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 F3 I0 R1
|
328 |
90.1 |
2317887 |
85.2% |
1974839 |
62.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,919,571 |
T→C |
100% |
K42R (AAA→AGA) |
argI ← |
ornithine carbamoyltransferase 1 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,919,571 | 0 | T | C | 77.8%
| 118.8
/ 29.5
| 63 | K42R (AAA→AGA) | argI | ornithine carbamoyltransferase 1 |
| Reads supporting (aligned to +/- strand): ref base T (0/14); new base C (49/0); total (49/14) |
| Fisher's exact test for biased strand distribution p-value = 2.67e-14 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
ATGAGCGCGATGTTTTTACCAGTGAGTTTGGCTTCTTCTTTACCGCTTTTCTTATCGGCTTTCAGCTTCGCGGCTAACTGCAGCAGGC > minE/2919544‑2919631
|
aTGAGCGCGTTGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:360664/1‑41 (MQ=37)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGcttcttctt > 1:1557901/1‑40 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGcttcttctt > 1:66640/1‑40 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGcttcttctt > 1:613931/1‑40 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGcttcttctt > 1:116548/1‑40 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGcttcttctt > 1:527450/1‑40 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGcttcttctt > 1:1212901/1‑40 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGcttcttctt > 1:53665/1‑40 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:2210391/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:2296235/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:2258778/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:2256123/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:2232217/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:454496/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:2117717/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:2111080/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:2080597/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:1013570/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:202405/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:284280/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:388616/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:2025158/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:509899/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:53164/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:565806/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:607752/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:850098/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:962167/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:992119/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:992155/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:1128819/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:1473353/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:139021/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:152758/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:1344682/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:1240503/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:1173056/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:1722757/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:1146203/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:1805614/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:1822033/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:1037778/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:1827288/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:187952/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:19255/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTCTTCttt > 1:1967904/1‑41 (MQ=38)
aTGAGCGCGATGTTTTTGCCAGTGAGTCTGGCTTATTCttt > 1:2132281/1‑41 (MQ=37)
aTGAGCGCGATGTTTTTGCCAGTCAGTCTGGCTTCTTCttt > 1:377754/1‑41 (MQ=37)
aTGAGCGCGATGTTTTTGCCAGTCAGTCTGGCTTCTTCttt > 1:380389/1‑41 (MQ=37)
aGTGAGTTTGGCTTCTTCTTTACCGCTTTTCTTATCGGCTTTCAGCTTCGCGGCTAACTGCAGCAgg < 1:1638785/67‑1 (MQ=255)
aGTGAGTTTGGCTTCTTCTTTACCGCTTTTCTTATCGGCTTTCAGCTTCGCGGCTAACTGCAGCAgg < 1:104568/67‑1 (MQ=255)
gTGAGTTTGGCTTCTTCTTTACCGCTTTTCTTATCGGCTTTCAGCTTCGCGGCTAACTGCAGCAGGc < 1:1988430/67‑1 (MQ=255)
gTGAGTTTGGCTTCTTCTTTACCGCTTTTCTTATCGGCTTTCAGCTTCGCGGCTAACTGCAGCAGGc < 1:1313996/67‑1 (MQ=255)
gTGAGTTTGGCTTCTTCTTTACCGCTTTTCTTATCGGCTTTCAGCTTCGCGGCTAACTGCAGCAGGc < 1:2315487/67‑1 (MQ=255)
gTGAGTTTGGCTTCTTCTTTACCGCTTTTCTTATCGGCTTTCAGCTTCGCGGCTAACTGCAGCAGGc < 1:1223348/67‑1 (MQ=255)
gTGAGTTTGGCTTCTTCTTTACCGCTTTTCTTATCGGCTTTCAGCTTCGCGGCTAACTGCAGCAGGc < 1:1207609/67‑1 (MQ=255)
gTGAGTTTGGCTTCTTCTTTACCGCTTTTCTTATCGGCTTTCAGCTTCGCGGCTAACTGCAGCAGGc < 1:16787/67‑1 (MQ=255)
gTGAGTTTGGCTTCTTCTTTACCGCTTTTCTTATCGGCTTTCAGCTTCGCGGCTAACTGCAGCAGGc < 1:1745997/67‑1 (MQ=255)
gTGAGTTTGGCTTCTTCTTTACCGCTTTTCTTATCGGCTTTCAGCTTCGCGGCTAACTGCAGCAGGc < 1:2234761/67‑1 (MQ=255)
gTGAGTTTGGCTTCTTCTTTACCGCTTTTCTTATCGGCTTTCAGCTTCGCGGCTAACTGCAGCAGGc < 1:915302/67‑1 (MQ=255)
gTGAGTTTGGCTTCTTCTTTACCGCTTTTCTTATCGGCTTTCAGCTTCGCGGCTAACTGCAGCAGGc < 1:1038779/67‑1 (MQ=255)
gTGAGTTTGGCTTCTTCTTTACCGCTTTTCTTATCGGCTTTCAGCTTCGCGGCTAACTGCAGCAGGc < 1:2121788/67‑1 (MQ=255)
gTGAGTTTGGCTTCTTCTTTACCGCTTTTCTTATCGGCTTTCAGCTTCGCGGCTAACTGCAGCAGGc < 1:1027492/67‑1 (MQ=255)
|
ATGAGCGCGATGTTTTTACCAGTGAGTTTGGCTTCTTCTTTACCGCTTTTCTTATCGGCTTTCAGCTTCGCGGCTAACTGCAGCAGGC > minE/2919544‑2919631
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
