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 |
774,341 |
C→T |
68.2% |
intergenic (‑135/‑37) |
ymfC ← / → icd |
23S rRNA pseudouridine synthase/isocitrate dehydrogenase, specific for NADP+ |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 774,341 | 0 | C | T | 68.2%
| 36.1
/ 21.3
| 47 | intergenic (‑135/‑37) | ymfC/icd | 23S rRNA pseudouridine synthase/isocitrate dehydrogenase, specific for NADP+ |
| Reads supporting (aligned to +/- strand): ref base C (8/7); new base T (17/15); total (25/22) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AAAAAATTGCTCTAAAGCATCCGTATCGCAGGACGCAAACGCATATGCAACGTGGTGGCAGACGAGCAAACCAGTAGCGCTCGAAGGAGAGGTGAATGGAAAGTAAAGTAGTTG > minE/774283‑774396
|
aaaaaaTTGCTCTAAAGCATCCGTATCGCAGGACGCAAACGCATATGCAACGTGGTGGTAGACGAGCaa < 1:2084544/69‑1 (MQ=255)
aaaaaaTTGCTCTAAAGCATCCGTATCGCAGGACGCAAACGCATATGCAACGTGGTGGTAGACGAGCaa < 1:2832753/69‑1 (MQ=255)
aaaaaaTTGCTCTAAAGCATCCGTATCGCAGGACGCAAACGCATATGCAACGTGGTGGTAGACGAGCaa < 1:2957401/69‑1 (MQ=255)
aaaaaaTTGCTCTAAAGCATCCGTATCGCAGGACGCAAACGCATATGCAACGTGGTGGTAGACGAGCaa < 1:1272238/69‑1 (MQ=255)
aaaaaaTTGCTCTAAAGCATCCGTATCGCAGGACGCAAACGCATATGCAACGTGGTGGTAGACGAGCaa < 1:2196238/69‑1 (MQ=255)
aaaaaaTTGCTCTAAAGCATCCGTATCGCAGGACGCAAACGCATATGCAACGTGGTGGTAGACGAGCaa < 1:2147241/69‑1 (MQ=255)
aaaaaaTTGCTCTAAAGCATCCGTATCGCAGGACGCAAACGCATATGCAACGTGGTGGTAGACGAGCaa < 1:1885019/69‑1 (MQ=255)
aaaaaaTTGCTCTAAAGCATCCGTATCGCAGGACGCAAACGCATATGCAACGTGGTGGTAGACGAGCaa < 1:3296927/69‑1 (MQ=255)
aaaaaaTTGCTCTAAAGCATCCGTATCGCAGGACGCAAACGCATATGCAACGTGGTGGTAGACGAGCaa < 1:1502208/69‑1 (MQ=255)
aaaaaaTTGCTCTAAAGCATCCGTATCGCAGGACGCAAACGCATATGCAACGTGGTGGTAGACGAGCaa < 1:978819/69‑1 (MQ=255)
aaaaaaTTGCTCTAAAGCATCCGTATCGCAGGACGCAAACGCATATGCAACGTGGTGGTAGACGAGCaa < 1:903885/69‑1 (MQ=255)
aaaaaaTTGCTCTAAAGCATCCGTATCGCAGGACGCAAACGCATATGCAACGTGGTGGTAGACGAGCaa < 1:3386129/69‑1 (MQ=255)
aaaaaaTTGCTCTAAAGCATCCGTATCGCAGGACGCAAACGCATATGCAACGTGGTGGTAGACGAGCaa < 1:838381/69‑1 (MQ=255)
aaaaaaTTGCTCTAAAGCATCCGTATCGCAGGACGCAAACGCATATGCAACGTGGTGGTAGACGAGCaa < 1:389100/69‑1 (MQ=255)
aTCCGTATCGCAGGACGCAAACGCATATGCAACGTGGTGGCAGACGAGCAAACCAGTAGTGCTCGAAgg < 1:2442944/69‑1 (MQ=255)
gTATCGCAGGACGCAAACGCATATGCAACGTGGTGGTAGACGAGCaa < 1:920547/47‑1 (MQ=255)
tCGCAGGACGCAAACGCATATGCAACGTGGTGGCAGACGAGCAAACCAGTAGCGCTCGAAGGAGAGGTg < 1:3043225/69‑1 (MQ=255)
tCGCAGGACGCAAACGCATATGCAACGTGGTGGCAGACGAGCAAACCAGTAGCGCTCGAAGGAGAGGTg < 1:2777183/69‑1 (MQ=255)
cGCAAACGCATATGCAACGTGGTGGCAGACGAGCAAACCAGTAGCGCTCGAAGGAGAGGTGAATGGaa > 1:2057/1‑68 (MQ=255)
cGCAAACGCATATGCAACGTGGTGGCAGACGAGCAAACCAGTAGCGCTCGAAGGAGAGGTGAATGGaa > 1:342819/1‑68 (MQ=255)
aaaCGCATATGCAACGTGGTGGCAGACGAGCAAACCAGTAGCGCTCGAAGGAGAGGTg < 1:2267949/58‑1 (MQ=255)
tatGCAACGTGGTGGCAGACGAGCAAACCAGTAGCGCTCGAAGGAGAGGTGAATGGAAAGTAAagtagt < 1:3064395/69‑1 (MQ=255)
tatGCAACGTGGTGGCAGACGAGCAAACCAGTAGCGCTCGAAGGAGAGGTGAATGGAAAGTAAagtagt < 1:249219/69‑1 (MQ=255)
atGCAACGTGGTGGTAGACGAGCAAACCAGTAGCGCTCGAAGGAGAGGTGAATGGaaagta > 1:2647771/1‑61 (MQ=255)
atGCAACGTGGTGGTAGACGAGCAAACCAGTAGCGCTCGAAGGAGAGGTGAATGGaaagta > 1:3009353/1‑61 (MQ=255)
atGCAACGTGGTGGTAGACGAGCAAACCAGTAGCGCTCGAAGGAGAGGTGAATGGaaagta > 1:3241251/1‑61 (MQ=255)
atGCAACGTGGTGGTAGACGAGCAAACCAGTAGCGCTCGAAGGAGAGGTGAATGGaaagta > 1:2998203/1‑61 (MQ=255)
atGCAACGTGGTGGTAGACGAGCAAACCAGTAGCGCTCGAAGGAGAGGTGAATGGaaagta > 1:2990388/1‑61 (MQ=255)
atGCAACGTGGTGGTAGACGAGCAAACCAGTAGCGCTCGAAGGAGAGGTGAATGGaaagta > 1:2264219/1‑61 (MQ=255)
atGCAACGTGGTGGTAGACGAGCAAACCAGTAGCGCTCGAAGGAGAGGTGAATGGaaagta > 1:2170340/1‑61 (MQ=255)
atGCAACGTGGTGGTAGACGAGCAAACCAGTAGCGCTCGAAGGAGAGGTGAATGGaaagta > 1:2120528/1‑61 (MQ=255)
atGCAACGTGGTGGTAGACGAGCAAACCAGTAGCGCTCGAAGGAGAGGTGAATGGaaagta > 1:1282939/1‑61 (MQ=255)
atGCAACGTGGTGGTAGACGAGCAAACCAGTAGCGCTCGAAGGAGAGGTGAATGGaaagta > 1:1306010/1‑61 (MQ=255)
atGCAACGTGGTGGTAGACGAGCAAACCAGTAGCGCTCGAAGGAGAGGTGAATGGaaagta > 1:1754180/1‑61 (MQ=255)
atGCAACGTGGTGGTAGACGAGCAAACCAGTAGCGCTCGAAGGAGAGGTGAATGGaaagta > 1:1739204/1‑61 (MQ=255)
atGCAACGTGGTGGTAGACGAGCAAACCAGTAGCGCTCGAAGGAGAGGTGAATGGaaagta > 1:1358412/1‑61 (MQ=255)
atGCAACGTGGTGGTAGACGAGCAAACCAGTAGCGCTCGAAGGAGAGGTGAATGGaaagta > 1:1706255/1‑61 (MQ=255)
atGCAACGTGGTGGTAGACGAGCAAACCAGTAGCGCTCGAAGGAGAGGTGAATGGaaagta > 1:1601073/1‑61 (MQ=255)
atGCAACGTGGTGGTAGACGAGCAAACCAGTAGCGCTCGAAGGAGAGGTGAATGGaaagta > 1:1576951/1‑61 (MQ=255)
atGCAACGTGGTGGTAGACGAGCAAACCAGTAGCGCTCGAAGGAGAGGTGAATGGaaag > 1:2594977/1‑59 (MQ=255)
atGCAACGTGGTGGCAGACGAGCAAACCAGTAGCGCTCGAAGGAGAGGTGAATGGAAAGTAAagtagt < 1:2794227/68‑1 (MQ=255)
tGCAACGTGTTGGCAGACGAGCAAACCAGTAGCGCTCGAAGGAGAGGTGAATGGAAAGTAAAGTAgttg > 1:2723372/1‑69 (MQ=255)
tGCAACGTGGTGGCAGACGAGCAAACCAGTAGCGCTCGAAGGAGAGGTGAATGGAAAGTAAAGTAgttg > 1:501949/1‑69 (MQ=255)
tGCAACGTGGTGGCAGACGAGCAAACCAGTAGCGCTCGAAGGAGAGGTGAATGGAAAGTAAAGTAgttg > 1:3418106/1‑69 (MQ=255)
tGCAACGTGGTGGCAGACGAGCAAACCAGTAGCGCTCGAAGGAGAGGTGAATGGAAAGTAAAGTAgttg > 1:2002188/1‑69 (MQ=255)
tGCAACGTGGTGGCAGACGAGCAAACCAGTAGCGCTCGAAGGAGAGGTGAATGGAAAGTAAAGTAgttg > 1:976929/1‑69 (MQ=255)
tGCAACGTGGTGGCAGACGAGCAAACCAGTAGCGCTCGAAGGAGAGGTGAATGGAAAGTAAAGTAgttg > 1:2072995/1‑69 (MQ=255)
cAGACGAGCAAACCAGTAGCGCTCGAAGGAGAGGTg < 1:641079/36‑1 (MQ=255)
|
AAAAAATTGCTCTAAAGCATCCGTATCGCAGGACGCAAACGCATATGCAACGTGGTGGCAGACGAGCAAACCAGTAGCGCTCGAAGGAGAGGTGAATGGAAAGTAAAGTAGTTG > minE/774283‑774396
|
| 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
