Predicted mutation | |||||||
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evidence | seq id | position | mutation | freq | annotation | gene | description |
RA | REL606 | 1,901,913 | A→T | 13.8% | intergenic (‑367/+28) | pphA ← / ← yebY | serine/threonine‑specific protein phosphatase 1/hypothetical protein |
Read alignment evidence... | ||||||||||
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seq id | position | change | freq | score | reads | annotation | genes | product | ||
* | REL606 | 1,901,913 | 0 | A→T | 13.8% | 2.2 ‑2.3 0.0 | 25 | intergenic (‑367/+28) | pphA/yebY | serine/threonine‑specific protein phosphatase 1/hypothetical protein |
Reads supporting (aligned to +/- strand): new base (4/0): ref base (9/12): total (13/12) | ||||||||||
Fisher's exact test strand distribution p-value = 9.57e-02 | ||||||||||
Kolmogorov-Smirnov test that lower quality scores support polymorphism than reference p-value = 1.00e+00 |
GCCCGTTCTGGTGAAAGAACTGAGGCGGTTTTTTTATTGGAAATCAAAAGGCTATTTAGGTAATTAACAGA > REL606/1901878‑1901948
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gCCCGTACTGGTGAAAGAACTGAGGCGGTTTTTTTa < 1:90221/36‑1 (MQ=255)
cgatCTGGTGAAAGAACTGTGGCGGTTTTTTTATTg < 1:5892408/33‑1 (MQ=37)
ttCTGGTGAAAGAACTGAGGCGGTTTTTTTTttttt > 1:4248251/1‑33 (MQ=37)
ttCTGGTGAAAGAACTGAGGCGGTTTTTTTATTGGa < 1:3523114/36‑1 (MQ=255)
tCTGGTGAAAGAACTGAGGCGGTTTTTTTATTGGaa < 1:468205/36‑1 (MQ=255)
tCTGGTGAAAGAACTGAGGCGGTTTTTTTATTGGaa < 1:1354649/36‑1 (MQ=255)
tGGTGAAAGAACTGAGGCGGTTTTTTTTTTTGGAAt > 1:681921/1‑36 (MQ=21)
tGGTGAAAGAACTGAGGCGGTTTTTTTATTGGAAAt < 1:3110149/36‑1 (MQ=255)
ggTGAAAGAACTGAGGCGGTTTTTTTATTGGAAATc < 1:4458330/36‑1 (MQ=255)
gTGAAAGAACTGAGGCGGTTTTTTTATTGGAAATCa < 1:3640255/36‑1 (MQ=255)
tGAAAGAACTGAGGCGGTTTTTTTATTGGAAATCaa < 1:367026/36‑1 (MQ=255)
aaaGAACTGAGGCGGTTTTTTTATTGGAAATCaaaa < 1:3188939/36‑1 (MQ=255)
cTGAGGCGGTTTTTTTATTGGAAATCAAAAGGCTAt < 1:4286941/36‑1 (MQ=255)
gAGGCGGTTTTTTTTTTTTTAACCAAAAAGCTAttt > 1:5484844/1‑36 (MQ=2)
aGGCGGTTTTTTTTTTTGAAATCAAAAGGGTATTTa > 1:4297615/1‑36 (MQ=25)
cGGTTTTTTTATTGGAAATCAAAAGGCTATTTAGGt > 1:2937219/1‑36 (MQ=255)
gTTTTTTTATTGGAAATCAAAAGGCTATTTAGGTaa > 1:5154656/1‑36 (MQ=255)
tttttttATTGGAAATCAAAAGGCTATTTAGGTAAt > 1:4716398/1‑36 (MQ=255)
ttttttATTGGAAATCAAAAGGCTATTTAGGTAAtt > 1:4137904/1‑36 (MQ=255)
ttttttATTGGAAATCAAAAGGCTATTTAGGTAAtt < 1:4381857/36‑1 (MQ=255)
ttttttATTGGAAATCAAAAGGCTATTTAGGTAAtt > 1:1581223/1‑36 (MQ=255)
ttttttATTGGAAATCAAAAGGCTATTTAGGTAAtt > 1:2719732/1‑36 (MQ=255)
tttttATTGGAAATCAAAAGGCTATTTAGGTAATTa < 1:3642482/36‑1 (MQ=255)
ttttATTGGAAATCAAAAGGCTATTTAGGTAATTaa > 1:41363/1‑36 (MQ=255)
ttttATTGGAAATCAAAAGGCTATTTAGGAAATTaa > 1:3655652/1‑36 (MQ=255)
ttATTGGAAATCAAAAGGCTATTTAGGTAATTAACa > 1:1594625/1‑36 (MQ=255)
aTTGGAAATCAAAAGGCTATTTAGGTAATTAACaga > 1:228232/1‑36 (MQ=255)
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GCCCGTTCTGGTGAAAGAACTGAGGCGGTTTTTTTATTGGAAATCAAAAGGCTATTTAGGTAATTAACAGA > REL606/1901878‑1901948
Base quality scores: 
ATCG
< 3 ≤
ATCG
< 10 ≤
ATCG
< 22 ≤
ATCG
< 32 ≤
ATCG
< 37 ≤
ATCG
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