| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | NC_014034 | 2,330,289 | Δ1 bp | 6.8% | intergenic (+264/+48) | RCAP_rcc02161 → / ← mrcA | hypothetical protein/penicillin‑binding protein 1A |
| Read alignment evidence... | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | change | freq | score | reads | annotation | genes | product | ||
| * | NC_014034 | 2,330,289 | 0 | C→. | 6.8% | 3.6 ‑2.3 ‑0.7 | 44 | intergenic (+264/+48) | RCAP_rcc02161/mrcA | hypothetical protein/penicillin‑binding protein 1A |
| Reads supporting (aligned to +/- strand): new base (0/3): ref base (23/18): total (23/21) | ||||||||||
| Fisher's exact test strand distribution p-value = 1.00e-01 | ||||||||||
| Kolmogorov-Smirnov test that lower quality scores support polymorphism than reference p-value = 2.00e-01 | ||||||||||
CGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCCGGG..G....G..CCCCCGGCGGGTCGCCGAGGCATCGCCT.C.GGCG.AAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCG > NC_014034/2330190‑2330374
|
cGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtcc > 1:1653761/1‑101 (MQ=255)
cGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtcc > 1:657968/1‑101 (MQ=255)
gCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgg > 1:1499983/1‑99 (MQ=255)
gCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgg > 1:2181652/1‑99 (MQ=255)
cGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGatcccggggg.cccggg > 1:3223310/1‑101 (MQ=255)
cGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccggggggccggg > 1:2038793/1‑101 (MQ=255)
gTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggg > 1:2207657/1‑101 (MQ=255)
gTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggg > 2:3116455/1‑101 (MQ=255)
gTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggg > 1:5526742/1‑101 (MQ=255)
tATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggg..g > 1:3680493/1‑101 (MQ=255)
tATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggg..g > 1:333753/1‑101 (MQ=255)
tATGTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggg..g < 2:5421633/101‑1 (MQ=255)
aTTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggg..gc > 1:2806085/1‑100 (MQ=255)
tttGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggg..gcg < 2:1221700/101‑3 (MQ=255)
ttGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggg..gcgg < 1:5424391/101‑4 (MQ=255)
tGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggg..gcgga < 1:2344184/101‑5 (MQ=255)
cgcCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggg..gcggagc < 2:1540063/101‑7 (MQ=255)
cgcCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCAGCTTTCACCTGTGGCCAAAGAtcccgcgggtccgggg..gcggagc > 2:5460692/1‑95 (MQ=38)
ccAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggg..gcggagccc < 2:1653667/101‑9 (MQ=255)
cAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggg..gcggagcccc < 1:3681417/101‑10 (MQ=38)
cAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccggggggccgggg..gcggagcccc > 2:1111262/1‑92 (MQ=255)
cAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGT.CCGGG..G....G..cggagcccc < 2:3702726/101‑9 (MQ=38)
aaGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGT.CCGGG..G....G..cggagccccc < 1:5354894/101‑10 (MQ=38)
aGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGGCAAAGAtccctggggcccgggg..g....gggagcccccg > 2:5087575/1‑91 (MQ=255)
aGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGT.CCGGG..G....G..cggagcccccg < 1:4511114/101‑11 (MQ=38)
gcgcATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGc < 2:711806/101‑1 (MQ=25)
cgcATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGGGCCGAgggc > 1:3725784/1‑99 (MQ=21)
gcATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCGGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGCAt < 1:2703923/101‑1 (MQ=21)
cATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGCATc < 1:780240/101‑1 (MQ=25)
aTGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGTGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGCATCg < 2:1878473/101‑1 (MQ=25)
ggCCCGGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGCATCGCCT.C.gg < 2:4815746/101‑1 (MQ=21)
gCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGCGGCAttcgcccgcg > 2:3615164/1‑92 (MQ=18)
ccGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGCGCCGCGGCAGCGCCC.C.GCCgca > 1:5723720/1‑99 (MQ=16)
ggATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGCGGCGCGGGATCGCCC.C.CGCG.aaaa > 2:1500891/1‑100 (MQ=16)
aTCGCCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGCATCGCCT.C.GGCG.AAATcc < 1:4610341/101‑1 (MQ=21)
ccGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGCATCGCCT.C.GGCG.AAATCCCTTa < 1:470124/101‑1 (MQ=25)
cggcggCCGGGGCGGCTTTCACCTGGGGCCAAAGATCCGGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGCATCGCCT.C.GGCG.AAATCCCTTAg < 1:4571700/101‑1 (MQ=21)
cggcggCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGCATCGCCT.C.GGCG.AAATCCCTTAg < 2:3680265/101‑1 (MQ=25)
cggcggCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGCATCGCCT.C.GGCG.AAATCCCTTAg < 1:3532975/101‑1 (MQ=25)
gggggcCGGGGCGGCTTCCCCCGGGGCCAAAAGATCCGGGGGGCCGGGGGGCG....GACCCCCCGGCGGGTCGCCGAGGCATCGCCT.C.GGCG.AAATCCCTTAGt < 2:3976790/98‑1 (MQ=12)
ggcCGGGGCGGCTTTCACCGGGGGCCAAAGACCCGGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGCATCGCCT.C.GGCG.AAATCCCTTAGTaaa < 2:2901894/101‑1 (MQ=21)
ggcCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGCGCCGGGGCCGCGCCC.C.CGCG.GAAACCCCTCGTaaa > 2:4840662/1‑101 (MQ=9)
cGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGGGCCGGGGCGTCGCCC.C.CGCG.GAATCCCCTTGTaaaaaac > 1:3660852/1‑97 (MQ=9)
ggcggcTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGCATCGCCT.C.GGCG.AAATCCCTTAGTAAAGAccgc < 2:1718757/101‑1 (MQ=25)
gcggcTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGCAGCGCCC.C.CGCG.GAATCCCTTTGTAAAGAccccc > 2:1689011/1‑101 (MQ=12)
gcTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGGGCCGGGGCATCGCCC.CTGGGC.AAACCCCTTTTTAAAAAccgcccc > 2:5756380/1‑100 (MQ=2)
gcTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGCGCCGAGGGCTCGCCC.C.GGCG.AAAACCCCTAATaaaaaacaccccc > 2:343808/1‑91 (MQ=9)
cTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGCGCCGGGGGGTCGCCT.C.CGCG.GAAACCCTTTTTAAAGAACGCCcccg > 1:1290974/1‑101 (MQ=9)
tttCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGCGCCGGGGCAAAGCCC.C.CGCG.GAAACCCCTTGTAAAAAACGCCCCCgg > 2:3985151/1‑101 (MQ=2)
cACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGCATCGCCT.C.GGCG.AAATCCCTTAGTAAAGACCGCCCGCGGACa < 1:2258589/101‑1 (MQ=21)
cACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGCGCCGGGGCATCGCCC.C.GGCG.GAAAACCTTAGTAAAAACCGCCCCCGGAcc > 2:1223338/1‑100 (MQ=12)
cACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGCGCCGCGGCATCGCCT.C.CGCG.AAAACCCCTCGTAAAGAACGCCCGCgggcc > 2:4954994/1‑98 (MQ=12)
cACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGCCGCGCGGGATCGCCTCC.GGCA.AACCCCCTTGTTAAAAACCCCCcccgcca > 1:2878178/1‑98 (MQ=2)
aCCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGGGCCGGGGCAACGCCC.C.GGCG.GAATCCCCTAGTAAAAAACGCCCGCCGGCAg > 1:5677056/1‑101 (MQ=2)
tGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGCATCGCCT.C.GGCG.AAATCCCTTAGTAAAGACCGCCCGCGGACAGGGa < 2:750643/101‑1 (MQ=21)
tGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGCGCCGGGGGATCGCCT.C.CGCG.AAAACCCCTAGTAAAAAACGCCCCCGGGCCgggg > 2:628769/1‑100 (MQ=2)
tGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGCGCCGCGGGAAGGCCC.C.GGCG.CAAAACCTTACTAAAGAACGCCCCCgggacgggg > 1:469063/1‑94 (MQ=0)
ggggCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGCATCGCCT.C.GGCG.AAATCCCTTAGTAAAGACCGCCCGCGGACAGGGAt < 1:3049425/101‑1 (MQ=21)
gggCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGGCCCCAGGCACCGCCC.C.GGGG.AAAACCCCTAGTAAAAACAGCCCCCGGGCCggggcc > 1:5226542/1‑98 (MQ=2)
ggCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGCATCGCCT.C.GGCG.AAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATcc < 1:876749/101‑1 (MQ=21)
gCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGCGCCGGGGCATCTCCT.C.GGCG.AAATCCCCTAGTAAAGACCCCCCCCGGGCCGGGAGCCg > 1:745034/1‑101 (MQ=9)
ccAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGCGCCGAGGCATCGCCC.C.CGCGCAAAACCGTAATAAAAAACCGCCC.CCGACAGGGGACCGa > 2:5256341/1‑101 (MQ=2)
aaaGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGGCGGGGCATTCGCT.C.GGCG.AAAAACCTTAGTAAAGCACGCCCCCCGGCGAGGGTCCGAAg > 2:665765/1‑101 (MQ=0)
aaGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGCGCCGGGGGACCGCCC.C.GGCG.CAATCCCCTAGTAAAAACCCCCCGCGGGCAGGGAGCCGCAgg > 1:3211471/1‑101 (MQ=9)
aaGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGCGCCGAGGGATCGCCT.C.GGCG.AAAACCCTTAGTAAAAACAGCCCGCGGACAGGGATCCGAAgg > 2:5014365/1‑101 (MQ=18)
aTCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGCATCGCCT.C.GGCG.AAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCg < 2:5591475/101‑1 (MQ=25)
|
CGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCCGGG..G....G..CCCCCGGCGGGTCGCCGAGGCATCGCCT.C.GGCG.AAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCG > NC_014034/2330190‑2330374
Base quality scores:
ATCG
< 3 ≤
ATCG
< 15 ≤
ATCG
< 25 ≤
ATCG
< 33 ≤
ATCG
< 40 ≤
ATCG
|