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 |
2,479,657 |
C→A |
36.7% |
intergenic (+116/+191) |
phoU → / ← yieE |
DNA‑binding transcriptional regulator/predicted phosphopantetheinyl transferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,479,657 | 0 | C | A | 36.7%
| 43.4
/ 33.8
| 49 | intergenic (+116/+191) | phoU/yieE | DNA‑binding transcriptional regulator/predicted phosphopantetheinyl transferase |
| Reads supporting (aligned to +/- strand): ref base C (23/8); new base A (12/6); total (35/14) |
| Fisher's exact test for biased strand distribution p-value = 7.44e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACTTTATAAATTCCTAAAATTACACAAAGTTAATAACTGCGAGCATGGTCATATTTTTATCAATAGCGCATTGCTATTTTCTCTGCACGCAATTAAATTAATTTCCGAACCTGGATGTTCGTT > minE/2479591‑2479713
|
aCTTTATAAATTCCTAAAATTACACAAAGTTAATAAGTGCGAGCATGGTCATATTTTTATCAATAgcg < 1:611400/68‑1 (MQ=255)
aCTTTATAAATTCCTAAAATTACACAAAGTTAATAACTGCGAGCATGGTCATATTTTTATCAATAgcg < 1:253650/68‑1 (MQ=255)
aCTTTATAAATTCCTAAAATTACACAAAGTTAATAACTGCGAGCATGGTCATATTTTTATCAATAgcg > 1:2035650/1‑68 (MQ=255)
aCTTTATAAATTCCTAAAATTACACAAAGTTAATAACTGCGAGCATGGTCATATTTTTATCAATAgcg > 1:1028778/1‑68 (MQ=255)
aCTTTATAAATTCCTAAAATTACACAAAGTTAATAACTGCGAGCATGGTCATATTTTTATCAATAgcg > 1:1873511/1‑68 (MQ=255)
aCTTTATAAATTCCTAAAATTACACAAAGTTAATAACTGCGAGCATGGTCATATTTTTATCAATAgcg > 1:1631754/1‑68 (MQ=255)
aCTTTATAAATTCCTAAAATTACACAAAGTTAATAACTGCGAGCATGGTCATATTTTTATCAATAgcg > 1:2601044/1‑68 (MQ=255)
aCTTTATAAATTCCTAAAATTACACAAAGTTAATAACTGCGAGCATGGTCATATTTTTATCAATAgcg > 1:1240783/1‑68 (MQ=255)
aCTTTATAAATTCCTAAAATTACACAAAGTTAATAACTGCGAGCATGGTCATATTTTTATCAATAgcg > 1:798157/1‑68 (MQ=255)
aCTTTATAAATTCCTAAAATTACACAAAGTTAATAACTGCGAGCATGGTCATATTTTTATCAATAgcg < 1:1130176/68‑1 (MQ=255)
tataAATTCCTAAAATTACACAAAGTTAATAACTGCGAGCATGGTCATATTTTTATCAATAGCGCAtt > 1:1185433/1‑68 (MQ=255)
aaTTCCTAAAATTACACAAAGTTAATAACTGCGAGCATGGTCATATTTTTATCAATAGCGCATTGCTa < 1:1163806/68‑1 (MQ=255)
aaTTCCTAAAATTACACAAAGTTAATAACTGCGAGCATGGTCATATTTTTATCAATAGCGCATTGCTa < 1:738028/68‑1 (MQ=255)
aaTTCCTAAAATTACACAAAGTTAATAACTGCGAGCATGGTCATATTTTTATCAATAGCGCATTGCTa < 1:3312561/68‑1 (MQ=255)
aaTTCCTAAAATTACACAAAGTTAATAACTGCGAGCATGGTCATATTTTTATCAATAGCGCATTGCTa < 1:3397268/68‑1 (MQ=255)
atCCTAAAATTACACAAAATTAATAACTGCGAGCATGGTCATACTTTTATAAATAGAGCATTGCTAtt < 1:13601/67‑1 (MQ=255)
atCCTAAAATTACACAAAATTAATAACTGCGAGCATGGTCATACTTTTATAAATAGAGCATTGCTAtt < 1:1707929/67‑1 (MQ=255)
atCCTAAAATTACACAAAATTAATAACTGCGAGCATGGTCATACTTTTATAAATAGAGCATTGCTAtt < 1:2458256/67‑1 (MQ=255)
atCCTAAAATTACACAAAATTAATAACTGCGAGCATGGTCATACTTTTATAAATAGAGCATTGCTAtt < 1:1817045/67‑1 (MQ=255)
atCCTAAAATTACACAAAATTAATAACTGCGAGCATGGTCATACTTTTATAAATAGAGCATTGCTAtt < 1:1102037/67‑1 (MQ=255)
atCCTAAAATTACACAAAATTAATAACTGCGAGCATGGTCATACTTTTATAAATAGAGCATTGCTAtt < 1:2931164/67‑1 (MQ=255)
aataaCTGCGAGCATGGTCATATTTTTATCAATAGCGCATTGCTATTTTCTCTGCACGCaattaaatta < 1:2655714/69‑1 (MQ=255)
aataaCTGCGAGCATGGTCATATTTTTATCAATAGCGCATTGCTATTTTCTCTGCACGCaattaaatta < 1:3165677/69‑1 (MQ=255)
aCTGCGAGCATGGTCATATTTTTATCAATAGCGCATTGCTATTTTCTCTGCACGCAATTAAATTAAttt > 1:980876/1‑69 (MQ=255)
aCTGCGAGCATGGTCATATTTTTATCAATAGCGCATTGCTATTTTCTCTGCACGCAATTAAATTAAttt > 1:1844729/1‑69 (MQ=255)
aCTGCGAGCATGGTCATATTTTTATCAATAGCGCATTGCTATTTTCTCTGCACGCAATTAAATTAAttt > 1:177130/1‑69 (MQ=255)
gCGAGCATGGTCATATTTTTATCAATAGCGCATTGCTATTTTCTCTGCACGCAATTAAATTAATTTCCg > 1:2146175/1‑69 (MQ=255)
gCGAGCATGGTCATATTTTTATCAATAGCGCATTGCTATTTTCTCTGCACGCAATTAAATTAATTTCCg > 1:1981137/1‑69 (MQ=255)
gCGAGCATGGTCATATTTTTATCAATAGCGCATTGCTATTTTCTCTGCACGCAATTAAATTAATTTCCg > 1:3373437/1‑69 (MQ=255)
gCGAGCATGGTCATATTTTTATCAATAGCGCATTGCTATTTTCTCTGCACGCAATTAAATTAATTTCCg > 1:1606774/1‑69 (MQ=255)
gCGAGCATGGTCATATTTTTATCAATAGCGCATTGCTATTTTCTCTGCACGCAATTAAATTAATTTCCg > 1:1417776/1‑69 (MQ=255)
gCGAGCATGGTCATATTTTTATCAATAGCGCATTGCTATTTTCTCTGCACGCAATTAAATTAATTTCCg > 1:2825702/1‑69 (MQ=255)
gCGAGCATGGTCATATTTTTATCAATAGCGCATTGCTATTTTCTCTGCACGCAATTAAATTAATTTCCg > 1:2939127/1‑69 (MQ=255)
gCGAGCATGGTCATATTTTTATCAATAGCGCATTGCTATTTTCTCTGCACGCAATTAAATTAATTTCCg > 1:3055620/1‑69 (MQ=255)
gAGCATGGTCATACTTTTATAAATAGAGCATTGCt > 1:521086/1‑35 (MQ=25)
gAGCATGGTCATACTTTTATAAATAGAGCATTGCTATTTTTTCTGCACGCAACTAAATTAATTTTCGaa > 1:3428907/1‑69 (MQ=255)
gAGCATGGTCATACTTTTATAAATAGAGCATTGCTATTTTTTCTGCACGCAACTAAATTAATTTTCGaa > 1:3325816/1‑69 (MQ=255)
gAGCATGGTCATACTTTTATAAATAGAGCATTGCTATTTTTTCTGCACGCAACTAAATTAATTTTCGaa > 1:779129/1‑69 (MQ=255)
gAGCATGGTCATACTTTTATAAATAGAGCATTGCTATTTTTTCTGCACGCAACTAAATTAATTTTCGaa > 1:80761/1‑69 (MQ=255)
gAGCATGGTCATACTTTTATAAATAGAGCATTGCTATTTTTTCTGCACGCAACTAAATTAATTTTCGaa > 1:2398709/1‑69 (MQ=255)
gAGCATGGTCATACTTTTATAAATAGAGCATTGCTATTTTTTCTGCACGCAACTAAATTAATTTTCGaa > 1:1103878/1‑69 (MQ=255)
gAGCATGGTCATACTTTTATAAATAGAGCATTGCTATTTTTTCTGCACGCAACTAAATTAATTTTCGaa > 1:1139486/1‑69 (MQ=255)
gAGCATGGTCATACTTTTATAAATAGAGCATTGCTATTTTTTCTGCACGCAACTAAATTAATTTTCGaa > 1:2320033/1‑69 (MQ=255)
gAGCATGGTCATACTTTTATAAATAGAGCATTGCTATTTTTTCTGCACGCAACTAAATTAATTTTCGaa > 1:2239381/1‑69 (MQ=255)
gAGCATGGTCATACTTTTATAAATAGAGCATTGCTATTTTTTCTGCACGCAACTAAATTAATTTTCGaa > 1:2191389/1‑69 (MQ=255)
gAGCATGGTCATACTTTTATAAATAGAGCATTGCTATTTTTTCTGCACGCAACTAAATTAATTTTCGaa > 1:1876941/1‑69 (MQ=255)
aTGGTCATATTTTTATCAATAGCGCATTGCTATTTTCTCTGCACGCAATTAAATTAATTTCCGAACCTg < 1:3030932/69‑1 (MQ=255)
gTCATATTTTTATCAATAGCGCATTGCTATTTTCTCTGCACGCAATTAAATTAATTTCCGAACCTGGAt > 1:1082227/1‑69 (MQ=255)
gTCATATTTTTATCAATAGCGCATTGCTATTTTCTCTGCACGCAATTAAATTAATTTCCGAACCTGGAt > 1:697953/1‑69 (MQ=255)
gTCATATTTTTATCAATAGCGCATTGCTATTTTCTCTGCACGCAATTAAATTAATTTCCGAACCTGGAt > 1:2882058/1‑69 (MQ=255)
gTCATATTTTTATCAATAGCGCATTGCTATTTTCTCTGCACGCAATTAAATTAATTTCCGAACCTGGAt > 1:3145438/1‑69 (MQ=255)
gTCATATTTTTATCAATAGCGCATTGCTATTTTCTCTGCACGCAATTAAATTAATTTCCGAACCTGGAt > 1:300823/1‑69 (MQ=255)
cATATTTTTATCAATAGCGCATTGCTATTTTCTCTGCACGCAATTAAATTAATTTCCGAACCTGGATg < 1:1308042/68‑1 (MQ=255)
tttttATCAATAGCGCATTGCTATTTTCTCTGCGCGCAATTAAATTAATTTCCGAACCTGGATGTTCGt > 1:694315/1‑69 (MQ=255)
tttATCAATAGCGCATTGCTATTTTCTCTGCACGCAATTAAATTAATTTCCGAACCTGGATGTTCGtt > 1:2042137/1‑68 (MQ=255)
tttATCAATAGCGCATTGCTATTTTCTCTGCACGCAATTAAATTAATTTCCGAACCTGGATGTTCGtt > 1:685253/1‑68 (MQ=255)
tttATCAATAGCGCATTGCTATTTTCTCTGCACGCAATTAAATTAATTTCCGAACCTGGATGTTCGtt > 1:2431020/1‑68 (MQ=255)
tttATCAATAGCGCATTGCTATTTTCTCTGCACGCAATTAAATTAATTTCCGAACCTGGATGTTCGtt > 1:1647799/1‑68 (MQ=255)
tttATCAATAGCGCATTGCTATTTTCTCTGCACGCAATTAAATTAATTTCCGAACCTGGATGTTCGt > 1:1813416/1‑67 (MQ=255)
|
ACTTTATAAATTCCTAAAATTACACAAAGTTAATAACTGCGAGCATGGTCATATTTTTATCAATAGCGCATTGCTATTTTCTCTGCACGCAATTAAATTAATTTCCGAACCTGGATGTTCGTT > minE/2479591‑2479713
|
| 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
