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 |
|
A5 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,609,702 |
C→T |
23.8% |
E151E (GAG→GAA) |
fre ← |
flavin reductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,609,702 | 0 | C | T | 23.8%
| 80.6
/ 22.6
| 42 | E151E (GAG→GAA) | fre | flavin reductase |
| Reads supporting (aligned to +/- strand): ref base C (17/15); new base T (6/4); total (23/19) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.42e-01 |
AGCCCGCTTCCGGTTGTTCAACCACCGGCACCACTTGCAGACCAGGATGCTTCAACGAAAGCGCCTCAAGCTCGCAGAGATCATACAGATGCTGCTCTTCACGCCCGCCCCAGTAAATGGTGATATCACGGTTTGGGT > W3110S.gb/3609632‑3609769
|
aGCCCGCTTCCGGTTGTTCAACCACCGGCACCACTTGCAGACCAGGATGCTTCAACGAAAGCGCCTCAAGc < 1:4280318/71‑1 (MQ=255)
ccGCTTCCGGTTGTTCAACCACCGGCACCACTTGCAGACCAGGATGCTTCAACGAAAGCGCCTCAAGCtag > 1:4248671/1‑69 (MQ=255)
ccGCTTCCGGTTGTTCAACCACCGGCACCACTTGCAGACCAGGATGCTTCAACGAAAGCGCCTCAAGCtag > 1:4243039/1‑69 (MQ=255)
ccGGTTGTTCAACCACCGGCACCACTTGCAGACCAGGATGCTTCAACGAAAGCGCCTCAAGCTCGCaga < 1:1781378/69‑1 (MQ=255)
ccGGTTGTTCAACCACCGGCACCACTTGCAGACCAGGATGCTTCAACGAAAGCGCCTCAAGCTCGCa > 1:444065/1‑67 (MQ=255)
gttCAACCACCGGCACCACTTGCAGACCAGGATGCTTCAACGAAAGCGCCTCAAGCTCGCAGAGATCATa < 1:4815300/70‑1 (MQ=255)
gttCAACCACCGGCACCACTTGCAGACCAGGATGCTTCAACGAAAGCGACTCAAGCTCGCAGAGATCATa > 1:256542/1‑70 (MQ=255)
aaCCACCGGCACCACTTGCAGACCAGGATGCTTCAACGAAAGCGCCTCAAGCTCGCAGAGATCATACAGa < 1:2085256/70‑1 (MQ=255)
aaCCACCGGCACCACTTGCAGACCAGGATGCTTCAACGAAAGCGCCTCAAGCTCGCAGAGATCATACAGAt < 1:2434960/71‑1 (MQ=255)
aaCCACCGGCACCACTTGCAGACCAGGATGCTTCAACGAAAGCGACTCAAGCTCGCAGAGATCATACAg < 1:4098493/69‑1 (MQ=255)
ccaccGGCACCACTTGCAGACCAGGATGCTTCAACGAAAGCGCCTCAAGTTCGCAGAGATCATACAGAtgc < 1:1420348/71‑1 (MQ=255)
accGGCACCACTTGCAGACCAGGATGCTTCAACGAAAGCGCCTCAAGCTCGCAGAGATCATACAGAtgctg > 1:3597781/1‑71 (MQ=255)
caccacTTGCAGACCAGGATGCTTCAACGAAAGCGCCTCAAGCTCGCAGAGATCATACAGATGCTGCTCtt < 1:2094371/71‑1 (MQ=255)
ccacTTGCAGACCAGGATGCTTCAACGAAAGCGCCTCAAGCTCGCa < 1:2653734/46‑1 (MQ=255)
gCAGACCAGGATGCTTCAACGAAAGCGCCTCAAGCTCGCAGAGATCATACAGATGCTGCTCTTCAcgcccg > 1:3424127/1‑71 (MQ=255)
cAGGATGCTTCAACGAAAGCGCCTCAAGCTCGCAGAGATCATACAGATGCTGCTCTTCACGCCCGCCCCAg > 1:3812327/1‑71 (MQ=255)
ggATGCTTCAACGAAAGCGCCTCAAGTTCGCAGAGATCATACAGATGCTGCTCTTCACGCCCGCCCCAGTa < 1:2358862/71‑1 (MQ=255)
ggATGCTTCAACGAAAGCGCCTCAAGCTCGCAGAGATCATa > 1:276200/1‑41 (MQ=255)
ggATGCTTCAACGAAAGCGCCTCAAGCTCGCAGAGATCATa > 1:1252822/1‑41 (MQ=255)
ggATGCTTCAACGAAAGCGCCTCAAGCTCGCAGAGATCATACAGATGCTGCTCTTc > 1:2566968/1‑56 (MQ=255)
ggATGCTTCAACGAAAGCGCCTCAAGCTCGCAGAGATCATACAGATGCTGCTCTTCa > 1:1715897/1‑57 (MQ=255)
aTGCTTCAACGAAAGCGCCTCAAGCTCGCAGAGATCATACAGATGCTGctct > 1:611940/1‑52 (MQ=255)
aTGCTTCAACGAAAGCGCCTCAAGCTCGCAGAGATCATACAGATGCTGCTCTTCACGCCCGCCCCAGTaaa < 1:2581742/71‑1 (MQ=255)
tGCTTCAACGAAAGCGCCTCAAGCTCGCAGAGATCATACAGATGCTGCTCTTCACGCCCGCCCCAGTAAAt < 1:2279388/71‑1 (MQ=255)
cTTCAACGAAAGCGCCTCAAGTTCGCAGAGATCATACAGATGCTGCTCTTCACGCCCGCCCCAGTAAATgg > 1:3348283/1‑71 (MQ=255)
cTTCAACGAAAGCGCCTCAAGCTCGCAGAGATCATACAGATGCTGCTCTTCAcgcccgc > 1:2179151/1‑59 (MQ=255)
cAACGAAAGCGCCTCAAGTTCGCAGAGATCATACAGATGCTGCTCTTCACGCCCGCCCCAGTAAATGGTGa > 1:267433/1‑71 (MQ=255)
cAACGAAAGCGCCTCAAGTTCGCAGAGATCATACAGATGCTGCTCTTCACGCCCGCCCCAGTAAATGGTGa > 1:1000485/1‑71 (MQ=255)
cAACGAAAGCGCCTCAAGCTCGCAGAGATCATACAGATGCTGCTCTTCACGCCCGCCCCAGTAAATGGt < 1:4498261/69‑1 (MQ=255)
aaCGAAAGCGCCTCAAGCTCGCAGAGATCATACAGATGCTGCTCTTCACGCCCGCCCCAGTAAATGGTGat < 1:173465/71‑1 (MQ=255)
aCGAAAGCGCCTCAAGCTCGCAGAGATCATACAGATGCTGCTCTTCACGCCCGCCCCa > 1:1440772/1‑58 (MQ=255)
aCGAAAGCGCCTCAAGCTCGCAGAGATCATACAGATGATGCTCTTc > 1:3164891/1‑46 (MQ=255)
gAAAGCGCCTCAAGCTCGCAGAGATCATACAGATGCTGCTCTTCACGCCCGCCCCAGTAAATGGTGatat > 1:1517527/1‑70 (MQ=255)
gcgcCTCAAGCTCGCAGAGATCATACAGATGCTGCTCTTCACGCCCGCCCCAGTAAATGGt < 1:3914594/61‑1 (MQ=255)
gcCTCAAGTTCGCAGAGATCATACAGATGCTGCTCTTCACGCCCGCCCCAGTAAAt > 1:4571728/1‑56 (MQ=255)
gcCTCAAGTTCGCAGAGATCATACAGATGCTGCTCTTCACGCCCGCCCCAGTAAAt > 1:478049/1‑56 (MQ=255)
gcCTCAAGTTCGCAGAGATCATACAGATGCTGCTCTTCACGCCCGCCCCAGTAAAt > 1:790163/1‑56 (MQ=255)
tCAAGTTCGCAGAGATCATACAGATGCTGCTCTTCACGCCCGCCCCAGTaa < 1:3610260/51‑1 (MQ=255)
tCAAGTTCGCAGAGATCATACAGATGCTGCTCTTCACGCCCGCCCCAGTaa < 1:1748529/51‑1 (MQ=255)
aaGCTCGCAGAGATCATACAGATGCTGCTCTTCACGCCCGCCCCAGTAAATg > 1:2665416/1‑52 (MQ=255)
aaGCTCGCAGAGATCATACAGATGCTGCTCTTCACGCCCGCCCCAGTAAATGGTGATATCACGGTTTGGGt < 1:3589373/71‑1 (MQ=255)
aaGCTCGCAGAGATCATACAGATGCTGCTCTTCACGCCCGCCCCAGTAAATGGTGATATCACGGTTTGGGt < 1:2562670/71‑1 (MQ=255)
aaGCTCGCAGAGATCATACAGATGCTGCTCTTCACGCCCGCCCCAGTAAATGGTGATATCACGGTTTGGGt < 1:4737813/71‑1 (MQ=255)
|
AGCCCGCTTCCGGTTGTTCAACCACCGGCACCACTTGCAGACCAGGATGCTTCAACGAAAGCGCCTCAAGCTCGCAGAGATCATACAGATGCTGCTCTTCACGCCCGCCCCAGTAAATGGTGATATCACGGTTTGGGT > W3110S.gb/3609632‑3609769
|
| 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
