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 R2
|
308 |
27.9 |
1975068 |
96.7% |
1909890 |
67.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,501,495 |
G→A |
100% |
S135S (TCG→TCA) |
ddg → |
palmitoleoyl‑acyl carrier protein (ACP)‑dependent acyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,501,495 | 0 | G | A | 85.7%
| 48.6
/ 2.7
| 21 | S135S (TCG→TCA) | ddg | palmitoleoyl‑acyl carrier protein (ACP)‑dependent acyltransferase |
| Reads supporting (aligned to +/- strand): ref base G (0/3); new base A (2/16); total (2/19) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.38e-01 |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
GATAACCTTAAACGCGCACAAATGCAAAATCGCGGCGTAATGGTTGTCGGCGTCCATTTTATGTCGCTGGAACTGGGCGGCCGCGTGATGGGACTGTGCCAACCAATGATGGCTACCTATCGTCCACA > W3110S.gb/2501430‑2501557
|
gacaaCCTTAAACGCGCACAAATGCAAAATCGCGGCGTAATGGTTGTCGGCGTCCATTTTATGTCACTGGa < 1:1589218/68‑1 (MQ=255)
gATAACCTTAAACGCGCACAAATGCAAAATCGCGGCGTAATGGTTGTCGGCGTCCATTTTATGTCACTGGa < 1:1458185/71‑1 (MQ=255)
gATAACCTTAAACGCGCACAAATGCAAAATCGCGGCGTAATGGTTGTCGGCGTCCATTTTATGTCACTGGa < 1:910713/71‑1 (MQ=255)
gATAACCTTAAACGCGCACAAATGCAAAATCGCGGCGTAATGGTTGTCGGCGTCCATTTTATGTCACTGGa < 1:591060/71‑1 (MQ=255)
gATAACCTTAAACGCGCACAAATGCAAAATCGCGGCGTAATGGTTGTCGGCGTCCATTTTATGTCACTGGa < 1:49370/71‑1 (MQ=255)
gATAACCTTAAACGCGCACAAATGCAAAATCGCGGCGTAATGGTTGTCGGCGTCCATTTTATGTCACTGGa < 1:1746517/71‑1 (MQ=255)
gATAACCTTAAACGCGCACAAATGCAAAATCGCGGCGTAATGGTTGTCGGCGTCCATTTTATGTCACTGGa < 1:165663/71‑1 (MQ=255)
aTAACCTTAAACGCGCACAAATGCAAAATCGCGGCGTAATGGTTGTAGGCGTCCATTTTATGTCACTGGa < 1:1944823/70‑1 (MQ=255)
gcACAAATGCAAAATCGCGGCGTAATTGTTGTCGGCGTCCATTTTATGTCGCTGGAACTGGGCGGCCGCGt < 1:1644572/71‑1 (MQ=255)
gcACAAATGCAAAATCGCGGCGTAATGGTTGTCGGCGTCCATTTTATGTCGCTGGAACTGGGCGGCCGCGt < 1:1911444/71‑1 (MQ=255)
gcACAAATGCAAAATCGCGGCGTAATGGTTGTCGGCGTCCATTTTATGTCGCTGGAACTGGGCGGCCGCGt < 1:908632/71‑1 (MQ=255)
cAAAATCGCGGCGTAATGGTTGTCGGCGTCCATTTTATGTCACTGGAACTGGGCGGCCGCGTGATGGGAc < 1:1858277/70‑1 (MQ=255)
cAAAATCGCGGCGTAATGGTTGTCGGCGTCCATTTTATGTCACTGGAACTGGGCGGCCGCGTGATGGGAc < 1:376881/70‑1 (MQ=255)
cAAAATCGCGGCGTAATGGTTGTCGGCGTCCATTTTATGTCACTGGAACTGGGCGGCCGCGTGATGGGAc < 1:76396/70‑1 (MQ=255)
cAAAATCGCGGCGTAATGGTTGTCGGCGTCCATTTTATGTCACTGGAACTGGGCGGCCGCGTGATGGGAc < 1:131953/70‑1 (MQ=255)
aaaaTCGCGGCGTAATGGTTGTCGGCGTCCATTTTATGTCACTGGAACTGGGCGGCCGCGTGATGTGAc < 1:156162/69‑1 (MQ=255)
ttGTCGGCGTCCATTTTATGTCACTGGAACTGGGCGGCCGCGt < 1:205942/43‑1 (MQ=255)
ttGTCGGCGTCCATTTTATGTCACTGGAACTGGGCGGCCGCGt < 1:1638171/43‑1 (MQ=255)
tGTCGGCGTCCATTTTATGTCACTGGAACTGGGCGGCCGCGt < 1:224289/42‑1 (MQ=255)
ttATGTCACTGGAACTGGGCGGCCGCGTGATGGGACTGTGCCAACCAATGATGGCTACCTATCGTCcaca > 1:174765/1‑70 (MQ=255)
ttATGTCACTGGAACTGGGCGGCCGCGTGATGGGACTGTGCCAACCAATGATGGCTACCTATCGTCcaca > 1:895434/1‑70 (MQ=255)
|
GATAACCTTAAACGCGCACAAATGCAAAATCGCGGCGTAATGGTTGTCGGCGTCCATTTTATGTCGCTGGAACTGGGCGGCCGCGTGATGGGACTGTGCCAACCAATGATGGCTACCTATCGTCCACA > W3110S.gb/2501430‑2501557
|
| 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
