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 I2 R1
|
52 |
300.6 |
3297834 |
97.8% |
3225281 |
57.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
minE |
1,126,937 |
(A)7→8 |
coding (25/45 nt) |
pheM ← |
phenylalanyl‑tRNA synthetase operon leader peptide |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,126,930 | 1 | . | A | 81.5%
| 73.0
/ 13.5
| 27 | coding (32/45 nt) | pheM | phenylalanyl‑tRNA synthetase operon leader peptide |
| Reads supporting (aligned to +/- strand): ref base . (0/5); new base A (0/22); total (0/27) |
| 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 |
TGTTTTCCGTTTCTCTTCTCACGCGCTAGCCTCCTGGATTCAGGTGCTAAAGT‑A‑AAAAAAGAAGCGGAAAATAGCAGCATTCATTGCTTGCGTTACCTTTT > minE/1126878‑1126978
|
tGTTTTCCGTTTCTCTTCTCACGCGCTAGCCTCCTGGATTCAGGTGCTAAAGT‑A‑AAAAaaga < 1:1110287/62‑1 (MQ=255)
tGTTTTCCGTTTCTCTTCTCACGCGCTAGCCTCCTGGATTCAGGTGCTAAAGT‑A‑AAAAaaga < 1:3075406/62‑1 (MQ=255)
tGTTTTCCGTTTCTCTTCTCACGCGCTAGCCTCCTGGATTCAGGTGCTAAAGT‑A‑AAAAaaga < 1:1870382/62‑1 (MQ=255)
tGTTTTCCGTTTCTCTTCTCACGCGCTAGCCTCCTGGATTCAGGTGCTAAAGT‑A‑AAAAaaga < 1:2585200/62‑1 (MQ=255)
cAGGTGCTAAAGTAA‑AAAAAAGAAGCGGAAAATAGCAGCATTCATTGCTTGCGTTACCtttt < 1:1016843/62‑1 (MQ=255)
cAGGTGCTAAAGTAA‑AAAAAAGAAGCGGAAAATAGCAGCATTCATTGCTTGCGTTACCtttt < 1:849949/62‑1 (MQ=255)
cAGGTGCTAAAGTAA‑AAAAAAGAAGCGGAAAATAGCAGCATTCATTGCTTGCGTTACCtttt < 1:708890/62‑1 (MQ=255)
cAGGTGCTAAAGTAA‑AAAAAAGAAGCGGAAAATAGCAGCATTCATTGCTTGCGTTACCtttt < 1:708833/62‑1 (MQ=255)
cAGGTGCTAAAGTAA‑AAAAAAGAAGCGGAAAATAGCAGCATTCATTGCTTGCGTTACCtttt < 1:345364/62‑1 (MQ=255)
cAGGTGCTAAAGTAA‑AAAAAAGAAGCGGAAAATAGCAGCATTCATTGCTTGCGTTACCtttt < 1:340752/62‑1 (MQ=255)
cAGGTGCTAAAGTAA‑AAAAAAGAAGCGGAAAATAGCAGCATTCATTGCTTGCGTTACCtttt < 1:2941501/62‑1 (MQ=255)
cAGGTGCTAAAGTAA‑AAAAAAGAAGCGGAAAATAGCAGCATTCATTGCTTGCGTTACCtttt < 1:2716523/62‑1 (MQ=255)
cAGGTGCTAAAGTAA‑AAAAAAGAAGCGGAAAATAGCAGCATTCATTGCTTGCGTTACCtttt < 1:2655350/62‑1 (MQ=255)
cAGGTGCTAAAGTAA‑AAAAAAGAAGCGGAAAATAGCAGCATTCATTGCTTGCGTTACCtttt < 1:2638797/62‑1 (MQ=255)
cAGGTGCTAAAGTAA‑AAAAAAGAAGCGGAAAATAGCAGCATTCATTGCTTGCGTTACCtttt < 1:2278889/62‑1 (MQ=255)
cAGGTGCTAAAGTAA‑AAAAAAGAAGCGGAAAATAGCAGCATTCATTGCTTGCGTTACCtttt < 1:2209770/62‑1 (MQ=255)
cAGGTGCTAAAGTAA‑AAAAAAGAAGCGGAAAATAGCAGCATTCATTGCTTGCGTTACCtttt < 1:2056938/62‑1 (MQ=255)
cAGGTGCTAAAGTAA‑AAAAAAGAAGCGGAAAATAGCAGCATTCATTGCTTGCGTTACCtttt < 1:1761522/62‑1 (MQ=255)
cAGGTGCTAAAGTAA‑AAAAAAGAAGCGGAAAATAGCAGCATTCATTGCTTGCGTTACCtttt < 1:1455564/62‑1 (MQ=255)
cAGGTGCTAAAGTAA‑AAAAAAGAAGCGGAAAATAGCAGCATTCATTGCTTGCGTTACCtttt < 1:1445247/62‑1 (MQ=255)
cAGGTGCTAAAGTAA‑AAAAAAGAAGCGGAAAATAGCAGCATTCATTGCTTGCGTTACCtttt < 1:1337218/62‑1 (MQ=255)
cAGGTGCTAAAGTAA‑AAAAAAGAAGCGGAAAATAGCAGCATTCATTGCTTGCGTTACCtttt < 1:1127367/62‑1 (MQ=255)
cAGGTGCTAAAGTAA‑AAAAAAGAAGCGGAAAATAGCAGCATTCATTGCTTGCGTTACCtttt < 1:1109850/62‑1 (MQ=255)
cAGGTGCTAAAGTAA‑AAAAAAGAAGCGGAAAATAGCAGCATTCATTGCTTGCGTTACCtttt < 1:1043227/62‑1 (MQ=255)
cAGGTGCTAAAGTAA‑AAAAAAGAAGCGGAAAATAGCAGCATTCATTGCTTGCGTTACCtttt < 1:100574/62‑1 (MQ=255)
cAGGTGCTAAAGTAA‑AAAAAAGAAGCGGAAAATAGCAGCATTAATTGCTTGCGTTACCtttt < 1:980482/62‑1 (MQ=255)
cAGGTGCTAAAGT‑AGAAAAAAGAAGCGGAAAATAGCAGCATTCATTGCTTGCGTTACCtttt < 1:2875011/62‑1 (MQ=255)
|
TGTTTTCCGTTTCTCTTCTCACGCGCTAGCCTCCTGGATTCAGGTGCTAAAGT‑A‑AAAAAAGAAGCGGAAAATAGCAGCATTCATTGCTTGCGTTACCTTTT > minE/1126878‑1126978
|
| 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
