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 |
1,015,814 |
A→G |
21.0% |
Y85Y (TAT→TAC) |
fumA ← |
aerobic Class I fumarate hydratase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,015,814 | 0 | A | G | 21.0%
| 112.2
/ 25.8
| 57 | Y85Y (TAT→TAC) | fumA | aerobic Class I fumarate hydratase |
| Reads supporting (aligned to +/- strand): ref base A (14/31); new base G (7/5); total (21/36) |
| Fisher's exact test for biased strand distribution p-value = 1.02e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.85e-01 |
ATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCGCTGGCCTCCGGGTCACGCAGAATGTCGGCCACCTGTTGTTGGTGCGCCGGACGCA > minE/1015748‑1015884
|
aTCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCCACatat > 1:1576625/1‑70 (MQ=255)
gcAGGTCGGCAGCACGCCTTTGGCGGCGATTTCGGAGTTTCTTAAGAATTGCAGCGCCACGTACTTGTcgt < 1:1186741/70‑3 (MQ=255)
aGGTTGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCAtt > 1:1658305/1‑70 (MQ=255)
ttGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCg < 1:2719413/71‑1 (MQ=255)
ttGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCg < 1:2832034/71‑1 (MQ=255)
ttGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCg < 1:2836493/71‑1 (MQ=255)
ttGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCg < 1:2065601/71‑1 (MQ=255)
ttGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCg < 1:3139360/71‑1 (MQ=255)
ttGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCg < 1:476506/71‑1 (MQ=255)
tcggCAGCACGCCTTTGGCGGCGATTTCGGAGTTTCTTAAGAATTGCAGCGCCACGTACTTGTCGTTTTCg < 1:2486585/69‑1 (MQ=255)
tcggCAGCACGCCTTTGGCGGCGATTTCGGAGTTTCTTAAGAATTGCAGCGCCACGTACTTGTCGTTTTCg > 1:1036365/3‑71 (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)
caCGCCTTTGGCGGCGATTTCGGAGTTTCTTAAGAATTGCAGCGCCACGTACTTGTCGTTTTCGCTGGct > 1:2195216/2‑69 (MQ=255)
aaCGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCAttt < 1:1878438/61‑1 (MQ=255)
gCCTTTGGCGGCGATTTCGGAGTTTCTTAAGAATTGCAGCGCCACGTACTTGTCGTTTTCGCTGGCTTctg > 1:3846492/1‑69 (MQ=255)
gCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCGCTGGCCTCCg < 1:1622153/71‑1 (MQ=255)
ccTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCGCTGGCCTCCgg < 1:3641654/71‑1 (MQ=255)
ccTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCGCTGGCCTCCgg < 1:2916760/71‑1 (MQ=255)
cTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCg < 1:2452771/59‑1 (MQ=255)
tttCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCGCTGGCCTCCGGGt > 1:821981/1‑71 (MQ=255)
tCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCGCTg > 1:586505/1‑59 (MQ=255)
cgccgcGATGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCGc > 1:945173/1‑56 (MQ=255)
cgcgATTTCGGAGTTTCTTAAGAATTGCAGCGCCACGAACTTGTCGTTTTCGCTGGCTTCTGGATcgtg > 1:1904568/1‑66 (MQ=255)
gcgATTTCGGAGTTTCTTAAGAATTGCAGCGCCACGTACTTGTCGTTTTCGCTGGCTTCTGGATcgtg > 1:50103/1‑65 (MQ=255)
gcgATGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCGCTGGCCTCCGGGTCACGCAg < 1:1130330/71‑1 (MQ=255)
gcgATGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCGCTGGCCTCCGGGTCACGCAg < 1:284531/71‑1 (MQ=255)
cgATGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCGCTGGCCTCCGGGTCACGCAGa < 1:1570174/71‑1 (MQ=255)
cgATGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCGCTGGCCTCCGGGTCACGCAGa < 1:2946017/71‑1 (MQ=255)
aTGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCGCTGGCCTCCGGGTCACGCAGAAt < 1:428186/71‑1 (MQ=255)
tGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCGCTGGCCTCCggg > 1:340474/1‑59 (MQ=255)
gTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCGc < 1:1947523/47‑1 (MQ=255)
gTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCGCTGGCCTc < 1:2011663/54‑1 (MQ=255)
gAGTTACGCATGAATTGCAGCGCCACATATTTATCATTTTCGCTGGCCTCCGGGTCACGCAGAATGTCGGc < 1:579382/71‑1 (MQ=255)
gAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCGCTGGCCTCCGGGTCACGCAGAATGTCg > 1:112155/1‑69 (MQ=255)
gAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCGCTGGCCTCCGGGTCACGCAGAATGTCGGc < 1:2280586/71‑1 (MQ=255)
gAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCGCTGGCCTCCGGGTCACGCAGAATGTCGGc > 1:2103028/1‑71 (MQ=255)
gTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCGCTGGCCTCCGGGTCACGCAGAATGTCGGCCa > 1:50623/1‑71 (MQ=255)
ttACGCAGGAATTGCAGCGCCACATATTTATCATTTTCGCTGGCCTACGGGTCACGCAGAATGTCGGCCAc < 1:1390487/71‑1 (MQ=255)
cGCAGGAATTGCAGCGCCACATATTTATCATTTTCGCTGGCCTCCGGGTCACGCAGAATGTCGGCCACCtg < 1:1286828/71‑1 (MQ=255)
cAGGAATTGCAGCGCCACATATTTATCATTTTCGCTGGCCTCCGGGTCACGCAGAATGTCGGCCACCtgtt < 1:2228343/71‑1 (MQ=255)
cAGGAATTGCAGCGCCACATATTTATCATTTTCGCTGGCCTCCAGGTCACGCAGAATGTCGGCCAcc < 1:2561581/67‑1 (MQ=255)
ggAATTGCAGCGCCACATATTTATCATTTTCGCTGGCCTCCGGGTCACGCAGAATGTCGGcc < 1:196257/62‑1 (MQ=255)
ggAATTGCAGCGCCACATATTTATCATTTTCGCTGGCCTCCGGGTCACGCAGAATGTCGGCCACCtgttgt < 1:3369008/71‑1 (MQ=255)
gAATTGCAGCGCCACGTACTTGTCGTTTTCGCTGGCTTCTGGATCGTGAAGAATAGCCGCAACCtgtttct < 1:1757065/71‑4 (MQ=255)
aaTTGCAGCGCCACATATTTATCATTTTCGCTGGCCTCCGGGTCACGCAGAATGTCGGCCACCtgttg < 1:477566/68‑1 (MQ=255)
aaTTGCAGCGCCACATATTTATCATTTTCGCTGGCCTCCGGGTCACGCAGAATGTCGGCCACCTGttgttg < 1:277602/71‑1 (MQ=255)
ttGCAGCGCCACGTACTTGTCGTTTTCGCTGGCTTCTgga < 1:2691527/40‑2 (MQ=12)
ttGCAGCGCCACGTACTTGTCGTTTTCGCTGGCTTCTGGATCGTGAAGAATAGCCGCAACCTGTTTCTGGt < 1:1844678/71‑1 (MQ=255)
ttGCAGCGCCACGTACTTGTCGTTTTCGCTGGCTTCTGGATCGTGAAGAATAGCCGCAACCTGTTTCTGGt > 1:578541/1‑71 (MQ=255)
ttGCAGCGCCACATATTTATCATTTTCGCTGGCCTCCGGGTCACGCAGAATGTCGGCCACCtgttgt > 1:1546073/1‑67 (MQ=255)
gCAGCGCCACATATTTATCATTTTCGCTGGCCTCCgg > 1:1952346/1‑37 (MQ=255)
cAGCGCCACATATTTATCATTTTCGCTGGCCTCCGGGTCACGCAGAATGTCGGCCACCTGTTGTTGGTgcg < 1:3243852/71‑1 (MQ=255)
cAGCGCCACATATTTATCATTTTCGCTGGCCTCCGGGTCACGCAGAATGTCGGCCACCTGTTGTTGGTgcg < 1:246284/71‑1 (MQ=255)
gcgcCACATATTTATCATTTTCGCTGGCCTCCGGGTCACGCAGAATGTCGGCCACCTGTTGTTGGTgcgcg > 1:3648842/1‑70 (MQ=255)
cacaTATTTATCATTTTCGCTGGCCTCGGGGTCACGCAGAATGTCGGCCACCTGTTGTTGGTGCGCCGGAc > 1:3078885/1‑71 (MQ=255)
acaTATTTATCATTTTCGCTGGCCTCCGGGTCACGCAGAATGTCGGCCACCTGTTGTTGGTGCGCCGGACg > 1:3829596/1‑71 (MQ=255)
atatTTATCATTTTCGCTGGCCTCCGGGTCACGCAGAATGTCGGCCACCTGTTGTTGGTGCGCCGGACgca < 1:2138846/71‑1 (MQ=255)
|
ATCCTGACAGGTTGGCAGAACGCCTTTCGCCGCGATGTCGGAGTTACGCAGGAATTGCAGCGCCACATATTTATCATTTTCGCTGGCCTCCGGGTCACGCAGAATGTCGGCCACCTGTTGTTGGTGCGCCGGACGCA > minE/1015748‑1015884
|
| 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
