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 |
2,408,035 |
A→G |
32.7% |
V63V (GTA→GTG) |
hemC → |
hydroxymethylbilane synthase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,408,035 | 0 | A | G | 32.7%
| 46.9
/ 32.6
| 64 | V63V (GTA→GTG) | hemC | hydroxymethylbilane synthase |
| Reads supporting (aligned to +/- strand): ref base A (24/19); new base G (14/7); total (38/26) |
| Fisher's exact test for biased strand distribution p-value = 4.33e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGGTGACGCGCGGCGATGTGATTCTTGATACGCCGCTGGCGAAAGTAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTCGCGCTCCTCGAAAATCGCGCCGATATCGCCGTACACTCAATGAAAGATGT > minE/2407968‑2408100
|
tGGTGACGCGCGGCGATGTGATTCTTGATACGCCGCTGGCGAAAGTAGGCGGAAAAGGCTTATTTGTaa < 1:1491838/69‑1 (MQ=255)
ggcgATGTGATTCTTGATACGCCGCTGGCGAAAGTAGGCGGGAAAGGCTTATTTGTGAAAGAGCTGGaa > 1:1195822/1‑69 (MQ=255)
ggcgATGTGATTCTTGATACGCCGCTGGCGAAAGTAGGCGGGAAAGGCTTATTTGTGAAAGAGCTGGaa > 1:1705742/1‑69 (MQ=255)
ggcgATGTGATTCTTGATACGCCGCTGGCGAAAGTAGGCGGGAAAGGCTTATTTGTGAAAGAGCTGGaa > 1:3394564/1‑69 (MQ=255)
ggcgATGTGATTCTTGATACGCCGCTGGCGAAAGTAGGCGGGAAAGGCTTATTTGTGAAAGAGCTGGaa > 1:2419660/1‑69 (MQ=255)
ggcgATGTGATTCTTGATACGCCGCTGGCGAAAGTAGGCGGGAAAGGCTTATTTGTGAAAGAGCTGGa > 1:515762/1‑68 (MQ=255)
ggcgATGTGATTCTTGATACGCCGCTGGCGAAAGTAGGCGGGAAAGGCTTATTTGTGAAAGAGCTGGa > 1:1684217/1‑68 (MQ=255)
gtgATTCTTGATACGCCGCTGGCGAAAGTAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTcgcg > 1:2593899/1‑69 (MQ=255)
tgATTCTTGATACGCCGCTGGCGAAAGTAGGCGGGAAAGGCTTATTTGTgaa > 1:2321172/1‑52 (MQ=39)
tgATTCTTGATACGCCGCTGGCGAAAGTAGGCGGGAAAGGCTTATTTGTGAAAGAGCTGGAAGTcgcg > 1:1448212/1‑68 (MQ=255)
tgATTCTTGATACGCCGCTGGCGAAAGTAGGCGGGAAAGGCTTATTTGTGAAAGAGCTGGAAGTCgcgc > 1:2017387/1‑69 (MQ=255)
tgATTCTTGATACGCCGCTGGCGAAAGTAGGCGGGAAAGGCTTATTTGTGAAAGAGCTGGAAGTCgcgc > 1:2084233/1‑69 (MQ=255)
tgATTCTTGATACGCCGCTGGCGAAAGTAGGCGGGAAAGGCTTATTTGTGAAAGAGCTGGAAGTCgcgc > 1:2414843/1‑69 (MQ=255)
tgATTCTTGATACGCCGCTGGCGAAAGTAGGCGGGAAAGGCTTATTTGTGAAAGAGCTGGAAGTCgcgc > 1:2986871/1‑69 (MQ=255)
tgATTCTTGATACGCCGCTGGCGAAAGTAGGCGGGAAAGGCTTATTTGTGAAAGAGCTGGAAGTCgcgc > 1:3131207/1‑69 (MQ=255)
tgATTCTTGATACGCCGCTGGCGAAAGTAGGCGGGAAAGGCTTATTTGTGAAAGAGCTGGAAGTCgcgc > 1:450020/1‑69 (MQ=255)
tgATTCTTGATACGCCGCTGGCGAAAGTAGGCGGGAAAGGCTTATTTGTGAAAGAGCTGGAAGTCgcgc > 1:651920/1‑69 (MQ=255)
tgATTCTTGATACGCCGCTGGCGAAAGTAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTCgcgc > 1:1537272/1‑69 (MQ=255)
tgATTCTTGATACGCCGCTGGCGAAAGTAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTCgcgc > 1:1440814/1‑69 (MQ=255)
tgATTCTTGATACGCCGCTGGCGAAAGTAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTCgcgc > 1:3174039/1‑69 (MQ=255)
tgATTCTTGATACGCCGCTGGCGAAAGTAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTCgcgc > 1:2071058/1‑69 (MQ=255)
aTTCTTGATACGCCGCTGGCGAAAGTAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTCGCGctc > 1:3155138/1‑69 (MQ=255)
aTTCTTGATACGCCGCTGGCGAAAGTAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTCGCGctc > 1:578662/1‑69 (MQ=255)
aTTCTTGATACGCCGCTGGCGAAAGTAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTCGCGctc > 1:791033/1‑69 (MQ=255)
aTTCTTGATACGCCGCTGGCGAAAGTAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTCGCGctc > 1:2291699/1‑69 (MQ=255)
aTTCTTGATACGCCGCTGGCGAAAGTAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTCGCGctc > 1:958998/1‑69 (MQ=255)
aTTCTTGATACGCCGCTGGCGAAAGTAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTCGCGctc > 1:1160376/1‑69 (MQ=255)
aTTCTTGATACGCCGCTGGCGAAAGTAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTCGCGctc > 1:1911672/1‑69 (MQ=255)
aTTCTTGATACGCCGCTGGCGAAAGTAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTCGCGctc > 1:1803238/1‑69 (MQ=255)
aTTCTTGATACGCCGCTGGCGAAAGTAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTCGAGctc > 1:3343124/1‑69 (MQ=255)
tCTTGATACGCCGCTGGCGAAAGTAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTCGCGctcc > 1:1575858/1‑68 (MQ=255)
tCTTGATACGCCGCTGGCGAAAGTAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTCGCGctcc > 1:1049912/1‑68 (MQ=255)
cTTGATACGCCGCTGGCGAAAGTAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTCGCGctcct > 1:2151/1‑68 (MQ=255)
cTTGATACGCCGCTGGCGAAAGTAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTCGCGctcct > 1:1280522/1‑68 (MQ=255)
cTTGATACGCCGCTGGCGAAAGTAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTCGCGctcct > 1:1313100/1‑68 (MQ=255)
tACGCCGCTGGCGAAAGTAGGCGGATAAGGCTTATTTGTAAAAGAGCTTGAAGTCGCGCTCCTCGaaaa > 1:1975214/1‑69 (MQ=255)
tACGCCGCTGGCGAAAGTAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTCGCGCTCCTCGaa < 1:1890085/67‑1 (MQ=255)
tACGCCGCTGGCGAAAGTAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTCGCGCTCCTCGaa < 1:950039/67‑1 (MQ=255)
tACGCCGCTGGCGAAAGTAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTCGCGCTCCTCGaa < 1:2393160/67‑1 (MQ=255)
aCGCCGCTGGCGAAAGTAGGCGGGAAAGGCTTATTTGTGAAAGAGCTGGAAGTCGCGCTCCTGGaaaa < 1:193596/68‑1 (MQ=255)
aCGCCGCTGGCGAAAGTAGGCGGGAAAGGCTTATTTGTGAAAGAGCTGGAAGTCGCGCTCCTGGaaaa < 1:940017/68‑1 (MQ=255)
aCGCCGCTGGCGAAAGTAGGCGGGAAAGGCTTATTTGTGAAAGAGCTGGAAGTCGCGCTCCTGGaaaa < 1:1347287/68‑1 (MQ=255)
aCGCCGCTGGCGAAAGTAGGCGGGAAAGGCTTATTTGTGAAAGAGCTGGAAGTCGCGCTCCTGGaaaa < 1:369163/68‑1 (MQ=255)
aCGCCGCTGGCGAAAGTAGGCGGGAAAGGCTTATTTGTGAAAGAGCTGGAAGTCGCGCTCCTGGaaaa < 1:1488376/68‑1 (MQ=255)
aCGCCGCTGGCGAAAGTAGGCGGGAAAGGCTTATTTGTGAAAGAGCTGGAAGTCGCGCTCCTGGaaaa < 1:175819/68‑1 (MQ=255)
aCGCCGCTGGCGAAAGTAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTCGCGCTCCTCGAAAAt < 1:2127417/69‑1 (MQ=255)
aCGCCGCTGGCGAAAGTAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTCGCGCTCCTCGAAAAt < 1:1557467/69‑1 (MQ=255)
aCGCCGCTGGCGAAAGTAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTCGCGCTCCTCGAAAAt < 1:781452/69‑1 (MQ=255)
aCGCCGCTGGCGAAAGTAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTCGCGCTCCTCGAAAAt < 1:1294795/69‑1 (MQ=255)
aCGCCGCTGGCGAAAGTAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTCGCGCTCCTCGAAAAt < 1:1645925/69‑1 (MQ=255)
aCGCCGCTGGCGAAAGTAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTCGCGCTCCTCGAAAAt < 1:2872492/69‑1 (MQ=255)
cgccgcTGGCGAAAGTAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTCGCGCTCCTCGAAAAt < 1:2964727/68‑1 (MQ=255)
cTGGCTAAAGTAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTCGCGCTCCTCGAAAATCGCGcc < 1:1350519/69‑1 (MQ=255)
cTGGCGAAAGTAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTCGCGCTCCTCGAAAATCGCGcc < 1:3261425/69‑1 (MQ=255)
tAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTCGCGCTCCTCGAAAATCGCGCCGATATCGCCg < 1:464260/69‑1 (MQ=255)
tAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTCGCGCTCCTCGAAAATCGCGCCGATATCGCCg < 1:2926709/69‑1 (MQ=255)
tAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTCGCGCTCCTCGAAAATCGCGCCGATATCGCCg < 1:2930602/69‑1 (MQ=255)
ttATTTGTAAAAGAGCTGGAAGTCGCGCTCCTCGAAAATCGCGCCGATATCGCCg < 1:1317956/55‑1 (MQ=255)
ttATTTGTAAAAGAGCTGGAAGTCGCGCTCCTCGAAAATCGCGCCGATATCGCCGTACACTCAATGaaa < 1:2063858/69‑1 (MQ=255)
ttATTTGTAAAAGAGCTGGAAGTCGCGCTCCTCGAAAATCGCGCCGATATCGCCGTACACTCAATGaaa < 1:2714988/69‑1 (MQ=255)
aTTTGTAAAAGAGCTGGAAGTCGCGCTCCTCGAAAATCGCGCCGATATCGCCg < 1:727748/53‑1 (MQ=255)
tttGTGAAAGAGCTGGAAGTCGCGCTCCTGGaaaa < 1:1356718/35‑1 (MQ=37)
tGTAAAAGAGCTGGAAGTCGCGCTCCTCGAAAATCGCGCCGATATCGCCGTACACTCAATGAAAGAtgt > 1:2925033/1‑69 (MQ=255)
tGTAAAAGAGCTGGAAGTCGCGCTCCTCGAAAATCGCGCCGATATCGCCGTACACTCAATGAAAGAtgt > 1:3131714/1‑69 (MQ=255)
tGTAAAAGAGCTGGAAGTCGCGCTCCTCGAAAATCGCGCCGATATCGCCGTACACTCAATGAAAGAtgt > 1:1733348/1‑69 (MQ=255)
tGTAAAAGAGCTGGAAGTCGCGCTCCTCGAAAATCGCGCCGATATCGCCGTACACTCAATGAAAGAtg > 1:1664303/1‑68 (MQ=255)
|
TGGTGACGCGCGGCGATGTGATTCTTGATACGCCGCTGGCGAAAGTAGGCGGAAAAGGCTTATTTGTAAAAGAGCTGGAAGTCGCGCTCCTCGAAAATCGCGCCGATATCGCCGTACACTCAATGAAAGATGT > minE/2407968‑2408100
|
| 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
