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 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,730,046 |
C→T |
36.0% |
T177T (ACG→ACA) |
tadA ← |
tRNA‑specific adenosine deaminase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,730,046 | 0 | C | T | 36.0%
| 44.7
/ 38.6
| 70 | T177T (ACG→ACA) | tadA | tRNA‑specific adenosine deaminase |
| Reads supporting (aligned to +/- strand): ref base C (11/33); new base T (16/9); total (28/42) |
| Fisher's exact test for biased strand distribution p-value = 2.08e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-01 |
TGACCCATTCTCCCTCTCTGCTGTTTTCCAGGAAAGGGAGTGAAGAGAAACAAAATTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGGCGGCGCATGCGAAAGAAGT > minE/1729985‑1730104
|
tGACCCATTCTCCCTCTCTGCTGTTTTCCAGGAAAGGGAGTGAAGAGAAACAAAATTAATCCGTCGAg < 1:900039/68‑1 (MQ=255)
tGACCCATTCTCCCTCTCTGCTGTTTTCCAGGAAAGGGAGTGAAGAGAAACAAAATTAATCCGTCGAg < 1:841922/68‑1 (MQ=255)
tGACCCATTCTCCCTCTCTGCTGTTTTCCAGGAAAGGGAGTGAAGAGAAACAAAATTAATCCGTCGAg < 1:537641/68‑1 (MQ=255)
tGACCCATTCTCCCTCTCTGCTGTTTTCCAGGAAAGGGAGTGAAGAGAAACAAAATTAATCCGTCGAg < 1:1678125/68‑1 (MQ=255)
tGACCCATTCTCCCTCTCTGCTGTTTTCCAGGAAAGGGAGTGAAGAGAAACAAAATTAATCCGTCGAg < 1:2729991/68‑1 (MQ=255)
tctGCTGTTTTCCAGGAAAGGGAGTGAAGAGAAACAAAATTAATCCGTCGAGGATTGCGCTTTTTTCTg > 1:3336022/1‑69 (MQ=255)
tctGCTGTTTTCCAGGAAAGGGAGTGAAGAGAAACAAAATTAATCCGTCGAGGATTGCGCTTTTTTCTg > 1:1811530/1‑69 (MQ=255)
ctgTTTTCCAGAAAAGGGAGTGAAGAGAAACAAAATTAATCTGTc < 1:3153489/45‑1 (MQ=38)
ctgTTTTCCAGAAAAGGGAGTGAAGAGAAACAAAATTAATCTGTc < 1:211994/45‑1 (MQ=38)
ctgTTTTCCAGAAAAGGGAGTGAAGAGAAACAAAATTAATCTGTc < 1:2253356/45‑1 (MQ=38)
ctgTTTTCCAGAAAAGGGAGTGAAGAGAAACAAAATTAATCTGTc < 1:1930744/45‑1 (MQ=38)
ctgTTTTCCAGAAAAGGGAGTGAAGAGAAACAAAATTAATCTGTc < 1:670330/45‑1 (MQ=38)
ctgTTTTCCAGAAAAGGGAGTGAAGAGAAACAAAATTAATCTGTc < 1:699510/45‑1 (MQ=38)
ctgTTTTCCAGAAAAGGGAGTGAAGAGAAACAAAATTAATCTGTc < 1:857474/45‑1 (MQ=38)
ctgTTTTCCAGAAAAGGGAGTGAAGAGAAACAAAATTAATCTGTc < 1:980540/45‑1 (MQ=38)
ctgTTTTCCAGAAAAGGGAGTGAAGAGAAACAAAATTAATCTGTc < 1:1051654/45‑1 (MQ=38)
gTTTTCCAGGAAAGGGAGTGAAGAGAAACAAAATTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCttt < 1:2679933/69‑1 (MQ=255)
ttCCAGGAAAGGGAGTGAAGAGAAACAAAATTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCttt < 1:261681/66‑1 (MQ=255)
ttCCAGGAAAGGGAGTGAAGAGAAACAAAATTAATCAGTCGAGGATTGCGCTTTTTTCTGCGCTTTAAt > 1:2436451/1‑69 (MQ=255)
ccAGGAAAGGGAGTGAAGAGAAACAAAATTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAAtt < 1:3232396/68‑1 (MQ=255)
ccAGGAAAGGGAGTGAAGAGAAACAAAATTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAAtt < 1:2832756/68‑1 (MQ=255)
ccAGGAAAGGGAGTGAAGAGAAACAAAATTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAAtt < 1:1025617/68‑1 (MQ=255)
ccAGGAAAGGGAGTGAAGAGAAACAAAATTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAAtt < 1:3342482/68‑1 (MQ=255)
gAGTGAAGAGAAACAAAATTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGgcggcg < 1:39728/69‑1 (MQ=255)
gAGTGAAGAGAAACAAAATTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGgcggcg < 1:2414909/69‑1 (MQ=255)
gAGTGAAGAGAAACAAAATTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGgcggcg < 1:462008/69‑1 (MQ=255)
gAGTGAAGAGAAACAAAATTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGgcggcg < 1:2455229/69‑1 (MQ=255)
gAGTGAAGAGAAACAAAATTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGgcggcg < 1:506663/69‑1 (MQ=255)
gAGTGAAGAGAAACAAAATTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGgcggcg < 1:606085/69‑1 (MQ=255)
gAGTGAAGAGAAACAAAATTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGgcggcg < 1:1647907/69‑1 (MQ=255)
gAGTGAAGAGAAACAAAATTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGgcggcg < 1:2737661/69‑1 (MQ=255)
gAGTGAAGAGAAACAAAATTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGgcggcg < 1:70005/69‑1 (MQ=255)
gAGTGAAGAGAAACAAAATTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGgcggcg > 1:320792/1‑69 (MQ=255)
aGTGAAGAGAAACAAAATTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAAtt < 1:456379/57‑1 (MQ=255)
gTGAAGAGAAACAAAATTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGgcggcg > 1:3302745/1‑67 (MQ=255)
gTGAAGAGAAACAAAATTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGgcggcg > 1:650743/1‑67 (MQ=255)
gTGAAGAGAAACAAAATTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGgcggcg > 1:2884853/1‑67 (MQ=255)
gTGAAGAGAAACAAAATTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGgcggcg > 1:1264884/1‑67 (MQ=255)
gagaAACAAAATTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGGCGGCGCATGCg < 1:1051742/68‑1 (MQ=255)
gagaAACAAAATTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGGCGGCGCATGCg < 1:2651953/68‑1 (MQ=255)
agaAACAAAATTAATCTGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGGCGGCGCATGc > 1:514009/1‑66 (MQ=255)
agaAACAAAATTAATCTGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGGCGGCGCATGc > 1:998077/1‑66 (MQ=255)
agaAACAAAATTAATCTGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGGCGGCGCATGc > 1:951599/1‑66 (MQ=255)
agaAACAAAATTAATCTGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGGCGGCGCATGc > 1:1224532/1‑66 (MQ=255)
agaAACAAAATTAATCTGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGGCGGCGCATGc > 1:722956/1‑66 (MQ=255)
agaAACAAAATTAATCTGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGGCGGCGCATGc > 1:12949/1‑66 (MQ=255)
agaAACAAAATTAATCTGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGGCGGCGCATGc > 1:1692346/1‑66 (MQ=255)
agaAACAAAATTAATCTGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGGCGGCGCATGc > 1:524817/1‑66 (MQ=255)
agaAACAAAATTAATCTGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGGCGGCGCATGc > 1:3074446/1‑66 (MQ=255)
agaAACAAAATTAATCTGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGGCGGCGCATGc > 1:1777042/1‑66 (MQ=255)
agaAACAAAATTAATCTGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGGCGGCGCATGc > 1:471490/1‑66 (MQ=255)
agaAACAAAATTAATCTGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGGCGGCGCATGc > 1:1955336/1‑66 (MQ=255)
agaAACAAAATTAATCTGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGGCGGCGCATGc > 1:1015563/1‑66 (MQ=255)
agaAACAAAATTAATCTGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGGCGGCGCATGc > 1:3402374/1‑66 (MQ=255)
agaAACAAAATTAATCTGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGGCGGCGCATGc > 1:2274894/1‑66 (MQ=255)
agaAACAAAATTAATCTGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGGCGGCGCATGCGa > 1:1938/1‑68 (MQ=255)
gaAACAAAATTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGGCGGCGCATGCGaa > 1:2006972/1‑68 (MQ=255)
gaAACAAAATTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGGCGGCGCATGCGaa > 1:534882/1‑68 (MQ=255)
gaAACAAAATTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGGCGGCGCATGCGaa > 1:2083496/1‑68 (MQ=255)
gaAACAAAATTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGGCGGCGCATGCGa > 1:3397006/1‑67 (MQ=255)
aaaaTTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGGCGGCGCATGCGAATGAAGt < 1:1392962/69‑1 (MQ=255)
aaaaTTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGGCGGCGCATGCGAAAGGAGt < 1:1731192/69‑1 (MQ=255)
aaaaTTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGGCGGCGCATGCGAAAGAAGt < 1:1501227/69‑1 (MQ=255)
aaaaTTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGGCGGCGCATGCGAAAGAAGt < 1:322766/69‑1 (MQ=255)
aaaaTTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGGCGGCGCATGCGAAAGAAGt < 1:1090311/69‑1 (MQ=255)
aaaaTTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGGCGGCGCATGCGAAAGAAGt < 1:2636531/69‑1 (MQ=255)
aaaaTTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGGCGGCGCATGCGAAAGAAGt < 1:1643687/69‑1 (MQ=255)
aaaaTTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGGCGGCGCATGCGAAAGAAGt < 1:613094/69‑1 (MQ=255)
aaaaTTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGGCGGCGCATGCGAAAGAAGt < 1:3415783/69‑1 (MQ=255)
aaaTTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGGCGGCGCATGCGAAAGAAGt < 1:3192883/68‑1 (MQ=255)
|
TGACCCATTCTCCCTCTCTGCTGTTTTCCAGGAAAGGGAGTGAAGAGAAACAAAATTAATCCGTCGAGGATTGCGCTTTTTTCTGCGCTTTAATTTCCTGGCGGCGCATGCGAAAGAAGT > minE/1729985‑1730104
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
