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 |
1,611,069 |
A→G |
100% |
C223C (TGT→TGC) |
eutB ← |
ethanolamine ammonia‑lyase, large subunit, heavy chain |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,611,069 | 0 | A | G | 80.2%
| 48.2
/ 5.4
| 35 | C223C (TGT→TGC) | eutB | ethanolamine ammonia‑lyase, large subunit, heavy chain |
| Reads supporting (aligned to +/- strand): ref base A (7/0); new base G (28/0); total (35/0) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.86e-01 |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
CGCCACGACGGATCGCTTCGATCTGGGTGGTGACGTGCGCCAGTACACAGCCCTGAGTTGGGATGTTGAATTTGTCGATCACGCCATAGATGGTATCCAACACGCGGCTTAAGT > minE/1611023‑1611136
|
cgcCACGACGGATCGCTTCGATCTGGGTGGTGACGTGCGCCAGTACACAGCCCTGa > 1:584053/1‑56 (MQ=255)
acgacgGATCGCTTCGATCTGGGTGGTGACGTGCGCCAGTACACAGCCCTGAGTTGGGATGTTGAAttt > 1:600452/1‑69 (MQ=255)
acgacgGATCGCTTCGATCTGGGTGGTGACGTGCGCCAGTACACAGCCCTGAGTTGGGATGTTGAAttt > 1:1517998/1‑69 (MQ=255)
acgacgGATCGCTTCGATCTGGGTGGTGACGTGCGCCAGTACACAGCCCTGAGTTGGGATGTTGAAttt > 1:2051415/1‑69 (MQ=255)
acgacgGATCGCTTCGATCTGGGTGGTGACGTGCGCCAGTACACAGCCCTGAGTTGGGATGTTGAAtt > 1:3010642/1‑68 (MQ=255)
acgacgGATCGCTTCGATCTGGGTGGTGACGTGCGCCAGTACACAGCCCTGAGTTGGGATGTTGAAtt > 1:1594466/1‑68 (MQ=255)
cgacgGCTCGCTTCGATCTGGGTGGTGACGTGCGCCAGTACGCAGCCCTGAGTTGGGATGTTGAATTTg > 1:422/1‑69 (MQ=255)
cgacgGATCGGTTCGATCTGGGTGGTGACGTGCGCCAGTACGCAGCCCTGAGTTGGGATGTTGAATTTg > 1:2105075/1‑69 (MQ=39)
cgacgGATCGCTTCGATCTGGGTGGTGACGTGCGCCAGTACGCAGCCCTGAGTTGGGa > 1:838295/1‑58 (MQ=255)
cgacgGATCGCTTCGATCTGGGTGGTGACGTGCGCCAGTACGCAGCCCTGAGTTGGGAt > 1:2589391/1‑59 (MQ=255)
cgacgGATCGCTTCGATCTGGGTGGTGACGTGCGCCAGTACGCAGCCCTGAGTTGGGATGTTGAAttt > 1:1985584/1‑68 (MQ=255)
cgacgGATCGCTTCGATCTGGGTGGTGACGTGCGCCAGTACGCAGCCCTGAGTTGGGATGTTGAATTTg > 1:497518/1‑69 (MQ=255)
cgacgGATCGCTTCGATCTGGGTGGTGACGTGCGCCAGTACGCAGCCCTGAGTTGGGATGTTGAATTTg > 1:2938789/1‑69 (MQ=255)
cgacgGATCGCTTCGATCTGGGTGGTGACGTGCGCCAGTACGCAGCCCTGAGTTGGGATGTTGAATTTg > 1:3147674/1‑69 (MQ=255)
cgacgGATCGCTTCGATCTGGGTGGTGACGTGCGCCAGTACGCAGCCCTGAGTTGGGATGTTGAATTTg > 1:3253424/1‑69 (MQ=255)
cgacgGATCGCTTCGATCTGGGTGGTGACGTGCGCCAGTACGCAGCCCTGAGTTGGGATGTTGAATTTg > 1:3311079/1‑69 (MQ=255)
cgacgGATCGCTTCGATCTGGGTGGTGACGTGCGCCAGTACGCAGCCCTGAGTTGGGATGTTGAATTTg > 1:3313810/1‑69 (MQ=255)
cgacgGATCGCTTCGATCTGGGTGGTGACGTGCGCCAGTACGCAGCCCTGAGTTGGGATGTTGAATTTg > 1:435250/1‑69 (MQ=255)
cgacgGATCGCTTCGATCTGGGTGGTGACGTGCGCCAGTACGCAGCCCTGAGTTGGGATGTTGAATTTg > 1:2709199/1‑69 (MQ=255)
cgacgGATCGCTTCGATCTGGGTGGTGACGTGCGCCAGTACGCAGCCCTGAGTTGGGATGTTGAATTTg > 1:505689/1‑69 (MQ=255)
cgacgGATCGCTTCGATCTGGGTGGTGACGTGCGCCAGTACGCAGCCCTGAGTTGGGATGTTGAATTTg > 1:74365/1‑69 (MQ=255)
cgacgGATCGCTTCGATCTGGGTGGTGACGTGCGCCAGTACGCAGCCCTGAGTTGGGATGTTGAATTTg > 1:825123/1‑69 (MQ=255)
cgacgGATCGCTTCGATCTGGGTGGTGACGTGCGCCAGTACGCAGCCCTGAGTTGGGATGTTGAATTTg > 1:84554/1‑69 (MQ=255)
cgacgGATCGCTTCGATCTGGGTGGTGACGTGCGCCAGTACGCAGCCCTGAGTTGGGATGTTGAATTTg > 1:911242/1‑69 (MQ=255)
cgacgGATCGCTTCGATCTGGGTGGTGACGTGCGCCAGTACGCAGCCCTGAGTTGGGATGTTGAATTTg > 1:953665/1‑69 (MQ=255)
cgacgGATCGCTTCGATCTGGGTGGTGACGTGCGCCAGTACGCAGCCCTGAGTTGGGATGTTGAATTTg > 1:1131801/1‑69 (MQ=255)
cgacgGATCGCTTCGATCTGGGTGGTGACGTGCGCCAGTACGCAGCCCTGAGTTGGGATGTTGAATTTg > 1:1331655/1‑69 (MQ=255)
cgacgGATCGCTTCGATCTGGGTGGTGACGTGCGCCAGTACGCAGCCCTGAGTTGGGATGTTGAATTTg > 1:1744334/1‑69 (MQ=255)
cgacgGATCGCTTCGATCTGGGTGGTGACGTGCGCCAGTACGCAGCCCTGAGTTGGGATGTTGAATTTg > 1:2803169/1‑69 (MQ=255)
cgacgGATCGCTTCGATCTGGGTGGTGACGTGCGCCAGTACGCAGCCCTGAGTTGGGATGTTGAATTTg > 1:1908383/1‑69 (MQ=255)
cgacgGATCGCTTCGATCTGGGTGGTGACGTGCGCCAGTACGCAGCCCTGAGTTGGGATGTTGAATTTg > 1:1970415/1‑69 (MQ=255)
cgacgGATCGCTTCGATCTGGGTGGTGACGTGCGCCAGTACGCAGCCCTGAGTTGGGATGTTGAATTTg > 1:2051299/1‑69 (MQ=255)
cgacgGATCGCTTCGATCTGGGTGGTGACGTGCGCCAGTACGCAGCCCTGAGTTGGGATGTTGAATTTg > 1:2167320/1‑69 (MQ=255)
cgacgGATCGCTTCGATCTGGGTGGTGACGTGCGCCAGTACGCAGCCCTGAGTTGGGATGTTGAATTTg > 1:2296128/1‑69 (MQ=255)
gACGTGCGCCAGTACACAGCCCTGAGTTGGGATGTTGAATTTGTCGATCACGCCATAGATGGTATCCaa > 1:3395265/1‑69 (MQ=255)
acacAGCCCTGAGTTGGGATGTTGAATTTGTCGATCACGCCATAGATGGTATCCAACACGCGGCTTAAg > 1:3023935/1‑69 (MQ=255)
acacAGCCCTGAGTTGGGATGTTGAATTTGTCGATCACGCCATAGATGGTATCCAACACGCGGCTTAAg > 1:127477/1‑69 (MQ=255)
acacAGCCCTGAGTTGGGATGTTGAAATTGTCGATCACGCCATAGATGGTATCCAACACGCGGCTTAAg > 1:1525118/1‑69 (MQ=255)
cacaGCCCTGAGTTGGGATGTTGAATTTGTCGATCACGCCATa > 1:3396690/1‑43 (MQ=255)
cacaGCCCTGAGTTGGGATGTTGAATTTGTCGATCACGCCATa > 1:2954622/1‑43 (MQ=255)
cacaGCCCTGAGTTGGGATGTTGAATTTGTCGATCACGCCATa > 1:1711011/1‑43 (MQ=255)
cacaGCCCTGAGTTGGGATGTTGAATTTGTCGATCACGCCATa > 1:1625498/1‑43 (MQ=255)
cacaGCCCTGAGTTGGGATGTTGAATTTGTCGATCACGCCATa > 1:1268656/1‑43 (MQ=255)
cacaGCCCTGAGTTGGGATGTTGAATTTGTCGATCACGCCATa > 1:1367999/1‑43 (MQ=255)
cacaGCCCTGAGTTGGGATGTTGAATTTGTCGATCACGCCATAGATGGTATCCAACACGCGGCTTAAGt > 1:1903935/1‑69 (MQ=255)
cacaGCCCTGAGTTGGGATGTTGAATTTGTCGATCACGCCATAGATGGTATCCAACACGCGGCTTAAGt > 1:1488107/1‑69 (MQ=255)
cacaGCCCTGAGTTGGGATGTTGAATTTGTCGATCACGCCATAGATGGTATCCAACACGCGGCTTAAGt > 1:1096701/1‑69 (MQ=255)
cacaGCCCTGAGTTGGGATGTTGAATTAGTCGATCACGCCAt > 1:1366061/1‑42 (MQ=255)
|
CGCCACGACGGATCGCTTCGATCTGGGTGGTGACGTGCGCCAGTACACAGCCCTGAGTTGGGATGTTGAATTTGTCGATCACGCCATAGATGGTATCCAACACGCGGCTTAAGT > minE/1611023‑1611136
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
