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 F21 I0 R2
|
308 |
27.9 |
1975068 |
96.7% |
1909890 |
67.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
505,179 |
C→T |
68.3% |
L348L (CTG→TTG) |
ushA → |
bifunctional UDP‑sugar hydrolase and 5'‑nucleotidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 505,179 | 0 | C | T | 68.3%
| 48.5
/ 34.2
| 41 | L348L (CTG→TTG) | ushA | bifunctional UDP‑sugar hydrolase and 5'‑nucleotidase |
| Reads supporting (aligned to +/- strand): ref base C (2/11); new base T (12/16); total (14/27) |
| Fisher's exact test for biased strand distribution p-value = 1.56e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.78e-01 |
AGCGAGCGCGTGCTTTACACTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGAA > W3110S.gb/505125‑505225
|
agcgagcgCGTGCTTTACACTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTc > 1:154474/1‑69 (MQ=255)
agcgagcgCGTGCTTTACACTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTc > 1:1162300/1‑69 (MQ=255)
agcgagcgCGTGCTTTACACTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTc > 1:1795462/1‑69 (MQ=255)
agcgagcgCGTGCTTTACACTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTc > 1:1390726/1‑69 (MQ=255)
agcgagcgCGTGCTTTACACTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTc > 1:1243705/1‑69 (MQ=255)
agcgagcgCGTGCTTTACACTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTc > 1:190013/1‑69 (MQ=255)
gcgcGTGCTTTACACTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACa < 1:991161/71‑1 (MQ=255)
gcgcGTGCTTTACACTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACa < 1:627576/71‑1 (MQ=255)
cgcgTGCTTTACACTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACa < 1:1391169/70‑1 (MQ=255)
aTCGCTGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGt > 1:1302934/1‑71 (MQ=255)
aTCGCTGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGt > 1:1349099/1‑71 (MQ=255)
aTCGCTGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGt > 1:1871699/1‑71 (MQ=255)
aTCGCTGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGt > 1:1815333/1‑71 (MQ=255)
aTCGCTGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGt > 1:651091/1‑71 (MQ=255)
aTCGCTGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGt > 1:1663909/1‑71 (MQ=255)
aTCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGt > 1:1732515/1‑71 (MQ=255)
aTCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGt > 1:1672894/1‑71 (MQ=255)
gCTGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTCCAGAACAAAGGCATAGCGCAGCTGGAAGTGaa < 1:550376/71‑1 (MQ=255)
gCTGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGaa < 1:220491/71‑1 (MQ=255)
gCTGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGaa < 1:932623/71‑1 (MQ=255)
gCTGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGaa < 1:861552/71‑1 (MQ=255)
gCTGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGaa < 1:123362/71‑1 (MQ=255)
gCTGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGaa < 1:563650/71‑1 (MQ=255)
gCTGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGaa < 1:407435/71‑1 (MQ=255)
gCTGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGaa < 1:366099/71‑1 (MQ=255)
gCTGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGaa < 1:1554187/71‑1 (MQ=255)
gCTGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGaa < 1:1396281/71‑1 (MQ=255)
gCTGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGaa < 1:1445903/71‑1 (MQ=255)
gCTGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGaa < 1:1468656/71‑1 (MQ=255)
gCTGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGaa < 1:1028561/71‑1 (MQ=255)
gCTGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGaa < 1:1491074/71‑1 (MQ=255)
gCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGaa < 1:1848987/71‑1 (MQ=255)
gCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGaa < 1:528330/71‑1 (MQ=255)
gCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGaa < 1:1483405/71‑1 (MQ=255)
gCTGAAAACCAGCAAACGATCTCGCTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGaa < 1:1652348/71‑1 (MQ=255)
cTGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGaa < 1:1329325/70‑1 (MQ=255)
cTGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGaa < 1:1173189/70‑1 (MQ=255)
aTCTCGCTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGaa < 1:1127570/53‑1 (MQ=255)
aTCTCGCTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGaa < 1:937215/53‑1 (MQ=255)
aTCTCGCTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGaa < 1:347179/53‑1 (MQ=255)
aTCTCGCTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGaa < 1:1954223/53‑1 (MQ=255)
|
AGCGAGCGCGTGCTTTACACTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGAA > W3110S.gb/505125‑505225
|
| 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
