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 |
2,971,610 |
A→G |
38.6% |
E142E (GAA→GAG) |
serB → |
3‑phosphoserine phosphatase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,971,610 | 0 | A | G | 38.6%
| 17.5
/ 26.9
| 44 | E142E (GAA→GAG) | serB | 3‑phosphoserine phosphatase |
| Reads supporting (aligned to +/- strand): ref base A (7/20); new base G (11/6); total (18/26) |
| Fisher's exact test for biased strand distribution p-value = 1.45e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.72e-01 |
AGATTGAATGTATTGATGAAATTGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAAGTAACCGAAC‑GGGCGATGCGCGGCGAACTCGATTTTACCGCCAGCCTGCGCAGCCGTGTGGCGACG > minE/2971552‑2971676
|
aGATTGAATGTATTGATGAAATTGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAGGTAACCGAAc > 1:1309882/1‑69 (MQ=255)
aGATTGAATGTATTGATGAAATTGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAGGTAACCGAAc > 1:923903/1‑69 (MQ=255)
aGATTGAATGTATTGATGAAATTGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAGGTAACCGAAc > 1:557603/1‑69 (MQ=255)
aGATTGAATGTATTGATGAAATTGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAGGTAACCGAAc > 1:1402357/1‑69 (MQ=255)
aGATTGAATGTATTGATGAAATTGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAGGTAACCGAAc > 1:1406093/1‑69 (MQ=255)
aGATTGAATGTATTGATGAAATTGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAGGTAACCGAAc > 1:1413233/1‑69 (MQ=255)
aGATTGAATGTATTGATGAAATTGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAGGTAACCGAAc > 1:319889/1‑69 (MQ=255)
aGATTGAATGTATTGATGAAATTGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAGGTAACCGAAc > 1:2534017/1‑69 (MQ=255)
aGATTGAATGTATTGATGAAATTGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAGGTAACCGAAc > 1:2333798/1‑69 (MQ=255)
aGATTGAATGTATTGATGAAATTGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAGGTAACCGAAc > 1:1991907/1‑69 (MQ=255)
aGATTGAATGTATTGATGAAATTGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAGGTAACCGAAc > 1:1574719/1‑69 (MQ=255)
tGTATTGATGAAATTGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAAGTAACCGAAC‑GGGCGAt > 1:1348819/1‑68 (MQ=255)
tGTATTGATGAAATTGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAAGTAACCGAAC‑GGGCGATg > 1:85573/1‑69 (MQ=255)
tGTATTGATGAAATTGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAAGTAACCGAAC‑GGGCGATg > 1:1385206/1‑69 (MQ=255)
tGTATTGATGAAATTGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAAGTAACCGAAC‑GGGCGATg > 1:2550391/1‑69 (MQ=255)
aTTGATGAAATTGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAAGt > 1:971247/1‑50 (MQ=255)
aTTGATGAAATTGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAAGt < 1:3161993/50‑1 (MQ=255)
aTTGATGAAATTGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAAGt < 1:3154265/50‑1 (MQ=255)
aTTGATGAAATTGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAAGt > 1:3080361/1‑50 (MQ=255)
aTTGATGAAATTGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAAGt < 1:1502814/50‑1 (MQ=255)
aTTGATGAAATTGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAAGt > 1:2905747/1‑50 (MQ=255)
aTTGATGAAATTGCAAAACTGGCCGGAACGGGCGAGATGGTGGCGGAAGt < 1:2509530/50‑1 (MQ=255)
gatgaAATTGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAAGTAACCGAAC‑g < 1:1977921/56‑1 (MQ=255)
gatgaAATTGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAAGTAACCGAAC‑g < 1:1383247/56‑1 (MQ=255)
gatgaAATTGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAAGTAACCGAAC‑g < 1:3043656/56‑1 (MQ=255)
gatgaAATTGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAAGTAACCGAAC‑g < 1:254769/56‑1 (MQ=255)
gatgaAATTGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAAGTAACCGAAC‑g < 1:23569/56‑1 (MQ=255)
gatgaAATTGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAAGTAACCGAAC‑g < 1:1533911/56‑1 (MQ=255)
atgaAATTGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAAGTAACCGAAC‑g < 1:2353793/55‑1 (MQ=255)
ttGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAGGTAACCGAAC‑GGGCGATGCGCGGCGAACTCg < 1:1756949/69‑1 (MQ=255)
ttGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAGGTAACCGAAC‑GGGCGATGCGCGGCGAACTCg < 1:1553995/69‑1 (MQ=255)
ttGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAGGTAACCGAAC‑GGGCGATGCGCGGCGAACTCg < 1:2062490/69‑1 (MQ=255)
ttGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAGGTAACCGAAC‑GGGCGATGCGCGGCGAACTCg < 1:3345406/69‑1 (MQ=255)
ttGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAGGTAACCGAAC‑GGGCGATGCGCGGCGAACTCg < 1:1428777/69‑1 (MQ=255)
ttGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAAGTAACCGAAC‑GGGCGATGCGCGGCGAACTCg < 1:772586/69‑1 (MQ=255)
ttGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAAGTAACCGAAC‑GGGCGATGCGCGGCGAACTCg < 1:908634/69‑1 (MQ=255)
aaaCTGGCCGGAACGGGCGAGATGGTGGCGGAAGTAACCGAAC‑GGGCGATGCGCGGCGAACTCGAtttt < 1:3060695/69‑1 (MQ=255)
aaaCTGGCCGGAACGGGCGAGATGGTGGCGGAAGTAACCGAAC‑GGGCGATGCGCGGCGAACTCGAtttt < 1:595819/69‑1 (MQ=255)
aaCTGGCCGGAACGGGCGAGATGGTGGCGGAAGTAACCGAAC‑GGGCGATGCGCGGCGAACTCGAtttt < 1:2273172/68‑1 (MQ=255)
tGGCCGGAAGGGGCGAGATGGTGGCGGAAGTAACCGAAC‑g < 1:3260603/40‑1 (MQ=255)
cGAGATGGTGGCGGAAGTAACCGAACGGGGCGATGCGCGGCGAACTCGATTTTACCGCCAGCCTGCGCa < 1:32140/69‑1 (MQ=255)
cGAGATGGTGGCGGAAGTAACCGAACGGGGCGATGCGCGGCGAACTCGATTTTACCGCCAGCCTGCGCa < 1:2558982/69‑1 (MQ=255)
cGAGATGGTGGCGGAAGTAACCGAACGGGGCGATGCGCGGCGAACTCGATTTTACCGCCAGCATGCGCa < 1:2382001/69‑1 (MQ=39)
aTGGTGGCGGAGGTAACCGAAC‑GGGCGATGCGCGGCGAACTCg < 1:359770/43‑1 (MQ=255)
aGTAACCGAAC‑GGGCGATGCGCGGCGAACTCGATTTTACCGCCAGCCTGCGCAGCCGTGTGGCGACg > 1:3047221/1‑67 (MQ=255)
|
AGATTGAATGTATTGATGAAATTGCCAAACTGGCCGGAACGGGCGAGATGGTGGCGGAAGTAACCGAAC‑GGGCGATGCGCGGCGAACTCGATTTTACCGCCAGCCTGCGCAGCCGTGTGGCGACG > minE/2971552‑2971676
|
| 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
