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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,015,709 |
A→G |
12.8% |
R120R (CGT→CGC) |
fumA ← |
aerobic Class I fumarate hydratase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,015,709 | 0 | A | G | 12.8%
| 118.2
/ 9.3
| 47 | R120R (CGT→CGC) | fumA | aerobic Class I fumarate hydratase |
| Reads supporting (aligned to +/- strand): ref base A (22/19); new base G (4/2); total (26/21) |
| Fisher's exact test for biased strand distribution p-value = 6.78e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.45e-01 |
ATCTTCGATATAAGTGTTATAGACACCGCGCGCCAGCGCCGCTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTCGC > minE/1015643‑1015777
|
aTCTTCGATATAGGTGTTATAGACGCCTTTCGACAGCGTTTCTTCATCACCGCCGCCGGTCCACACGCGCt > 1:969383/1‑71 (MQ=255)
aTCTTCGATATAGGTGTTATAGACGCCTTTCGACAGCGTTTCTTCATCACCGCCGCCGGTCCACACGCGCt > 1:1774856/1‑71 (MQ=255)
gtgtTATAGACGCCTTTCGACAGCGTTTCTTCATCACCGCCGCCGGTCCACACGCGCTGGCCTTTTTTAcc < 1:3023536/71‑1 (MQ=255)
gtTATAGACACCGCGCGCCAGCGCCGCTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACcaa > 1:3869561/1‑71 (MQ=255)
ttATAGACACCGCGCGCCAGCGCCGCTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACcaa < 1:3554671/70‑1 (MQ=255)
aGACACCGCGCGCCAGCGCCGCTTCATCACCACCACCGGTCCATaca > 1:2230814/1‑47 (MQ=255)
aGACACCGCGCGCCAGCGCCGCTTCATCACCACCACCGGTCCATACACGCTGCCCtttt > 1:2434756/1‑59 (MQ=255)
aGACACCGCGCGCCAGCGCCGCTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACaat > 1:449900/1‑70 (MQ=255)
acacCGCGCGCCAGCGCCGCTTCATCACCACCACCGGTCCATACACGCTGCCCTTTCTTACCAACaata < 1:612243/69‑1 (MQ=255)
acCGCGCGCCAGCGCCGCTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACca < 1:670534/61‑1 (MQ=255)
cgcgcgCCAGCGCCGCTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACAATAATcgcg < 1:1651817/71‑1 (MQ=255)
gcCAGCGCCGCTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACaataat > 1:3655628/1‑62 (MQ=255)
gcCAGCGCCGCTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACaataat > 1:3707824/1‑62 (MQ=255)
gcCAGCGCCGCTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGcc > 1:3082898/1‑71 (MQ=255)
cgccgcTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTAt > 1:3474463/1‑71 (MQ=255)
cgccgcTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTAt > 1:2402544/1‑71 (MQ=255)
gccgcTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTa > 1:1417215/1‑69 (MQ=255)
cgcTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACaat < 1:701938/51‑1 (MQ=255)
cTTCATCACCCCCGCCGGTCCACACGCGCTGGCCTTTTTTAcc > 1:486934/1‑43 (MQ=19)
cTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGa > 1:2896941/1‑71 (MQ=255)
ttCATCACCACCACCGGTCCATACACGCTGCCCtttttt > 1:1519266/1‑39 (MQ=255)
tcatcaCCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGcc < 1:1444709/59‑1 (MQ=255)
catcaCCGCCGCCGGTCCACACGCGCTGGCCTTTTTTACCGACGATGATCGCGGTGCCGGTATCCTgg < 1:2032231/68‑2 (MQ=255)
atcaCCACCACCGGTCCATACACGCTGCCCtttttt < 1:1518907/36‑1 (MQ=255)
tcaCCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGt > 1:847111/1‑71 (MQ=255)
tcaCCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGt > 1:3633187/1‑71 (MQ=255)
accaccaccGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTg < 1:2462578/71‑1 (MQ=255)
accaccaccGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTg > 1:439802/1‑71 (MQ=255)
ccaccaccGGTCCATACACGCTGCCCTTTTTTACcaa > 1:2020991/1‑37 (MQ=255)
ccaccaccGGTCCATACACGCTGCCCATTATTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTg < 1:732587/70‑1 (MQ=255)
caccaccGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTgg > 1:224662/1‑70 (MQ=255)
ccgccGGTCCACACGCGCTGGCCTTTTTTACCGACGATGATCGCGGTGCCGGTATCCTGGCAGGTCGGCAg > 1:1350056/4‑71 (MQ=255)
cGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACg > 1:290796/1‑71 (MQ=255)
ggTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGc > 1:3045087/1‑71 (MQ=255)
gTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGGGCCGGTATCCTGACAgg < 1:1781090/58‑1 (MQ=255)
tCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCt < 1:33834/71‑1 (MQ=255)
tCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCt > 1:1480523/1‑71 (MQ=255)
tCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCt > 1:1415530/1‑71 (MQ=255)
cATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGcc < 1:949855/68‑1 (MQ=255)
aaTACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCa > 1:3489735/2‑61 (MQ=255)
aTACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTc < 1:1151863/71‑1 (MQ=255)
aTACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTc > 1:3650727/1‑71 (MQ=255)
tACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTa < 1:196216/43‑1 (MQ=255)
tACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATc < 1:2073736/45‑1 (MQ=255)
tACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCt < 1:3177596/47‑1 (MQ=255)
tACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGa < 1:2229768/49‑1 (MQ=255)
tACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAg < 1:921888/60‑1 (MQ=255)
tACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCtt < 1:2996289/68‑1 (MQ=255)
acacGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGtt < 1:2033882/54‑1 (MQ=255)
acacGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTcgc > 1:599650/1‑71 (MQ=255)
|
ATCTTCGATATAAGTGTTATAGACACCGCGCGCCAGCGCCGCTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTCGC > minE/1015643‑1015777
|
| 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
