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 |
1,015,766 |
A→C |
16.4% |
V101V (GTT→GTG) |
fumA ← |
aerobic Class I fumarate hydratase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,015,766 | 0 | A | C | 16.4%
| 102.1
/ 19.9
| 55 | V101V (GTT→GTG) | fumA | aerobic Class I fumarate hydratase |
| Reads supporting (aligned to +/- strand): ref base A (26/20); new base C (5/4); total (31/24) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.93e-01 |
CGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCGCTGGCC > minE/1015699‑1015835
|
cGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACg > 1:290796/1‑71 (MQ=255)
ggTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGc > 1:3045087/1‑71 (MQ=255)
tCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCt < 1:33834/71‑1 (MQ=255)
tCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCt > 1:1415530/1‑71 (MQ=255)
tCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCt > 1:1480523/1‑71 (MQ=255)
cATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGcc < 1:949855/68‑1 (MQ=255)
aTACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTc < 1:1151863/71‑1 (MQ=255)
aTACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTc > 1:3650727/1‑71 (MQ=255)
tACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCtt < 1:2996289/68‑1 (MQ=255)
acgcGCTGGCCTTTTTTACCGACGATGATCGCGGTGCCGGTATCCTGGCAGGTCGGCAGCACGCCTTTggc > 1:1523251/4‑71 (MQ=255)
acacGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTcgc > 1:599650/1‑71 (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)
ttttttACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTcg > 1:415978/1‑59 (MQ=255)
tttttACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCtt < 1:1053496/55‑1 (MQ=255)
tttttACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTcgccgc > 1:3572142/1‑62 (MQ=255)
ttttACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCGGAg > 1:1662617/1‑71 (MQ=255)
ttttACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCGGAg > 1:3476318/1‑71 (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 > 1:294181/1‑70 (MQ=255)
ccGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCca > 1:2654439/1‑70 (MQ=255)
ccGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCca > 1:3525072/1‑70 (MQ=255)
tATCCTTACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTg < 1:2764797/58‑1 (MQ=255)
aTCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCCACatat > 1:1576625/1‑70 (MQ=255)
gcAGGTCGGCAGCACGCCTTTGGCGGCGATTTCGGAGTTTCTTAAGAATTGCAGCGCCACGTACTTGTcgt < 1:1186741/70‑3 (MQ=255)
aGGTTGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGaa > 1:923204/1‑46 (MQ=255)
aGGTTGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCAtt > 1:1658305/1‑70 (MQ=255)
ttGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCg < 1:476506/71‑1 (MQ=255)
ttGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCg < 1:2832034/71‑1 (MQ=255)
ttGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCg < 1:3139360/71‑1 (MQ=255)
ttGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCg < 1:2836493/71‑1 (MQ=255)
ttGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCg < 1:2719413/71‑1 (MQ=255)
ttGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCg < 1:2065601/71‑1 (MQ=255)
tcggCAGCACGCCTTTGGCGGCGATTTCGGAGTTTCTTAAGAATTGCAGCGCCACGTACTTGTCGTTTTCg < 1:2486585/69‑1 (MQ=255)
tcggCAGCACGCCTTTGGCGGCGATTTCGGAGTTTCTTAAGAATTGCAGCGCCACGTACTTGTCGTTTTCg > 1:1036365/3‑71 (MQ=255)
tGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGaa > 1:3794479/1‑42 (MQ=255)
ggCAGCACGCCTTTGGCGGCGATTTCGGAGTTTCTTAAGAATTGCAGCGCCACGTACTTGTcgt > 1:2607250/1‑62 (MQ=255)
ggCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCGc < 1:1344389/70‑1 (MQ=255)
ggCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCGCt > 1:3631046/1‑71 (MQ=255)
gCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCGCTg > 1:529851/1‑71 (MQ=255)
gAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCGCTGGcc > 1:100230/1‑71 (MQ=255)
aaCGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCAttt < 1:1878438/61‑1 (MQ=255)
|
CGGTCCATACACGCTGCCCTTTTTTACCAACAATAATCGCGGTGCCGGTATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCGCTGGCC > minE/1015699‑1015835
|
| 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
