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 |
1,865,587 |
T→C |
100% |
L8L (CTT→CTC) |
yeaD → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,865,587 | 0 | T | C | 79.2%
| 48.9
/ 8.0
| 24 | L8L (CTT→CTC) | yeaD | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (4/1); new base C (9/10); total (13/11) |
| Fisher's exact test for biased strand distribution p-value = 3.27e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.16e-01 |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
GCTCTTTTTTTTACCTGATAAAATGAAGTTAAAGGACTGCGTCATGATTAAGAAAATTTTTGCCCTTCCGGTCATCGAACAAATCTCCCCTGTCCTCTCCCGTCGTAAACTGGATGAACT > W3110S.gb/1865521‑1865640
|
gCTCTTTTTTTTACCTGATAAAATGAAGTTAAAGGACTGCGTCATGATTAAGAAAATTTTTGCCCTTCCgg > 1:850602/1‑71 (MQ=255)
ttttttACCTGATAAAATGAAGTTAAAGGACTGCGTCATGATTAAGAAAATTTTTGCCCTCCCGGTCAt > 1:1569399/1‑69 (MQ=255)
tACCTGATAAAATGAAGTTAAAGGACTGCGTCATGATTAAGAAAATTTTTGCCCTCCCGGTCATCGAACa < 1:2452655/70‑1 (MQ=255)
tACCTGATAAAATGAAGTTAAAGGACTGCGTCATGATTAAGAAAATTTTTGCCCTCCCGGTCATCGAACa < 1:2666224/70‑1 (MQ=255)
tACCTGATAAAATGAAGTTAAAGGACTGCGTCATGATTAAGAAAATTTTTGCCCTCCCGGTCATCGAACa < 1:579259/70‑1 (MQ=255)
tACCTGATAAAATGAAGTTAAAGGACTGCGTCATGATTAAGAAAATTTTTGCCCTCCCGGTCATCGAACa < 1:1806125/70‑1 (MQ=255)
aTAAAATGAAGTTAAAGGACTGCGTCATGATTAAGAAAATTTTTGCCCTCCCGGTCATCGAACAAAtctc < 1:1794224/70‑1 (MQ=255)
aaaaTGAAGTTAAAGGACTGCGTCATGATTAAGAAAATTTTTGCCCTCCCGGTCATCGAACAAATCTcccc > 1:1261169/1‑71 (MQ=255)
tGAAGTTAAAGGACTGCGTCATGATTAAGAATATTTTTGCCCTTCGGGTCATCGAACAAATCTCCCCTGTc > 1:2597316/1‑71 (MQ=255)
tGAAGTTAAAGGACTGCGTCATGATTAAGAAAATTTTTGCCCTCCCGGTCATCGAACAAATCTCCCCTGTc < 1:2141324/71‑1 (MQ=255)
gTTAAAGGACTGCGTCATGATTAAGAAAATTTTTGCCCTCCCGGTCATCGAACAAATCTCCCCTGTCctct < 1:2534774/71‑1 (MQ=255)
ttAAAGGACTGCGTCATGATTAAGAAAATTTTTGCCCTCCCGGt < 1:1901361/44‑1 (MQ=255)
aaaGGACTGCGTCATGATTAAGAAAATTTTTGCCCTCCCGGTCATCGAACAAATCTCCCCTGTCCTCTccc > 1:940856/1‑71 (MQ=255)
aGGACTGCGTCATGATTAAGAAAATTTTTGCCCTCCCGGTCATCGAACaaa > 1:1661585/1‑51 (MQ=255)
aCTGCGTCATGATTAAGAAAATTTTTGCCCTCCCGGTCATCGAACAAATCTCCCCTGTCCTCTCCcgtcgt < 1:1736848/71‑1 (MQ=255)
cTGCGTCATGATTAAGAAAATTTTTGCCCTTCCGGTCATCGAACAAATCTCCCCTGTCCTCTCCCGTCGTa < 1:261429/71‑1 (MQ=255)
tCATGATTAAGAAAATTTTTGCCCTCCCGGTCATCGAACa < 1:2335430/40‑1 (MQ=255)
aTGATTAAGAAAATTTTTGCCCTCCCGGTCATCGAACaaa > 1:1052188/1‑40 (MQ=255)
aTGATTAAGAAAATTTTTGCCCTCCCGGTCATCGAACaaa > 1:2127109/1‑40 (MQ=255)
aTGATTAAGAAAATTTTTGCCCTCCCGGTCATCGAACAAATCTCCCCTGTCCTCTCCcgtcg > 1:1407568/1‑62 (MQ=255)
gATTAAGAAAATTTTTGCCCTCCCGGTCATCGAACAAATCTCCCCTGTCCTCTCCCGTCGTaa > 1:574244/1‑63 (MQ=255)
tAAGAAAATTTTTGCCCTCCCGGTCATCGAACAAATCTCCCCTGTCCTCTCCCGTCGTAAACTGGATGaa > 1:945163/1‑70 (MQ=255)
aaGAAAATTTTTGCCCTTCCGGTCATCGAACAAATCTCCCCTGTCCTCTCCCGTCGTAAAc > 1:1408419/1‑61 (MQ=255)
aaGAAAATTTTTGCCCTTCCGGTCATCGAACAAATCTCCCCTGTCCTCTCCCGTCGTAAACTGGATGAACt > 1:2466543/1‑71 (MQ=255)
|
GCTCTTTTTTTTACCTGATAAAATGAAGTTAAAGGACTGCGTCATGATTAAGAAAATTTTTGCCCTTCCGGTCATCGAACAAATCTCCCCTGTCCTCTCCCGTCGTAAACTGGATGAACT > W3110S.gb/1865521‑1865640
|
| 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
