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 F28 I2 R2
|
356 |
55.1 |
4139924 |
95.4% |
3949487 |
63.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
381,851 |
A→C |
G88G (GGT→GGG) |
yaiF ← |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 381,851 | 0 | A | C | 97.9%
| 166.8
/ ‑4.9
| 47 | G88G (GGT→GGG) | yaiF | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (1/0); new base C (21/25); total (22/25) |
| Fisher's exact test for biased strand distribution p-value = 4.68e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.12e-01 |
AGATGTCTGGAAATATAGGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATAACAACTTCACCTGC > W3110S.gb/381786‑381910
|
aGATGTCTGGAAATATAGGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTg < 1:967292/71‑1 (MQ=255)
tGTCTGGAAATATAGGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAAt < 1:3436041/71‑1 (MQ=255)
gTCTGGAAATATAGGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAAt > 1:2054315/1‑70 (MQ=255)
gTCTGGAAATATAGGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAAt > 1:311970/1‑70 (MQ=255)
gAAATATAGGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGc < 1:1120546/71‑1 (MQ=255)
gAAATATAGGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGc < 1:1635671/71‑1 (MQ=255)
ggCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACaa < 1:2736464/71‑1 (MQ=255)
ggCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACaa < 1:2846603/71‑1 (MQ=255)
ggCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACaa < 1:3991627/71‑1 (MQ=255)
ggCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACaa < 1:3807325/71‑1 (MQ=255)
cAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATACggg < 1:1149817/70‑1 (MQ=255)
cAATTACCTATCAGGCAGTTTGCGCCAATCACTACCAGCCCCTGAATAACGGCACCATGACAAATACggg < 1:2457422/70‑1 (MQ=255)
aTTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGaa > 1:4129529/1‑44 (MQ=255)
aTTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGaa > 1:2334424/1‑44 (MQ=255)
aTTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGaa > 1:2284235/1‑44 (MQ=255)
aTTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTa > 1:1921708/1‑70 (MQ=255)
aTTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTa > 1:2572630/1‑70 (MQ=255)
aTTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTAt > 1:2055309/1‑71 (MQ=255)
aTTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTAt > 1:59458/1‑71 (MQ=255)
aTTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTAt > 1:1361011/1‑71 (MQ=255)
aTTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTAt > 1:628554/1‑71 (MQ=255)
aTTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTAt > 1:837801/1‑71 (MQ=255)
aTTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTAt > 1:1276155/1‑71 (MQ=255)
aCCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTcg > 1:3235192/1‑71 (MQ=255)
ccTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTcgc < 1:2682084/71‑1 (MQ=255)
aGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCa > 1:3270086/1‑45 (MQ=255)
aGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGa > 1:329159/1‑70 (MQ=255)
aGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGa > 1:1377315/1‑70 (MQ=255)
gCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACgg > 1:112930/1‑38 (MQ=255)
gCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATaa > 1:3617151/1‑71 (MQ=255)
gCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATaa > 1:147564/1‑71 (MQ=255)
cAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCAc > 1:1660292/1‑40 (MQ=255)
gTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATaacaa < 1:555725/71‑1 (MQ=255)
tttGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACaaa < 1:2789675/46‑1 (MQ=255)
tttGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACaaa < 1:686906/46‑1 (MQ=255)
tttGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACaaa < 1:326597/46‑1 (MQ=255)
tttGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATaac < 1:2526009/68‑1 (MQ=255)
tttGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATaac < 1:1920372/68‑1 (MQ=255)
tttGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATaac < 1:2087957/68‑1 (MQ=255)
aTCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATAACAACTTCACCTGc < 1:1436473/71‑1 (MQ=255)
aTCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATAACAACTTCACCTGc < 1:1296961/71‑1 (MQ=255)
aTCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATAACAACTTCACCTGc < 1:1292118/71‑1 (MQ=255)
aTCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATAACAACTTCACCTGc < 1:2109693/71‑1 (MQ=255)
tCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATaacaac < 1:3822555/61‑1 (MQ=255)
tCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATaacaac < 1:3817758/61‑1 (MQ=255)
tCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATaacaac < 1:727502/61‑1 (MQ=255)
ccGGCCCCTGAATAACGGCACCATGACAAATACGGGTa > 1:955372/1‑38 (MQ=255)
|
AGATGTCTGGAAATATAGGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATAACAACTTCACCTGC > W3110S.gb/381786‑381910
|
| 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
