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 |
908,257 |
C→T |
63.8% |
S145L (TCA→TTA) |
ycjT → |
predicted hydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 908,257 | 0 | C | T | 63.8%
| 33.0
/ 33.6
| 58 | S145L (TCA→TTA) | ycjT | predicted hydrolase |
| Reads supporting (aligned to +/- strand): ref base C (13/8); new base T (18/19); total (31/27) |
| Fisher's exact test for biased strand distribution p-value = 4.15e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.90e-01 |
TTTCGGCAGACCAACTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTCAGTGCTGATTTCAACAGGCATTGACGCCACGCAAACCAATCACGGTCGCCAACATCTCG > minE/908191‑908316
|
tttCGGCAGACCAACTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTc < 1:2434562/67‑1 (MQ=255)
tttCGGCAGACCAACTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTc < 1:2063434/67‑1 (MQ=255)
tttCGGCAGACCAACTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTc < 1:729377/67‑1 (MQ=255)
tttCGGCAGACCAACTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTc < 1:604092/67‑1 (MQ=255)
tttCGGCAGACCAACTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTc < 1:2319744/67‑1 (MQ=255)
tttCGGCAGACCAACTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTc < 1:1854875/67‑1 (MQ=255)
tttCGGCAGACCAACTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTc < 1:588132/67‑1 (MQ=255)
tttCGGCAGACCAACTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTc < 1:2941650/67‑1 (MQ=255)
tttCGGCAGACCAACTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTc < 1:1433600/67‑1 (MQ=255)
tttCGGCAGACCAACTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTc < 1:1023805/67‑1 (MQ=255)
tttCGGCAGACCAACTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTc < 1:348254/67‑1 (MQ=255)
tCGGCAGCCCAACTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGCCGCGTTAGTg > 1:1220538/1‑69 (MQ=255)
tCGGCAGACCAACTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTTAGTg > 1:2492906/1‑69 (MQ=255)
tCGGCAGACCAACTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTTAGTg > 1:2793160/1‑69 (MQ=255)
tCGGCAGACCAACTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTTAGTg > 1:19864/1‑69 (MQ=255)
tCGGCAGACCAACTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTTAGTg > 1:258215/1‑69 (MQ=255)
tCGGCAGACCAACTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTTAGTg > 1:2322540/1‑69 (MQ=255)
tCGGCAGACCAACTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTTAGTg > 1:2595138/1‑69 (MQ=255)
tCGGCAGACCAACTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTTAGTg > 1:2606558/1‑69 (MQ=255)
tCGGCAGACCAACTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTTAGTg > 1:2127615/1‑69 (MQ=255)
tCGGCAGACCAACTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTTAGTg > 1:64134/1‑69 (MQ=255)
tCGGCAGACCAACTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTTAGTg > 1:749408/1‑69 (MQ=255)
tCGGCAGACCAACTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTTAGTg > 1:1955616/1‑69 (MQ=255)
tCGGCAGACCAACTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTTAGTg > 1:1761054/1‑69 (MQ=255)
tCGGCAGACCAACTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTTAGTg > 1:45359/1‑69 (MQ=255)
tCGGCAGACCAACTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTTAGTg > 1:844435/1‑69 (MQ=255)
tCGGCAGACCAACTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTTAGTg > 1:873415/1‑69 (MQ=255)
tCGGCAGACCAACTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTTAGTg > 1:137924/1‑69 (MQ=255)
tCGGCAGACCAACTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTTAGTg > 1:3226791/1‑69 (MQ=255)
cAGACCAACTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTCAGTGCTg < 1:783254/68‑1 (MQ=255)
cAACTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTCAGTGCTGATTTc > 1:2916352/1‑68 (MQ=255)
aCTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTCAGTGCTGATTTCAAc > 1:406712/1‑69 (MQ=255)
aCTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTCAGTGCTGATTTCAAc > 1:543639/1‑69 (MQ=255)
aCTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTCAGTGCTGATTTCAAc > 1:457372/1‑69 (MQ=255)
aCTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTCAGTGCTGATTTCAAc > 1:3423896/1‑69 (MQ=255)
aCTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTCAGTGCTGATTTCAAc > 1:2767515/1‑69 (MQ=255)
aCTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTCAGTGCTGATTTCAAc > 1:194561/1‑69 (MQ=255)
aCTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTCAGTGCTGATTTCAAc > 1:822806/1‑69 (MQ=255)
aCTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTCAGTGCTGATTTCAAc > 1:1484994/1‑69 (MQ=255)
aCTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTCAGTGCTGATTTCAAc > 1:936860/1‑69 (MQ=255)
gCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTCAGTGCTGATTTCAACAGGc < 1:755986/67‑1 (MQ=255)
gCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTCAGTGCTGATTTCAACAGGc < 1:1112075/67‑1 (MQ=255)
aTTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTCAGTGCTGATTTCAACAGGCATTGa < 1:2439250/68‑1 (MQ=255)
tGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTCAGTGCTGATTTCAACAGGCATTGAc < 1:2896513/67‑1 (MQ=255)
tGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTCAGTGCTGATTTCAACAGGCATTGAc < 1:1121487/67‑1 (MQ=255)
tGGAAATCACTATTACGCCACTGGACGCCGACGCGTTAGTGCTGATTTCAACAGGCATTGACGCCACGc < 1:587932/69‑1 (MQ=255)
tGGAAATCACTATTACGCCACTGGACGCCGACGCGTTAGTGCTGATTTCAACAGGCATTGACGCCACGc < 1:783898/69‑1 (MQ=255)
tGGAAATCACTATTACGCCACTGGACGCCGACGCGTTAGTGCTGATTTCAACAGGCATTGACGCCACGc < 1:447593/69‑1 (MQ=255)
tGGAAATCACTATTACGCCACTGGACGCCGACGCGTTAGTGCTGATTTCAACAGGCATTGACGCCACGc < 1:2685511/69‑1 (MQ=255)
tGGAAATCACTATTACGCCACTGGACGCCGACGCGTTAGTGCTGATTTCAACAGGCATTGACGCCACGc < 1:392347/69‑1 (MQ=255)
tGGAAATCACTATTACGCCACTGGACGCCGACGCGTTAGTGCTGATTTCAACAGGCATTGACGCCACGc < 1:1415177/69‑1 (MQ=255)
tGGAAATCACTATTACGCCACTGGACGCCGACGCGTTAGTGCTGATTTCAACAGGCATTGACGCCACGc < 1:2689349/69‑1 (MQ=255)
tGGAAATCACTATTACGCCACTGGACGCCGACGCGTTAGTGCTGATTTCAACAGGCATTGACGCCACGc < 1:2267223/69‑1 (MQ=255)
tGGAAATCACTATTACGCCACTGGACGCCGACGCGTTAGTGCTGATTTCAACAGGCATTGACGCCACGc < 1:2103187/69‑1 (MQ=255)
tGGAAATCACTATTACGCCACTGGACGCCGACGCGTTAGTGCTGATTTCAACAGGCATTGACGCCACGc < 1:2066589/69‑1 (MQ=255)
tGGAAATCACTATTACGCCACTGGACGCCGACGCGTTAGTGCTGATTTCAACAGGCATTGACGCCACGc < 1:2010090/69‑1 (MQ=255)
tGGAAATCACTATTACGCCACTGGACGCCGACGCGTTAGTGCTGATTTCAACAGGCATTGACGCCACGc < 1:1937791/69‑1 (MQ=255)
tGGAAATCACTATTACGCCACTGGACGCCGACGCGTTAGTGCTGATTTCAACAGGCATTGACGCCACGc < 1:1450250/69‑1 (MQ=255)
tGGAAATCACTATTACGCCACTGGACGCCGACGCGTTAGTGCTGATTTCAACAGGCATTGACGCCACGc < 1:1604206/69‑1 (MQ=255)
ggAAATCACTATTACGCCACTGGGCGCCGACGCGTTAGTGCTGATTTCAACAGGCATTGACGCCACGc < 1:234867/68‑1 (MQ=255)
ggAAATCACTATTACGCCACTGGACGCCGACGCGTTAGTGCTGATTTCAACAGGCATTGACGCCACGc < 1:1784171/68‑1 (MQ=255)
cACTATTACGCCACTGGACGCCGACGCGTTAGTGCTGATTTCAACAGGCATTGACGCCACGc < 1:3180760/62‑1 (MQ=255)
aCGCCACTGGACGCCGACGCGTCAGTGCTGATTTCAACAGGCATTGACGCCACGCAAACCAATCACgg > 1:910629/1‑68 (MQ=255)
aCGCCACTGGACGCCGACGCGTCAGTGCTGATTTCAACAGGCATTGACGCCACGCAAACCAATCACGGt > 1:753099/1‑69 (MQ=255)
cACTGGACGCCGACGCGTCAGTGCTGATTTCAACAGGCATTGACGCCACGCAAACCAATCACGGTCGcc < 1:3290432/69‑1 (MQ=255)
ggACGCCGACGCGTTAGTGCTGATTTCAACAGGCATTGACGCCACGc < 1:1732812/47‑1 (MQ=255)
ggACGCCGACGCGTCAGTGCTGATTTCAACAGGCATTGAc < 1:3197994/40‑1 (MQ=255)
ccGACGCGTCAGTGCTGATTTCAACAGGCATTGACGCCACGCAAACCATTCACGGTCGCCAACATCTcg > 1:1037292/1‑69 (MQ=255)
cgcgTTAGTGCTGATTTCAACAGGCATTGACGCCACGc < 1:2923070/38‑1 (MQ=255)
|
TTTCGGCAGACCAACTGCCGCTCATTGCGCTGGAAATCACTATTACGCCACTGGACGCCGACGCGTCAGTGCTGATTTCAACAGGCATTGACGCCACGCAAACCAATCACGGTCGCCAACATCTCG > minE/908191‑908316
|
| 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
