| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | NC_014034 | 235,595 | +C | 93.8% | intergenic (+24/+187) | RCAP_rcc00200 → / ← RCAP_rcc00201 | MarR family transcriptional regulator/adenine‑specific DNA‑methyltransferase |
| Read alignment evidence... | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | change | freq | score | reads | annotation | genes | product | ||
| * | NC_014034 | 235,595 | 2 | .→C | 93.8% | 6.5 ‑2.8 ‑0.1 | 65 | intergenic (+24/+187) | RCAP_rcc00200/RCAP_rcc00201 | MarR family transcriptional regulator/adenine‑specific DNA‑methyltransferase |
| Reads supporting (aligned to +/- strand): new base (0/61): ref base (1/3): total (1/64) | ||||||||||
| Fisher's exact test strand distribution p-value = 6.15e-02 | ||||||||||
| Kolmogorov-Smirnov test that lower quality scores support polymorphism than reference p-value = 8.41e-01 | ||||||||||
GCGACATCGGCGCCGACAAGGTCCGCGCCGCCTTGCCCGTGCTGCGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCG..C..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACGGGTTTCTTCTTGGGAAAAATACGCCCCTTTTTCTTGGCTCAAATACG > NC_014034/235495‑235685
|
gcgACATCGGCGCCGACAAGGTCCGCGCCGCCTTGCCCGTGCTGCGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCg < 1:1836165/101‑1 (MQ=255)
gACATCGGCGCCGACAAGGTCCGCGCCGCCTTGCCCGTGCTGCGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCG..c..c < 2:3724519/101‑1 (MQ=255)
gACATCGGCGCCGACAAGGTCCGCGCCGCCTTGCCCGTGCTGCGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCG..c..c < 1:3285144/101‑1 (MQ=255)
cATCGGCGCCGACAAGGTCCGCGCCGCCTTGCCCGTGCTGCGGGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCG..c..ccc < 2:323171/101‑1 (MQ=255)
cATCGGCCCCGACAAGGTCCGCGCCGCCTTGCCCGTGCTGCGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCG..g..ccc < 2:118205/101‑1 (MQ=255)
gcgcCGACAAGGTCCGCGCCGCCTTGCCCGTGCTGCGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCG..c..cccccgca < 2:866213/101‑6 (MQ=255)
gcgcCGACAAGGTCCGCGCCGCCTTGCCCGTGCTGCGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCG..c..cccccgca < 1:1047668/101‑6 (MQ=255)
cgcCGACAAGGTCCGCGCCGCCTTGCCCGTGCTGCGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCG..c..cccccgcac < 2:290978/101‑7 (MQ=255)
cgcCGACAAGGTCCGCGCCGCCTTGCCCGTGCTGCGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCG..c..cccccgcac < 1:1873565/101‑7 (MQ=255)
cgcCGACAAGGTCCGCGCCGCCTTGCCCGTGCTGCGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCG..c..cccccgcac < 1:1399955/101‑7 (MQ=255)
gcCGACAAGGTCCGCGCCGCCTTGCCCGTGCTGCGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCG..c..cccccgcacc < 1:1518812/101‑8 (MQ=255)
ccGACAAGGTCCGCGCCGCCTTGCCCGTGCTGCGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCG..c..cccccgcaccc < 1:1319553/101‑9 (MQ=255)
cGACAAGGTCCGCGCCGCCTTGCCCGTGCTGCGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCG..C..CCCCCGcacccc < 2:306560/101‑1 (MQ=255)
aCAAGGTCCGCGCCGCCTTGCCCGTGCTGCGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCAcccccc < 1:3266740/101‑1 (MQ=255)
aCAAGGTCCGCGCCGCCTTGCCCGTGCTGCGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCAcccccc < 1:2434660/101‑1 (MQ=255)
aCAAGGTCCGCGCCGCCTTGCCCGTGCTGCGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCAcccccc < 2:4355715/101‑1 (MQ=255)
cAAGGTCCGCGCCGCCTTGCCCGTGCTGCGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCg < 2:1259158/101‑1 (MQ=255)
cAAGGTCCGCGCCGCCTTGCCCGTGCTGCGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCg < 2:157082/101‑1 (MQ=255)
aaGTTCCGCGCCGCCTTGCCCGTGCTGCTCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCgg < 2:4114721/101‑1 (MQ=255)
ggTCCGCGCCGCCTGGCCCGTGCTGCGCGAATTGCGGCGGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGc < 2:2340775/101‑1 (MQ=255)
ggccGCGCCGCCTTGCCCGTGCTGCGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCg < 2:1962161/99‑1 (MQ=255)
tCCGCGCCGCCTTGCCCGTGCTGCGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGt < 2:1184038/101‑1 (MQ=255)
gcgcCGCCTTGCCCGTGCTGCGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTAtt < 2:4327430/101‑1 (MQ=255)
gccgccTTGCCCGTGCTGCGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTg < 2:3713233/101‑1 (MQ=255)
ccgccTTGCCCGTGCTGCGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGc < 1:2773369/101‑1 (MQ=255)
ccgccTTGCCCGTGCTGCGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGc < 1:3472753/101‑1 (MQ=255)
gccTTGCCCGTGCTGCGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCAc < 2:1283156/101‑1 (MQ=255)
gccTTGCCCGTGCTGCGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCAc < 2:390322/101‑1 (MQ=255)
ccTTGGCCGTGCTGCGCGAATTGCGGCTGCGGCTGGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTTCCCCC..C..CCCGCACCCCCCGGGCGTATTTGCAcc < 2:2982950/101‑1 (MQ=38)
tGCCCGTGCTGCGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAg < 2:214150/101‑1 (MQ=255)
ccGTGCTGCGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGaaa < 2:2008960/101‑1 (MQ=255)
ccGTGCTGCGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGaaa < 2:3971725/101‑1 (MQ=255)
ccGTGCTGCGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGaaa < 1:1266180/101‑1 (MQ=255)
cGTGCTGCGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGaaaa < 2:3266416/101‑1 (MQ=255)
cGTGCTGCGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGaaaa < 2:3561548/101‑1 (MQ=255)
cGTGCTGCGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGaaaa < 1:3073760/101‑1 (MQ=255)
gctgcGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGc < 1:4118620/101‑1 (MQ=255)
gctgcGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGc < 1:3759007/101‑1 (MQ=255)
tgcGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGa < 2:372102/101‑1 (MQ=255)
cgcgAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAAc < 1:862228/101‑1 (MQ=255)
cgcgAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAAc < 2:798079/101‑1 (MQ=255)
gcgAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACg < 2:3721412/101‑1 (MQ=255)
gcgAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACg < 1:1117894/101‑1 (MQ=255)
ttGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACGGGttt < 2:4042409/101‑1 (MQ=255)
ttGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACGGGttt < 1:1437131/101‑1 (MQ=255)
tgcggctgcggcTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACGGGTttc < 1:2186999/101‑1 (MQ=255)
tgcggctgcggcTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCG..CCTCCCGCACCCCCCGGGCGTATTTGCCCCAAGAAAAAGCGAACGGGTttc > 1:3483526/1‑101 (MQ=39)
tcggctgcggctCGAGGAAAGCTGAACCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACGGGTttct < 2:3678670/100‑1 (MQ=38)
gcggctgcggctCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACGGGTttct < 2:1014372/101‑1 (MQ=255)
gcggctgcggctCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACGGGTttct < 2:3432069/101‑1 (MQ=255)
cggctgcggctCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACGGGTttctt < 1:1934510/101‑1 (MQ=255)
cggctgcggctCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACGGGTttctt < 1:1006244/101‑1 (MQ=255)
gctgcggctCGAGGAAATCTGAAGCCGCGGAACGGGGAGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACGGGTTtcttct < 2:2153426/101‑1 (MQ=38)
gctgcggctCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCG..CCTCCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACGGGTTtcttct < 2:3483286/101‑1 (MQ=255)
ctgcggctCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACGGGTTTcttctt < 2:1954966/101‑1 (MQ=255)
tgcggctCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACGGGTTTCTTCTTg < 2:3055176/101‑1 (MQ=255)
tgcggctCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACGGGTTTCTTCTTg < 1:3490865/101‑1 (MQ=255)
gcggctCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACGGGTTTCTTCTTgg < 1:2972765/101‑1 (MQ=255)
cggctCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACGGGTTTCTTCTTggg < 2:3164968/101‑1 (MQ=255)
cggctCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACGGGTTTCTTCTTggg < 1:359785/101‑1 (MQ=255)
ggAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACGGGTTTCTTCTTGGGAAAAATAc < 2:1191064/101‑1 (MQ=255)
gAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACGGGTTTCTTCTTGGGAAAAATACg < 1:3593055/101‑1 (MQ=255)
aaGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACGGGTTTCTTCTTGGGAAAAATACGcc < 2:3582163/101‑1 (MQ=255)
aaGCTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACGGGTTTCTTCTTGGGAAAAATACGcc < 2:2463446/101‑1 (MQ=255)
cTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACGGGTTTCTTCTTGGGAAAAATACGCCCCt < 1:1540105/101‑1 (MQ=255)
cTGAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACGGGTTTCTTCTTGGGAAAAATACGCCCCt < 2:3973061/101‑1 (MQ=255)
tGAAGCCGGGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACGGGTTTCTTCTTGGGAAAAATACGCCCCtt < 2:4225143/101‑1 (MQ=38)
gAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACGGGTTTCTTCTTGGGAAAAATACGCCCCttt < 2:1055975/101‑1 (MQ=255)
gAAGCCGCGGAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACGGGTTTCTTCTTGGGAAAAATACGCCCCttt < 2:2010964/101‑1 (MQ=255)
gAACGGGGGGCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACGGGTTTCTTCTTGGGAAAAATACGCCCCTTTTTCTTGGCt < 2:2644432/101‑1 (MQ=255)
ggggggCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACGGGTTTCTTCTTGGGAAAAATACGCCCCTTTTTCTTGGCTCaaa < 2:1321015/101‑1 (MQ=255)
ggggggCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACGGGTTTCTTCTTGGGAAAAATACGCCCCTTTTTCTTGGCTCaaa < 2:642152/101‑1 (MQ=255)
gggggCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACGGGTTTCTTCTTGGGAAAAATACGCCCCTTTTTCTTGGCTCAAAt < 1:4335393/101‑1 (MQ=255)
gggggCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACGGGTTTCTTCTTGGGAAAAATACGCCCCTTTTTCTTGGCTCAAAt < 1:652766/101‑1 (MQ=255)
ggggCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACGGGTTTCTTCTTGGGAAAAATACGCCCCTTTTTCTTGGCTCAAATa < 2:167826/101‑1 (MQ=255)
gggCTTT..CCGCCC..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACGGGTTTCTTCTTGGGAAAAATACGCCCCTTTTTCTTGGCTCAAATAc < 1:468252/101‑1 (MQ=255)
ggCTTT..CCGCCC..CCCGCTCCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACGGGTTTCTTCTTGGGAAAAATACGCCCCTTTTTCTTGGCTCAAATACg < 1:1577561/101‑1 (MQ=38)
|
GCGACATCGGCGCCGACAAGGTCCGCGCCGCCTTGCCCGTGCTGCGCGAATTGCGGCTGCGGCTCGAGGAAAGCTGAAGCCGCGGAACGGGGGGCTTT..CCG..C..CCCGCACCCCCCGGGCGTATTTGCACCAAGAAAAAGCGAACGGGTTTCTTCTTGGGAAAAATACGCCCCTTTTTCTTGGCTCAAATACG > NC_014034/235495‑235685
Base quality scores:
ATCG
< 3 ≤
ATCG
< 18 ≤
ATCG
< 25 ≤
ATCG
< 33 ≤
ATCG
< 40 ≤
ATCG
|