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 F17 I0 R2
|
278 |
43.2 |
2215644 |
94.6% |
2095999 |
61.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,450,298 |
A→G |
22.2% |
W78R (TGG→CGG) |
yifE ← |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,450,298 | 0 | A | G | 22.2%
| 82.2
/ 24.0
| 45 | W78R (TGG→CGG) | yifE | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (19/16); new base G (6/4); total (25/20) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.28e-01 |
ACCTGCGGTTTACCGCCGGAAAGGGTGTGAAAACGTTTTGGACGCTTAATACGCGTCATATACTTGGACCACACGCGTTCTGCTTCTGTCACTGGCTCACGTTCGCCACGGCATACTGCTACGAAGAGTTTCTCTTCCTC > minE/2450228‑2450367
|
aCCTGCGGTTTACCGCCGGAAAGGGTGTGAAAACGTTTTGGACGCTTAATACGCGTCATATACTTGGACca < 1:288825/71‑1 (MQ=255)
tGCGGTTTACCGCCGGAAAGGGTGTGAAAACGTTTTGGACGCTTAATACGCGTCATATACTTGGACCgcac > 1:1983996/1‑71 (MQ=255)
ggTTTACCGCCGGAAAGGGTGTGAAAACGTTTTGGACGCTTAATACGCGTCATATACTTGGACCACAcgcg < 1:1224786/71‑1 (MQ=255)
ggTTTACCGCCGGAAAGGGTGTGAAAACGTTTTGGACGCTTAATACGCGTCATATACTTGGACCACAcgcg < 1:1227252/71‑1 (MQ=255)
gTTTACCGCCGGAAAGGGTGTGAAAACGTTTTGGACGCTTAATACGCGTCATATACTTGGACCGCACGCGt < 1:1742132/71‑1 (MQ=255)
ttACCGCCGGAAAGGGTGTGAAAACGTTTTGGACGCTTAATACGCGTCATATACTTGGACCGCACGCGTTc > 1:865472/1‑71 (MQ=255)
ttACCGCCGGAAAGGGTGTGAAAACGTTTTGGACGCTTAATACGCGTCATATACTTGGACCGCACGCGTTc > 1:1643955/1‑71 (MQ=255)
tACCGCCGGAAAGGGTGTGAAAACGTTTTGGACGCTTAATACGCGTCATATACTTGGACCACACGCGTTCt > 1:1889395/1‑71 (MQ=255)
ccgccgGAAAGGGTGTGAAAACGTTTTGGACGCTTAATACGCGTCATATACTTGGCCCACACGCGTTCTGc > 1:635406/1‑71 (MQ=255)
ggAAAGGGTGTGAAAACGTTTTGGACGCTTAATACGCGTCATATACTTGGACCGCACGCGTTCTGCTTCTg > 1:295147/1‑71 (MQ=255)
aaGGGTGTGAAAACGTTTTGGACGCTTAATACGCGTCATATACTTGGACCGCACGCGTTCTGCTTCTGTCa > 1:1423847/1‑71 (MQ=255)
gtgtGAAAACGTTTTGGACGCTTAATACGCGTCATATACTTGGACcac > 1:907518/1‑48 (MQ=255)
tgAAAACGTTTTGGACGCTTAATACGCGTCATATACTTGGACCGCACGCGTTCTGCTTCTGTCACTGGCTc < 1:2117600/71‑1 (MQ=255)
tgAAAACGTTTTGGACGCTTAATACGCGTCATATACTTGGACCGCACGCGTTCTGCTTCTGTCACTGGCTc < 1:1451253/71‑1 (MQ=255)
tgAAAACGTTTTGGACGCTTAATACGCGTCATATACTTGGACCACACGCGt > 1:842358/1‑51 (MQ=255)
tgAAAACGTTTTGGACGCTTAATACGCGTCATATACTTGGACCACACGCGTTCTGCTTc > 1:61730/1‑59 (MQ=255)
gAAAACGTTTTGGACGCTTAATACGCGTCATATACTTGGACCACACGCGTTCTGCTTCTGTCACTGGCTCa > 1:143374/1‑71 (MQ=255)
aaaaCGTTTTGGACGCTTAATACGCGTCATATACTTGGACCGCACGCGTTCTGCTTCTGTCACTGGCTCAc > 1:2126602/1‑71 (MQ=255)
aaaaCGTTTTGGACGCTTAATACGCGTCATATACTTGGACCACACGCGTTCTGCTTCTGTCACTGGCTCAc > 1:442841/1‑71 (MQ=255)
aaaaCGTTTTGGACGCTTAATACGCGTCATATACTTGGACCACACGCGTTCTGCTTCTGTCACTGGCTCAc > 1:796128/1‑71 (MQ=255)
aaaaCGTTTTGGACGCTTAATACGCGTCATATACTTGGACCACACGCGTTCTGCTTCTGTCACTGGCTCAc > 1:184510/1‑71 (MQ=255)
aaCGTTTTGGACGCTTAATACGCGTCATATACTTGGACCACACGCGTTCTGCTTCTGTCACTGGCTCACGt < 1:327112/71‑1 (MQ=255)
ggACGCTTAATACGCGTCATATACTTGGACCACACGCGTTCTGCTTCTGTCACTGGCTCACGTTCGCCAc < 1:1703472/70‑1 (MQ=255)
gACGCTTAATACGCGTCATATACTTGGACCACACGCGTTCTGCTTCTGTCACTGGCTCACGTTCGCCACgg < 1:740765/71‑1 (MQ=255)
aCGCTTAATACGCGTCATATACTTGGACCACACGCGTTCTGCTTCTGTCACTGGCTCACGTTCGCCACGGc < 1:2163454/71‑1 (MQ=255)
aCGCTTAATACGCGTCATATACTTGGACCACACGCGTTCTGCTTCTGTCACTGGCTCACGTTCGCCACGGc < 1:301457/71‑1 (MQ=255)
cGCTTAATACGCGTCATATACTTGGACCACAcgcg < 1:1234381/35‑1 (MQ=255)
ttAATACGCGTCATATACTTGGACCACACGCGTTCTGCTTCTGTCACTGGCTCACGt > 1:187892/1‑57 (MQ=255)
ttAATACGCGTCATATACTTGGACCACACGCGTTCTGCTTCTGTCACTGGCTCACGt > 1:266182/1‑57 (MQ=255)
tAATACGCGTCATATACTTGGACCACACGCGTTCTGCTTCTGTCACTGGCTCACGTTCGCCAc < 1:954258/63‑1 (MQ=255)
aaTACGCGTCATATACTTGGACCACACGCGTTCTGCTTCTGTc < 1:226029/43‑1 (MQ=255)
aTACGCGTCATATACTTGGACCACACGCGTTCTGCTTCTGTCACTGGCTCACGTTCGCCACGGCATACTGc > 1:970498/1‑71 (MQ=255)
aTACGCGTCATATACTTGGACCACACGCGTTCTGCTTCTGTCACTGGCTCACGTTCGCCACGGCATACTGc < 1:1021187/71‑1 (MQ=255)
aTACGCGTCATATACTTGGACCACACGCGTTCTGCTTCTGTCACTGGCTCACGTTCGCCACGGCATACTGc < 1:354822/71‑1 (MQ=255)
aTACGCGTCATATACTTGGACCACACGCGTTCTGCTTCTGTCACTGGCTCACGTTCGCCACGGCATACTGc > 1:1933489/1‑71 (MQ=255)
tACGCGTCATATACTTGGACCACACGCGTTCTGCTTCTGt < 1:883447/40‑1 (MQ=255)
aCGCGTCATATACTTGGACCGCACGCGTTCTGCTTCTGTCACt > 1:1948201/1‑43 (MQ=255)
atatACTTGGACCACACGCGTTCTGCTTCTGTCACTGGCTCACGTTCGCCAc > 1:638525/1‑52 (MQ=255)
tataCTTGGACCACACGCGTTCTGCTTCTGTCACTGGCTCACGTTCGCCACGGCATACTGCTACGAAGAGt > 1:741195/1‑71 (MQ=255)
ataCTTGGACCACACGCGTTCTGCTTCTGTCACTGGCTCACGTTCGCCACGGCa < 1:612592/54‑1 (MQ=255)
taCTTGGACCACACGCGTTCTGCTTCTGTCACTGGCTCACGTTCg > 1:19166/1‑45 (MQ=255)
taCTTGGACCACACGCGTTCTGCTTCTGTCACTGGCTCACGTTCg > 1:812470/1‑45 (MQ=255)
taCTTGGACCACACGCGTTCTGCTTCTGTCACTGGCTCACGTTCg > 1:230607/1‑45 (MQ=255)
taCTTGGACCACACGCGTTCTGCTTCTGTCACTGGCTCACGTTCGCCACGGCATACTGCTACGAAGAGttt > 1:1941665/1‑71 (MQ=255)
taCTTGGACCACACGCGTTCTGCTTCTGTCACTGGCTCACGTTCGCCACGGCATACTGCTACGAAGAGtt > 1:263402/1‑70 (MQ=255)
ttGGACCACACGCGTTCTGCTTCTGTCACTGGCTCACGTTCGCCACGGCATACTGCTACGAAGAGt < 1:2128979/66‑1 (MQ=255)
ggACCGCACGCGTTCTGCTTCTGTCACTGGCTCACGTTCGCCACGGCATACTGCTACGAAGAGTTTctct < 1:48376/70‑1 (MQ=255)
ggACCACACGCGTTCTGCTTCTGTCACTGGCTCACGTTCGCCACGGCATACTGCTACGAAGAGTTtctc < 1:150615/69‑1 (MQ=255)
cacaCGCGTTCTGCTTCTGTCACTGGCTCACGTTCGCCACGGCa < 1:399534/44‑1 (MQ=255)
cacaCGCGTTCTGCTTCTGTCACTGGCTCACGTTCGCCACGGCa < 1:1576301/44‑1 (MQ=255)
cacaCGCGTTCTGCTTCTGTCACTGGCTCACGTTCGCCACGGCa < 1:363503/44‑1 (MQ=255)
cacaCGCGTTCTGCTTCTGTCACTGGCTCACGTTCGCCACGGCa < 1:1532006/44‑1 (MQ=255)
cacaCGCGTTCTGCTTCTGTCACTGGCTCACGTTCGCCACGGCATACTGCTACGAAGAGTTTCTCTTCCTc < 1:1756620/71‑1 (MQ=255)
|
ACCTGCGGTTTACCGCCGGAAAGGGTGTGAAAACGTTTTGGACGCTTAATACGCGTCATATACTTGGACCACACGCGTTCTGCTTCTGTCACTGGCTCACGTTCGCCACGGCATACTGCTACGAAGAGTTTCTCTTCCTC > minE/2450228‑2450367
|
| 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
