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 |
1,015,754 |
A→G |
12.9% |
C105C (TGT→TGC) |
fumA ← |
aerobic Class I fumarate hydratase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,015,754 | 0 | A | G | 12.9%
| 135.4
/ 10.8
| 54 | C105C (TGT→TGC) | fumA | aerobic Class I fumarate hydratase |
| Reads supporting (aligned to +/- strand): ref base A (25/22); new base G (4/3); total (29/25) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCCACATAT > minE/1015684‑1015817
|
cTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGa > 1:2896941/1‑71 (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)
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 > 1:1480523/1‑71 (MQ=255)
tCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCt > 1:1415530/1‑71 (MQ=255)
tCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCt < 1:33834/71‑1 (MQ=255)
cATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGcc < 1:949855/68‑1 (MQ=255)
aaTACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCa > 1:3489735/2‑61 (MQ=255)
aTACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTc > 1:3650727/1‑71 (MQ=255)
aTACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTc < 1:1151863/71‑1 (MQ=255)
tACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGa < 1:2229768/49‑1 (MQ=255)
tACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAg < 1:921888/60‑1 (MQ=255)
tACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCtt < 1:2996289/68‑1 (MQ=255)
acgcGCTGGCCTTTTTTACCGACGATGATCGCGGTGCCGGTATCCTGGCAGGTCGGCAGCACGCCTTTggc > 1:1523251/4‑71 (MQ=255)
acacGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGtt < 1:2033882/54‑1 (MQ=255)
acacGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTcgc > 1:599650/1‑71 (MQ=255)
gcGCTGGCCTTTTTTACCGACGATGATCGCGGTGCCGGTATCCTGGCAg < 1:3920308/48‑1 (MQ=25)
gCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACa < 1:3428337/46‑1 (MQ=255)
gCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACa < 1:568705/46‑1 (MQ=255)
ggccTTTTTTACCGACGATAATCGCGGTGCCGGTATCCTGGCAGGTCGGCAGCAc > 1:2483132/3‑55 (MQ=255)
gCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTCGCAGAACGcc > 1:2014258/1‑58 (MQ=255)
cccTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATg < 1:2857399/70‑1 (MQ=255)
cTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATg < 1:2847556/68‑1 (MQ=255)
cTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCg > 1:1683019/1‑71 (MQ=255)
ttttttACCAACAATAATCGCGGTGCCGGTATCCTGACAg < 1:3453674/40‑1 (MQ=255)
ttttttACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTcg > 1:415978/1‑59 (MQ=255)
tttttACCAACAATAATCGCGGTGCCGGTATCCTGACAg < 1:3451798/39‑1 (MQ=255)
tttttACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCtt < 1:1053496/55‑1 (MQ=255)
tttttACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTcgccgc > 1:3572142/1‑62 (MQ=255)
ttttACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCGGAg > 1:3476318/1‑71 (MQ=255)
ttttACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCGGAg > 1:1662617/1‑71 (MQ=255)
tttACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCGGAGt > 1:3416392/1‑71 (MQ=255)
ttACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCGGAGt < 1:1854993/70‑1 (MQ=255)
tACCGACGATGATCGCGGTGCCGGTATCCTGGCAGGTCGGCAGCACGCCTTTGGCGGCGATTTCGGAGtt < 1:2008371/70‑1 (MQ=255)
tACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCgg < 1:1229421/66‑1 (MQ=255)
taatCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAAt > 1:3900731/1‑71 (MQ=255)
atCGCGGTGCCGGTATCCTGGCAGGTCGGCAGCACGCCTTTGGCGGCGATTTCGGAGTTTCTTAAGAATTg > 1:3847882/1‑71 (MQ=255)
tCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTa > 1:2662165/1‑59 (MQ=255)
cgcgGTGCCGGTATCCTGACAGGTTGGCAGAACGCCt < 1:2241640/37‑1 (MQ=255)
cgcgGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCGGAg < 1:1979499/55‑1 (MQ=255)
gcgGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTg > 1:79115/1‑68 (MQ=255)
gcgGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCa < 1:361761/70‑1 (MQ=255)
ggTGCCGGTATCCTGGCAGGTCGGCAGCACGCCTTTGGCGGCGATTTCGGAGTTTCTTAAGAATTGCAgcg < 1:800964/71‑1 (MQ=255)
ccGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCca > 1:3525072/1‑70 (MQ=255)
ccGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCca > 1:294181/1‑70 (MQ=255)
ccGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCca > 1:2654439/1‑70 (MQ=255)
tATCCTTACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTg < 1:2764797/58‑1 (MQ=255)
aTCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCCACatat > 1:1576625/1‑70 (MQ=255)
|
CTTCATCACCACCACCGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCCACATAT > minE/1015684‑1015817
|
| 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
