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 |
|
A1 F3 I0 R1
|
560 |
56.4 |
4650532 |
94.9% |
4413354 |
59.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,053,087 |
T→A |
15.9% |
Y137F (TAT→TTT) |
pepP ← |
proline aminopeptidase P II |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,053,087 | 0 | T | A | 15.9%
| 106.5
/ 13.9
| 44 | Y137F (TAT→TTT) | pepP | proline aminopeptidase P II |
| Reads supporting (aligned to +/- strand): ref base T (20/17); new base A (5/2); total (25/19) |
| Fisher's exact test for biased strand distribution p-value = 6.80e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGCGGTGAGATTTTGCCGCGAACCTTTACGCAGTTTTTCCAGCGCACTGTTCACGATTACATCAGCATATGCATATTCGCCCTGGGCATGGTAAACCACATCCAGGCCGTTAAGTAGTTGATAAAGTTGCTGATTG > W3110S.gb/3053020‑3053155
|
tgcggtgAGATTTTGCCGCGAACCTTTACGCAGTTTTTCCAGCGCACTGTTCACGATTACATCAgcatatg < 1:648281/71‑1 (MQ=255)
tgcggtgAGATTTTGCCGCGAACCTTTACGCAGTTTTTCCAGCGCACTGTTCACGATTACATCAgcatatg < 1:339613/71‑1 (MQ=255)
gcggtgAGATTTTGCCGCGAACCTTTACGCAGTTTTTCCAGCGCACTGTTCACGATTACATCAgcatatg > 1:3608201/1‑70 (MQ=255)
gcggtgAGATTTTGCCGCGAAACTTTACGCAGTTTTTCCAGCGCACTGTTCACGATTACATCAgcatatg > 1:1687020/1‑70 (MQ=255)
cggtgAGATTTTGCCGCGAACCTTTACGCAGTTTTTCCAGCGCACTGTTCACGATTACATCAgcatatg > 1:3391320/1‑69 (MQ=255)
gtgAGATTTTGCCGCGAACCTTTACGCAGTTTTTCCAGTGCACTGTTCACGATTACATCAgcatatgcata < 1:3774349/71‑1 (MQ=255)
gagaTTTTGCCGCGAACCTTTACGCAGTTTTTCCAGCGCACTGTTCACGATTACATCAGCATATGCATAtt > 1:974043/1‑71 (MQ=255)
gagaTTTTGCCGCGAACCTTTACGCAGTTTTTCCAGCGCACTGTTCACGATTACATCAGCAAATGCATAtt > 1:1125616/1‑71 (MQ=255)
gagaTTTTGCCGCGAACCTTTACGCAGTTTTTCCAGCGCACTGTTCACGATTACATCAGCAAATGCATAtt > 1:3321427/1‑71 (MQ=255)
agaTTTTGCCGCGAACCTTTACGCAGTTTTTCCAGCGCACTGTTCACGATTACATCAGCATATGCATATTc > 1:1583754/1‑71 (MQ=255)
ttGCCGCGAACCTTTACGCAGTTTTTCCAGCGCCCTGTTCACGATTACATCAGCATATGCATATTCGCCCt > 1:4385350/1‑71 (MQ=255)
gCCGCGAACCTTTACGCAGTTTTTCCAGCGCACTGTTCACGATTACATCAgcatatgcata < 1:4159911/61‑1 (MQ=255)
gCCGCGAACCTTTACGCAGTTTTTCCAGCGCACTGTTCACGATTACATCAgcatatgcata < 1:372857/61‑1 (MQ=255)
ccGCGAACCTTTACGCAGTTTTTCCAGCGCACTGTTCACGATTACATCAGCATATGCATATTCGCCCTggg < 1:555483/71‑1 (MQ=255)
ccGCGAACCTTTACGCAGTTTTTCCAGCGCACTGTTCACGATTACATCAGCATATGCATATTCGCCCTggg < 1:1437428/71‑1 (MQ=255)
cgcgAACCTTTACGCAGTTTTTCCAGCGCACTGTTCACGATTACATCAGCATATGCATAtt > 1:1702330/1‑61 (MQ=255)
gcgAACCTTTACGCAGTTTTTCCAGCGCACTGTTCACGATTACATCAGCATATGCATATTCGCCCTGGGCa < 1:363029/71‑1 (MQ=255)
gcgAACCTTTACGCAGTTTTTCCAGCGCACTGTTCACGATTACATCAGCATATGCATATTCGCCCTGGGCa < 1:3626338/71‑1 (MQ=255)
gcgAACCTTTACGCAGTTTTTCCAGCGCACTGTTCACGATTACATCAGCATATGCATATTCGCCCTGGGCa < 1:3620865/71‑1 (MQ=255)
cgAACCTTTACGCAGTTTTTCCAGCGCACTGTTCACGATTACATCAGCATATGCATATTCGCCCTGGGCAt < 1:3178368/71‑1 (MQ=255)
aaCCTTTACGCAGTTTTTCCAGCGCACTGTTCACGATTACATCAGCATATGCATATTCGCCCTg > 1:4052118/1‑64 (MQ=255)
aaCCTTTACGCAGTTTTTCCAGCGCACTGTTCACGATTACATCAGCATATGCATATTCGCCCTg > 1:2869085/1‑64 (MQ=255)
ccTTTACGCAGTTTTTCCAGCGCACTGTTCACGATTACATCAGCATATGCATATTCGCCCTGGGCATGGt > 1:1734596/1‑70 (MQ=255)
tttACGCAGTTTTTCCAGCGCACTGTTCACGATTACATCAGCATATGCATATTCGCCCTGGGCATGGTaaa > 1:3969297/1‑71 (MQ=255)
ttACGCAGTTTTTCCAGCGCACTGTTCACGATTACATCAgcatatgcatataa > 1:1039785/1‑51 (MQ=255)
ttACGCAGTTTTTCCAGCGCACTGTTCACGATTACATCAgcata > 1:2737221/1‑44 (MQ=255)
ttACGCAGTTTTTCCAGCGCACTGTTCACGATTACATCAgcata > 1:265313/1‑44 (MQ=255)
gTTTTTCCAGCGCACTGTTCACGATTACATCAGCATATGCATATTCGCCCTGGGCATGGTAAACCACATcc < 1:1295966/71‑1 (MQ=255)
gTTTTTCCAGCGCACTGTTCACGATTACATCAGCATATGCATATTCGCCCTGGGCATGGTAAACCACATcc < 1:1425400/71‑1 (MQ=255)
tttttCCAGCGCACTGTTCACGATTACATCAGCATATGCATATTCGcc < 1:418464/48‑1 (MQ=255)
ttttCCAGCGCACTGTTCACGATTACATCAGCATATGCATAtt > 1:478437/1‑43 (MQ=255)
ttttCCAGCGCACTGTTCACGATTACATCAGCAAATGCATATTCGCCCTGGGCATgg > 1:4283628/1‑57 (MQ=255)
tttCCAGCGCACTGTTCACGATTACATCAgcatatgcata < 1:3390546/40‑1 (MQ=255)
tttCCAGCGCACTGCTCACGATTACATCAgcatat > 1:1913771/1‑35 (MQ=255)
ttCCAGCGCACTGTTCACGATTACATCAGCATATGCATATTCGCCCTGGGCATGGTAAACCACATCCAGGc > 1:4551421/1‑71 (MQ=255)
tCCAGCGCACTGTTCACGATTACATCAGCAAATGCATATTCGCCCTGGGCATGGTAAACCACATCCAGGcc > 1:534642/1‑71 (MQ=255)
gcACTGTTCACGATTACATCAGCATATGCATATTCGCCCTGGGCa > 1:2707233/1‑45 (MQ=255)
gcACTGTTCACGATTACATCAGCATATGCATATTCGCCCTGGGCa > 1:2632394/1‑45 (MQ=255)
gcACTGTTCACGATTACATCAGCATATGCATATTCGCCCTGGGCa > 1:3956584/1‑45 (MQ=255)
cACTGTTCACGATTACATCAGCAAATGCATATTCg < 1:1025665/35‑1 (MQ=255)
aCTGTTCACGATTACATCAGCATATGCATATTCGCCCTGGGCATGGTAAACCACATCCAGGCCGTTAagta < 1:1329319/71‑1 (MQ=255)
cTGTTCACGATTACATCAGCAAATGCATATTCGCCCTGGGCATGGTAAACCACATCCAGGCCGTTAagtag < 1:3058667/71‑1 (MQ=255)
tGTTCACGATTACATCAGCATATGCATATTCGCCCTGGGCATGGTAAACCACATCCAGGCCGTTaa < 1:947230/66‑1 (MQ=255)
tGTTCACGATTACATCAGCATATGCATATTCGCCCTGGGCATGGTAAACCACATCCAGGCCGTTAag < 1:3722568/67‑1 (MQ=255)
gTTCACGATTACATCAGCATATGCATATTCGCCCTgg > 1:3453347/1‑37 (MQ=255)
gTTCACGATTACATCAGCATATGCATATTCGCCCTGGGCATGGTAAACcac > 1:1401480/1‑51 (MQ=255)
gTTCACGATTACATCAGCATATGCATATTCGCCCTGGGCATGGTAAACcac > 1:2436232/1‑51 (MQ=255)
gTTCACGATTACATCAGCATATGCATATTCGCCCTGGGCATGGTAAACcac > 1:1871224/1‑51 (MQ=255)
ttCACGATTACATCAGCAAATGCATATTCGCCCTGGGCATGGTAAACCACATc > 1:1093529/1‑53 (MQ=255)
cACGATTACATCAGCATATGCATATTCGCCCTGGGCATGGTAAACCACATCCAGGCCGTTAAGTAGTTGa > 1:3405693/1‑70 (MQ=255)
aCGATTACATCAGCATATGCATATTCGCCCTGGGCATGGTAAACCACATCCAGGCCGTTAAGTAGTTGa > 1:3930616/1‑69 (MQ=255)
cGATTACATCAGCATATGCATATTCGCCCTGGGCATGGTAAACCACATCCAGGCCGTTAAGTAGTTGATaa < 1:2021065/71‑1 (MQ=255)
cGATTACATCAGCATATGCATATTCGCCCTGGGCATGGTAAACCACATCCAGGCCGTTAAGTAGTTGATaa < 1:3350181/71‑1 (MQ=255)
tACATCAGCATATGCATATTCGCCCTGGGCATGGTAAACCACATCCAGGCCGTTAAGTAGTTGATAAAGtt > 1:2000718/1‑71 (MQ=255)
cATCAGCATATGCATATTCGCCCTGGGCATGGTAAACCACATCCAGGCCGTTAAGTAGTTGATAAAGTTg < 1:816415/70‑1 (MQ=255)
tCAGCATATGCATATTCGCCCTGGGCATGGTAAACCACATCCAGGCCGTTAAGTAGTTGATAAAGTTGCt < 1:216673/70‑1 (MQ=255)
aGCATATGCATATTCGCCCTGGGCATGGTAAACCACATCCAGGCCGTTAAGTAGTTGATAAAGTTGCtgat < 1:2055908/71‑1 (MQ=255)
gcatatgcatatTCGCCCTGGGCATGGTAAACCACATCCAGGCCGTTAAGTAGTTGATAAAGTTGCtgatt < 1:3833810/71‑1 (MQ=255)
gcaaatgcatatTCGCCCTGGGCATGGTAAACCACATCCAGGCCGTTAAGTAGTTGATAAAGTTGCtgatt < 1:1409754/71‑1 (MQ=255)
catatgcatatTCGCCCTGGGCATGGTAAACCACATCCAGGCCGTTAAGTAGTTGATAAAGTTGCtgattg < 1:2135518/71‑1 (MQ=255)
|
TGCGGTGAGATTTTGCCGCGAACCTTTACGCAGTTTTTCCAGCGCACTGTTCACGATTACATCAGCATATGCATATTCGCCCTGGGCATGGTAAACCACATCCAGGCCGTTAAGTAGTTGATAAAGTTGCTGATTG > W3110S.gb/3053020‑3053155
|
| 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
