAAGGCGTGCTGCg < 1:2393947/44‑1 (MQ=255)
ggCGCGACTTGCACCGGTGGAACGCGTCAAAGGCGTGCTGCGTATTCCCGAAGGGCTGGTGCGAATCAAc > 1:2657098/1‑70 (MQ=255)
gcgACTTGCACCGGTGGAACGCGTCAAAGGCGTGCTGCGTATTCCCGAAGGGCTGGTGCGAATCAACCGt > 1:496176/1‑70 (MQ=255)
|
CAGGCCTGCGGCTGGATATTCGACGCTGATACGGTATTCGACACCATTGGCATTCTGGAATGGGCGCGACTTGCACCGGTGGAACGCGTCAAAGGCGTGCTGCGTATTCCCGAAGGGCTGGTGCGAATCAACCGT > W3110S.gb/2271877‑2272011
|
| 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
