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 F28 I1 R2
|
90 |
19.5 |
1203533 |
67.3% |
809977 |
57.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
minE |
2,469,157 |
(AGC)3→4 |
coding (139/1383 nt) |
atpD → |
F1 sector of membrane‑bound ATP synthase, beta subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,469,147 | 1 | . | C | 85.7%
| 63.1
/ 4.6
| 21 | coding (129/1383 nt) | atpD | F1 sector of membrane‑bound ATP synthase, beta subunit |
| Reads supporting (aligned to +/- strand): ref base . (0/3); new base C (0/18); total (0/21) |
| 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 |
| * | minE | 2,469,147 | 2 | . | A | 85.7%
| 53.6
/ 5.6
| 21 | coding (129/1383 nt) | atpD | F1 sector of membrane‑bound ATP synthase, beta subunit |
| Reads supporting (aligned to +/- strand): ref base . (0/3); new base A (0/18); total (0/21) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.38e-01 |
| * | minE | 2,469,147 | 3 | . | G | 85.7%
| 60.8
/ 5.0
| 21 | coding (129/1383 nt) | atpD | F1 sector of membrane‑bound ATP synthase, beta subunit |
| Reads supporting (aligned to +/- strand): ref base . (0/3); new base G (0/18); total (0/21) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.84e-01 |
AAATGGTAATGAGCGTCTGGTGCTGGAAGTT‑‑‑CAGCAGCAGCTCGGCGGCGGTATCGTACGTA > minE/2469117‑2469178
|||
aaaTGGTAATGAGCGTCTGGTGCTGGAAGTT‑‑‑CAGCAGCAGCTCGGCGGCGGTATcgtacgta < 1:1203192/62‑1 (MQ=255)
aaaTGGTAATGAGCGTCTGGTGCTGGAAGTT‑‑‑CAGCAGCAGCTCGGCGGCGGTATcgtacgta < 1:1409/62‑1 (MQ=255)
aaTGGTAATGAGCGTCTGGTGCTGGAAGTTCAGCAGCAGCAGCTCGGCGGCGGTATcgtacg < 1:456006/62‑1 (MQ=255)
aaTGGTAATGAGCGTCTGGTGCTGGAAGTTCAGCAGCAGCAGCTCGGCGGCGGTATcgtacg < 1:927133/62‑1 (MQ=255)
aaTGGTAATGAGCGTCTGGTGCTGGAAGTTCAGCAGCAGCAGCTCGGCGGCGGTATcgtacg < 1:788163/62‑1 (MQ=255)
aaTGGTAATGAGCGTCTGGTGCTGGAAGTTCAGCAGCAGCAGCTCGGCGGCGGTATcgtacg < 1:684990/62‑1 (MQ=255)
aaTGGTAATGAGCGTCTGGTGCTGGAAGTTCAGCAGCAGCAGCTCGGCGGCGGTATcgtacg < 1:63509/62‑1 (MQ=255)
aaTGGTAATGAGCGTCTGGTGCTGGAAGTTCAGCAGCAGCAGCTCGGCGGCGGTATcgtacg < 1:617053/62‑1 (MQ=255)
aaTGGTAATGAGCGTCTGGTGCTGGAAGTTCAGCAGCAGCAGCTCGGCGGCGGTATcgtacg < 1:604239/62‑1 (MQ=255)
aaTGGTAATGAGCGTCTGGTGCTGGAAGTTCAGCAGCAGCAGCTCGGCGGCGGTATcgtacg < 1:5336/62‑1 (MQ=255)
aaTGGTAATGAGCGTCTGGTGCTGGAAGTTCAGCAGCAGCAGCTCGGCGGCGGTATcgtacg < 1:496443/62‑1 (MQ=255)
aaTGGTAATGAGCGTCTGGTGCTGGAAGTTCAGCAGCAGCAGCTCGGCGGCGGTATcgtacg < 1:487727/62‑1 (MQ=255)
aaTGGTAATGAGCGTCTGGTGCTGGAAGTTCAGCAGCAGCAGCTCGGCGGCGGTATcgtacg < 1:1003510/62‑1 (MQ=255)
aaTGGTAATGAGCGTCTGGTGCTGGAAGTTCAGCAGCAGCAGCTCGGCGGCGGTATcgtacg < 1:264469/62‑1 (MQ=255)
aaTGGTAATGAGCGTCTGGTGCTGGAAGTTCAGCAGCAGCAGCTCGGCGGCGGTATcgtacg < 1:258709/62‑1 (MQ=255)
aaTGGTAATGAGCGTCTGGTGCTGGAAGTTCAGCAGCAGCAGCTCGGCGGCGGTATcgtacg < 1:206739/62‑1 (MQ=255)
aaTGGTAATGAGCGTCTGGTGCTGGAAGTTCAGCAGCAGCAGCTCGGCGGCGGTATcgtacg < 1:19810/62‑1 (MQ=255)
aaTGGTAATGAGCGTCTGGTGCTGGAAGTTCAGCAGCAGCAGCTCGGCGGCGGTATcgtacg < 1:1169906/62‑1 (MQ=255)
aaTGGTAATGAGCGTCTGGTGCTGGAAGTTCAGCAGCAGCAGCTCGGCGGCGGTATcgtacg < 1:1077677/62‑1 (MQ=255)
aaTGGTAATGAGCGTCTGGTGCTGGAAGTTCAGCAGCAGCAGCTCGGCGGCGGTATcgtacg < 1:1013035/62‑1 (MQ=255)
aaTGGTAATGAGCGTCTGGTGCTGGAAGTT‑‑‑CAGCAGCAGCTCGGCGGCGGTATcgtacgta < 1:689128/61‑1 (MQ=255)
|||
AAATGGTAATGAGCGTCTGGTGCTGGAAGTT‑‑‑CAGCAGCAGCTCGGCGGCGGTATCGTACGTA > minE/2469117‑2469178
|
| 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
