Predicted mutation | |||||||
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evidence | seq id | position | mutation | freq | annotation | gene | description |
RA | REL606 | 1,222,410 | T→C | 20.4% | intergenic (+27/+56) | ycgH → / ← ymgD | predicted protein; b1170(b4491)/hypothetical protein |
Read alignment evidence... | ||||||||||
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seq id | position | change | freq | score | reads | annotation | genes | product | ||
* | REL606 | 1,222,410 | 0 | T→C | 20.4% | 3.0 ‑4.5 ‑0.0 | 24 | intergenic (+27/+56) | ycgH/ymgD | predicted protein; b1170(b4491)/hypothetical protein |
Reads supporting (aligned to +/- strand): new base (0/5): ref base (13/6): total (13/11) | ||||||||||
Fisher's exact test strand distribution p-value = 1.09e-02 | ||||||||||
Kolmogorov-Smirnov test that lower quality scores support polymorphism than reference p-value = 9.16e-01 |
CGCAGTGATGGTGGGCCTGAAATATAAGTTCTGATCCCGCCGTTAGCTAAAAAACCGCGTCGTATTCA > REL606/1222376‑1222443
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cGCAGTGATGGTGGGCCTGAAATATAAGTTCTGATc < 1:4037421/36‑1 (MQ=255)
gCAGTGATGGTGGGCCTGAAATATAAGTTCTGATcc < 1:4461768/36‑1 (MQ=255)
cAGTGATGGTGGGCCTGAAATATAAGTTCTGATccc < 1:4107294/36‑1 (MQ=255)
tgctggtggGCCTCAAATATAAGTTCTGATCccgcc < 1:324689/33‑1 (MQ=38)
gATGGTGGGCCTGAAATATAAGTTCTGATCccgccg > 1:4981804/1‑36 (MQ=255)
ggtggGCCTGAAATATAAGTTCTGATCCCGCCGTTa > 1:4766554/1‑36 (MQ=255)
ggCCTGAAATATAAGTTCTGATCCCGCCGTTAGCTa > 1:949322/1‑36 (MQ=255)
gCCTGAAATATAAGTTCTGATCCCGCCGTTAGCTaa > 1:877822/1‑36 (MQ=255)
gCCTGAAATATAAGTTCTGATCCCGCCGTTAGCTaa > 1:4289663/1‑36 (MQ=255)
aatGACATAGAATTGCTGTTGCCGCCGTTAGCTaaa < 1:524148/34‑1 (MQ=0)
cTGAAATATAAGTTCTGATCCCGCCGTTAGCTaaaa > 1:94318/1‑36 (MQ=255)
cTGAAATATAAGTTCTGATCCCGCCGTTAGCTaaaa > 1:5742050/1‑36 (MQ=255)
cTGAAATATAAGTTCTGATCCCGCCGCTAGCTaaaa > 1:4204477/1‑36 (MQ=255)
aaaaAATAATTCCTGACCCCGCCGTTAGCTaaaaaa < 1:424789/35‑1 (MQ=16)
atatAAGTTCTGATCCCGCCGTTAGCTAAAAAACcg > 1:1739487/1‑36 (MQ=255)
ataAGTTCTGACCCCGCCGTTAGCTAAAAAACcgcg < 1:5690916/36‑1 (MQ=255)
taAGTTTTGACCCCGCCGTTAGCTAAAAAACCGcgt < 1:5855342/36‑1 (MQ=38)
aatttCTGTCCCCGCCGTTAGCTAAAAAACCGcgtc < 1:4573575/33‑1 (MQ=37)
aatttCAGACCCCGCCGTTAGCTAAAAAACCGcgtc < 1:1940237/33‑1 (MQ=37)
aaGTTCTGATCCCGCCGTTAGCTAAAAAACCGcgtc > 1:4112821/1‑36 (MQ=255)
ttCTGATCCCGCCGTTGGCTAAAAAACCCCGTCGTa > 1:2594522/1‑36 (MQ=38)
tCTGATCCCGCCGTTAGCTAAAAAACCGCGTCGTAt > 1:997190/1‑36 (MQ=255)
tGATCCCGCCGTTAGCTAAAAAACCGCGTCGTATTc < 1:1086919/36‑1 (MQ=255)
gATCCCGCCGTTAGCTAAAAAACCGCGTCGTATTCa > 1:5808772/1‑36 (MQ=255)
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CGCAGTGATGGTGGGCCTGAAATATAAGTTCTGATCCCGCCGTTAGCTAAAAAACCGCGTCGTATTCA > REL606/1222376‑1222443
Base quality scores: 
ATCG
< 3 ≤
ATCG
< 5 ≤
ATCG
< 16 ≤
ATCG
< 28 ≤
ATCG
< 37 ≤
ATCG
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