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 |
1,039,558 |
C→T |
38.7% |
P115P (CCC→CCT) |
nth → |
DNA glycosylase and apyrimidinic (AP) lyase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,039,558 | 0 | C | T | 38.7%
| 33.5
/ 42.5
| 67 | P115P (CCC→CCT) | nth | DNA glycosylase and apyrimidinic (AP) lyase |
| Reads supporting (aligned to +/- strand): ref base C (13/28); new base T (14/12); total (27/40) |
| Fisher's exact test for biased strand distribution p-value = 8.13e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCCGTATCTTGCTGGAGCAGCATAATGGCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCCGGCGTAGGTCGTAAAACAGCCAACGTCGTATTAAACACTGCATTCGGCTGGCCGACTATTGCT > minE/1039491‑1039621
|
gCCGTATCTTGCTGGAGCAGCATAATGGCGAGGTTCCGGAAGATCGTGCTGCGCTT‑AAGCCCTGCCCgg < 1:558403/69‑1 (MQ=255)
gTATCTTGCTGGAGCAGCATAATGGCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCCgg < 1:847243/67‑1 (MQ=255)
gTATCTTGCTGGAGCAGCATAATGGCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCCgg < 1:2297208/67‑1 (MQ=255)
gTATCTTGCTGGAGCAGCATAATGGCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCCgg < 1:296488/67‑1 (MQ=255)
tCTTGCTGGAGCAGCATAATGGCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCCGGCGTAg > 1:2877045/1‑69 (MQ=255)
tCTTGCTGGAGCAGCATAATGGCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCCGGCGTAg > 1:3272381/1‑69 (MQ=255)
gCTGGAGCAGCATAATGGCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCCGGCGTAGGTc > 1:1004949/1‑68 (MQ=255)
gCTGGAGCAGCATAATGGCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCCGGCGTAGGTc > 1:95574/1‑68 (MQ=255)
gCTGGAGCAGCATAATGGCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCCGGCGTAGGTc > 1:1113102/1‑68 (MQ=255)
gCTGGAGCAGCATAATGGCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCCGGCGTAGGTc > 1:2731509/1‑68 (MQ=255)
gCTGGAGCAGCATAATGGCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCCGGCGTAGGTc > 1:3243870/1‑68 (MQ=255)
ggAGCAGCATAATGGCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCCGGCGTAGGTCGTaa < 1:992508/69‑1 (MQ=255)
ggAGCAGCATAATGGCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCCGGCGTAGGTCGTaa < 1:2365172/69‑1 (MQ=255)
ggAGCAGCATAATGGCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCCGGCGTAGGTCGTaa < 1:2361242/69‑1 (MQ=255)
ggAGCAGCATAATGGCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCCGGCGTAGGTCGTaa < 1:22935/69‑1 (MQ=255)
ggAGCAGCATAATGGCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCCGGCGTAGGTCGTaa < 1:2244559/69‑1 (MQ=255)
tAATGGCGAGGTTCCTGAAGATCGTGCTGCGCTTGAAGCCCTGCCTGGTGTAGGTCGTAAAACAGCCa > 1:791961/1‑68 (MQ=255)
tAATGGCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCTGGTGTAGGTCGTAAAACa > 1:1672572/1‑64 (MQ=255)
tAATGGCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCTGGTGTAGGTCGTAAAACAGCCaa > 1:2598168/1‑69 (MQ=255)
tAATGGCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCTGGTGTAGGTCGTAAAACAGCCaa > 1:1804106/1‑69 (MQ=255)
tAATGGCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCTGGTGTAGGTCGTAAAACAGCCaa > 1:2653480/1‑69 (MQ=255)
tAATGGCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCTGGTGTAGGTCGTAAAACAGCCaa > 1:2498331/1‑69 (MQ=255)
tAATGGCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCTGGTGTAGGTCGTAAAACAGCCaa > 1:2469014/1‑69 (MQ=255)
tAATGGCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCTGGTGTAGGTCGTAAAACAGCCaa > 1:913401/1‑69 (MQ=255)
tAATGGCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCTGGTGTAGGTCGTAAAACAGCCaa > 1:1537942/1‑69 (MQ=255)
tAATGGCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCTGGTGTAGGTCGTAAAACAGCCaa > 1:2955234/1‑69 (MQ=255)
tAATGGCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCTGGTGTAGGTCGTAAAACAGCCaa > 1:1608366/1‑69 (MQ=255)
tAATGGCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCTGGTGTAGGTCGTAAAACAGCCaa > 1:2132180/1‑69 (MQ=255)
tAATGGCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCTGGTGTAGGTCGTAAAACAGCCaa > 1:3093530/1‑69 (MQ=255)
tAATGGCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCTGGTGTAGGTCGTAAAACAGCCaa > 1:2013940/1‑69 (MQ=255)
aTGGCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCCGGCGTAGGTCGTAAAACAGCCAAcg > 1:1443645/1‑69 (MQ=255)
aTGGCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCCGGCGTAGGTCGTAAAACAGCCAAcg > 1:417172/1‑69 (MQ=255)
aTGGCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCCGGCGTAGGTCGTAAAACAGCCAAcg > 1:2537885/1‑69 (MQ=255)
ggCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCCGGCGTAGGTCGTAAAAc < 1:312947/59‑1 (MQ=255)
ggCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCCGGCGTAGGTCGTAAAAc < 1:3426769/59‑1 (MQ=255)
ggCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCCGGCGTAGGTCGTAAAAc < 1:1811971/59‑1 (MQ=255)
gAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCTGGTGTAGGTCGTAAAACAGCCAACGTCGTa < 1:513989/69‑1 (MQ=255)
gAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCTGGTGTAGGTCGTAAAACAGCCAACGTCGTa < 1:86150/69‑1 (MQ=255)
gAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCTGGTGTAGGTCGTAAAACAGCCAACGTCGTa < 1:2457228/69‑1 (MQ=255)
gAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCTGGTGTAGGTCGTAAAACAGCCAACGTCGTa < 1:2525071/69‑1 (MQ=255)
gAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCTGGTGTAGGTCGTAAAACAGCCAACGTCGTa < 1:237546/69‑1 (MQ=255)
gAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCTGGTGTAGGTCGTAAAACAGCCAACGTCGTa < 1:2319572/69‑1 (MQ=255)
gAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCTGGTGTAGGTCGTAAAACAGCCAACGTCGTa < 1:22482/69‑1 (MQ=255)
gAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCTGGTGTAGGTCGTAAAACAGCCAACGTCGTa < 1:1264407/69‑1 (MQ=255)
gAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCTGGTGTAGGTCGTAAAACAGCCAACGTCGTa < 1:1687090/69‑1 (MQ=255)
gAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCTGGTGTAGGTCGTAAAACAGCCAACGTCGTa < 1:1131766/69‑1 (MQ=255)
gAGGTTCCGGAAGATCGTGCTGCCCTTGAAGCCCTGCCTGGTGTAGGTCGTAAAACAGCCAACGTCGTa < 1:981471/69‑1 (MQ=255)
aGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCTGGTGTAGGTCGTAAAACAGCCAACGTCGTa < 1:1917544/68‑1 (MQ=255)
gTTCCGGGAGATCGTGCTGCGCTTGAAGCCCTGCCCGGCGTAGGTCGTAAAACAGCCAACGTCGTATTa < 1:2453568/69‑1 (MQ=255)
gTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCCGGCGTAGGTCGTAAAACAGCCAACGTCGTATTa < 1:806535/69‑1 (MQ=255)
gTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCCGGCGTAGGTCGTAAAACAGCCAACGTCGTATTa < 1:1518378/69‑1 (MQ=255)
gTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCCGGCGTAGGTCGTAAAACAGCCAACGTCGTATTa < 1:1095858/69‑1 (MQ=255)
gTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCCGGCGTAGGTCGTAAAACAGCCAACGTCGTATTa < 1:18220/69‑1 (MQ=255)
gTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCCGGCGTAGGTCGTAAAACAGCCAACGTCGTATTa < 1:3014795/69‑1 (MQ=255)
ttCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCCGGCGTAGGTCGTAAAACAGCCAACGTCGTATTa < 1:871516/68‑1 (MQ=255)
ttCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCCGGCGTAGGTCGTAAAACAGCCAACGTCGTATTa > 1:316670/1‑68 (MQ=255)
ttCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCCGGCGTAGGTCGTAAAACAGCCAACGTCGTATTa < 1:2025755/68‑1 (MQ=255)
ccGGAAGATCGTGCTGCGCTTGAAGCCCTGCCCGGCGTAGGTCGTAAAACAGCCAACGTCGTATTAAac > 1:3419881/1‑69 (MQ=255)
ctgcGCTTGAAGCCCTGCCCGGCGTAGGTCGTAAAACAGCCAACGTCGTATTAAACACTGCATTCGGCt > 1:3201873/1‑69 (MQ=255)
gcgcTTGAAGCCCTGCCCGGCGTAGGTCGTAAAACAGCCAACGTCGTATTAAACACTGCATTCGGCTg < 1:1090486/68‑1 (MQ=255)
tGAAGCCCTGCCCGGCGTAGGTCGTAAAACAGCCAACGTCGTATTAAACACTGCATTCGGCTGGCCGAc < 1:1544071/69‑1 (MQ=255)
tGAAGCCCTGCCCGGCGTAGGTCGTAAAACAGCCAACGTCGTATTAAACACTGCATTCGGCTGGCCGAc < 1:159355/69‑1 (MQ=255)
tGAAGCCCTGCCCGGCGTAGGTCGTAAAACAGCCAACGTCGTATTAAACACTGCATTCGGCTGGCCGAc < 1:353748/69‑1 (MQ=255)
tGAAGCCCTGCCCGGCGTAGGTCGTAAAACAGCCAACGTCGTATTAAACACTGCATTCGGCTGGCCGAc < 1:176119/69‑1 (MQ=255)
tGAAGCCCTGCCCGGCGTAGGTCGTAAAACAGCCAACGTCGTATTAAACACTGCATTCGGCTGGCCGAc < 1:2652711/69‑1 (MQ=255)
cTGCCCGGCGTAGGTCGTAAAACAGCCAACGTCGTATTAAACACTGCATTCGGCTGGCCGACTATTGCt < 1:1757263/69‑1 (MQ=255)
tGCCCGGCGTAGGTCGTAAAACAGCCAACGTCGTATTAAACACTGCATTCGGCTGGCCGACTATTGCt < 1:2030818/68‑1 (MQ=255)
|
GCCGTATCTTGCTGGAGCAGCATAATGGCGAGGTTCCGGAAGATCGTGCTGCGCTTGAAGCCCTGCCCGGCGTAGGTCGTAAAACAGCCAACGTCGTATTAAACACTGCATTCGGCTGGCCGACTATTGCT > minE/1039491‑1039621
|
| 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
