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 F28 I3 R2
|
122 |
64.1 |
3058059 |
97.6% |
2984665 |
63.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
minE |
1,196,798 |
(C)6→7 |
coding (354/1911 nt) |
yoaA ← |
conserved hypothetical protein with nucleoside triphosphate hydrolase domain |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,196,792 | 1 | . | C | 97.6%
| 137.4
/ ‑3.4
| 41 | coding (360/1911 nt) | yoaA | conserved hypothetical protein with nucleoside triphosphate hydrolase domain |
| Reads supporting (aligned to +/- strand): ref base . (1/0); new base C (14/26); total (15/26) |
| Fisher's exact test for biased strand distribution p-value = 3.66e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.57e-01 |
CGACTGTTTGATTAGACCAGGAGCGCAGCAGGATCACATCGCTTAAGATTTGTACCGGCAGATCG‑CCCCCCGCCAGCGCCTGCTGTTCGAGACGTTCGAGGCAGAGGTAGTTTGAGCGCCCTTTCAGCA > minE/1196728‑1196856
|
cGACTGTTTGATTAGACCAGGAGCGCAGCAGGATCACATCGCTTAAGATTTGTACCGGCAGATCG‑ccccc > 1:1133897/1‑70 (MQ=255)
tGATTAGACCAGGAGCGCAGCAGGATCACATCGCTTAAGATTTGTACCGGCAGATCGCCCCCCCGCCAg > 1:280069/1‑69 (MQ=255)
gATTAGACCAGGAGCGCAGCAGGATCACATCGCTTAAGATTTGTACCGGCAGATCGCCCCCCCGCCAgcg < 1:2894350/70‑1 (MQ=255)
aTTAGACCAGGAGCGCAGCAGGATCACATCGCTTAAGATTTGTACCGGCAGATCGCCCCCCCGCCAgcgc < 1:2497679/70‑1 (MQ=255)
aTTAGACCAGGAGCGCAGCAGGATCACATCGCTTAAGATTTGTACCGGCAGATCGCCCCCCCGCCAgcgc < 1:246532/70‑1 (MQ=255)
aTTAGACCAGGAGCGCAGCAGGATCACATCGCTTAAGATTTGTACCGGCAGATCGCCCCCCCGCCAGCGcc > 1:860083/1‑71 (MQ=255)
tAGACCAGGAGCGCAGCAGGATCACATCGCTTAAGATTTGTACCGGCAGATCGCCCCCCCGCCAGCGCct > 1:691811/1‑70 (MQ=255)
ccAGGAGCGCAGCAGGATCACATCGCTTAAGATTTGTACCGGCAGATCGCCCCCCCGCCAGCGCCTGCTGt < 1:635875/71‑1 (MQ=255)
ccAGGAGCGCAGCAGGATCACATCGCTTAAGATTTGTACCGGCAGATCGCCCCCCCGCCAGCGCCTGCTGt < 1:2101789/71‑1 (MQ=255)
cAGGAGCGCAGCAGGATCACATCGCTTAAGATTTGTACCGGCAGATCGCCCCCCCGCCAGCGCCTGCTGtt > 1:995008/1‑71 (MQ=255)
agcagGATCACATCGCTTAAGATTTGTACCGGCAGATCGCCCCCCCGCCAGCGCCTGCTGTTCGAGACGtt < 1:2228102/71‑1 (MQ=255)
gcagGATCACATCGCTTAAGATTTGTACCGGCAGATCGCCCCCCCGCCAGCGCCTGCTGTTCGAGACGTTc < 1:1702667/71‑1 (MQ=255)
cagGATCACATCGCTTAAGATTTGTACCGGCAGATCGCCCCCCCGCCAGCGCCTGCTGTTCGAGACGTTc > 1:742330/1‑70 (MQ=255)
cagGATCACATCGCTTAAGATTTGTACCGGCAGATCGCCCCCCCGCCAGCGCCTGCTGTTCGAGACGTTCg < 1:622037/71‑1 (MQ=255)
cagGATCACATCGCTTAAGATTTGTACCGGCAGATCGCCCCCCCGCCAGCGCCTGCTGTTCGAGACGTTCg < 1:510941/71‑1 (MQ=255)
cagGATCACATCGCTTAAGATTTGTACCGGCAGATCGCCCCCCCGCCAGCGCCTGCTGTTCGAGACGTTCg < 1:1408542/71‑1 (MQ=255)
agGATCACATCGCTTAAGATTTGTACCGGCAGATCGCCCCCCCGCCAGCGCCTGCTGTTCGAGACGTTCGa < 1:3018187/71‑1 (MQ=255)
gATCACATCGCTTAAGATTTGTACCGGCAGATCGCCCCCCCGCCAGCGCCTGCTGTTCGAGACGtt < 1:835455/66‑1 (MQ=255)
gATCACATCGCTTAAGATTTGTACCGGCAGATCGCCCCCCCGCCAGCGCCTGCTGTTCGAGACGTTCGAgg < 1:1818669/71‑1 (MQ=255)
tCACATCGCTTAAGATTTGTACCGGCAGATCGCCCCCCCGCCAGCGCCTGATGTTCGAGACGTTCGAgg > 1:2896129/1‑69 (MQ=255)
cacaTCGCTTAAGATTTGTACCGGCAGATCGCCCCCCCGCCAGCGCCTGCTGTTCGAGACGTTCGa > 1:1988026/1‑66 (MQ=255)
acaTCGCTTAAGATTTGTACCGGCAGATCGCCCCCCCGCCAGCGCCTGCTGTTCGAGACGTTCGAGGCaga < 1:1700633/71‑1 (MQ=255)
acaTCGCTTAAGATTTGTACCGGCAGATCGCCCCCCCGCCAGCGCCTGCTGTTCGAGACGTTCGAGGCag < 1:1085535/70‑1 (MQ=255)
acaTCGCTTAAGATTTGTACCGGCAGATCGCCCCCCCGCCAGCGCCTGCTGTTCGAGACGTTCGAGGCag < 1:654933/70‑1 (MQ=255)
caTCGCTTAAGATTTGTACCGGCAGATCGCCCCCCCGCCAGCGCCTGCTGTTCGAGACGTTCGAGGCaga < 1:569806/70‑1 (MQ=255)
cGCTTAAGATTTGTACCGGCAGATCGCCCCCCCGCCAGCGCCTGCTGTTCGAGACGtt > 1:2203199/1‑58 (MQ=255)
cGCTTAAGATTTGTACCGGCAGATCGCCCCCCCGCAAGCGCCTGCTGTTCGAGACGtt > 1:936606/1‑58 (MQ=255)
gCTTAAGATTTGTACCGGCAGATC‑‑CCCCCCGCCAGCGCCTGCTGTTCGAGACGTTCGAGGCAGAGGTAGtt > 1:843811/1‑71 (MQ=255)
cTTAAGATTTGTACCGGCAGATCGCCCCCCCGCCAGCGCCTGCTGTTCg < 1:1085958/49‑1 (MQ=38)
cTTAAGATTTGTACCGGCAGATCGCCCCCCCGCCAGCGCCTGCTGTTCg < 1:392662/49‑1 (MQ=38)
cTTAAGATTTGTACCGGCAGATCGCCCCCCCGCCAGCGCCTGCTGTTCg < 1:1730588/49‑1 (MQ=38)
cTTAAGATTTGTACCGGCAGATCGCCCCCCCGCCAGCGCCTGCTGTTCGAGACGTTCGAGGCAGAGGTAGt < 1:933780/71‑1 (MQ=255)
aaGATTTGTACCGGCAGATCGCCCCCCCGCCAGCGCCTGCTGTTCGAGACGTTCGAGGCGGAGGTAGtt < 1:804436/69‑1 (MQ=255)
aaGATTTGTACCGGCAGATCGCCCCCCCGCCAGCGCCTGCTGTTCGAGACGTTCGAGGCAGAGGTAGttt > 1:2477214/1‑70 (MQ=255)
gATTTGTACCGGCAGATCGCCCCCCCGCCAGCGCCTGCTGTTCGAGACGTTCGAGGCAGAGGTAGTTTGAg > 1:645321/1‑71 (MQ=255)
tGTACCGGCAGATCGCCCCCCCGCCAGCGCCTGCTGTTCGAGACGTTCGAGGCaga > 1:1695622/1‑56 (MQ=255)
ccGGCAGATCGCCCCCCCGCCAGCGCCTGCTGTTCGAGACGTTCGAGGCAGAGGTAGTTTGAGCGCCCtt < 1:1260691/70‑1 (MQ=255)
ccGGCAGATCGCCCCCCCGCCAGCGCCTGCTGTTCGAGACGTTCGAGGCAGAGGTAGTTTGAGCGCCCtt < 1:1641591/70‑1 (MQ=255)
ggCAGATCGCCCCCCCGCCAGCGCCTGCTGTTCGAGACGTTCGAGGCagag > 1:1729858/1‑51 (MQ=39)
aGATCGCCCCCCCGCCAGCGCCTGCTGTTCGAGACGTTCGAGGCAGAGGTAGTTTGAGCGCCCTTTcagca < 1:341548/71‑1 (MQ=255)
aGATCGCCCCCCCGCCAGCGCCTGCTGTTCGAGACGTTCGAGGCAGAGGTAGTTTGAGCGCCCTTTcagca < 1:17428/71‑1 (MQ=255)
aGATCGCCCCCCCGCCAGCGCCTGCTGTTCGAGACGTTCGAGGCAGAGGTAGTTTGAGCGCCCTTTcag > 1:1316456/1‑69 (MQ=255)
|
CGACTGTTTGATTAGACCAGGAGCGCAGCAGGATCACATCGCTTAAGATTTGTACCGGCAGATCG‑CCCCCCGCCAGCGCCTGCTGTTCGAGACGTTCGAGGCAGAGGTAGTTTGAGCGCCCTTTCAGCA > minE/1196728‑1196856
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
