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 |
|
A1 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,939,281 |
C→T |
45.5% |
E207K (GAA→AAA) |
ygdE ← |
predicted methyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,939,281 | 0 | C | T | 45.5%
| 10.5
/ 57.0
| 44 | E207K (GAA→AAA) | ygdE | predicted methyltransferase |
| Reads supporting (aligned to +/- strand): ref base C (12/12); new base T (10/10); total (22/22) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.88e-01 |
AGTTGGTAGGTCCAGCCGCCAGGGCAAGCGCCTAAATCCACCGCCCACATCCCGTTCGCCAGGCGTTCATCCCACTCATCCGCAGGAATAAACACATGAAATGCCTCTTCCAGTTTGAGCGTGGAACGACTCGGCGC > W3110S.gb/2939214‑2939350
|
aGTTGGTAGGTCCAGCCGCCAGGGCAAGCGCCTAAATCCACCGCCCACATCCCGTTCGCCAGGCGTTCATc < 1:3425928/71‑1 (MQ=255)
gTTGGTAGGTCCAGCCGCCAGGGCAAGCGCCTAAATCCACCGCCCACATCCCGTTCGCCAGGCGTTCATc < 1:787549/70‑1 (MQ=255)
tCCAGCCGCCAGGGCAAGCGCCTAAATCCACCGCCCACATCCCGTTCGCCAGGCGTTCATCCCACTCATcc > 1:2987274/1‑71 (MQ=255)
ccAGCCGCCAGGGCAAGCGCCTAAATCCACCGCCCACATCCCGTTCGCCAGGCGTTTATCCCACTCATcc > 1:2774758/1‑70 (MQ=255)
ccAGCCGCCAGGGCAAGCGCCTAAATCCACCGCCCACATCCCGTTCGCCAGGCGTTCATCCCACTCATCCg > 1:4014226/1‑71 (MQ=255)
cAGCCGCCAGGGCAAGCGCCTAAATCCACCGCCCACATCCCGTTCGCCAGGCGTTCATCCCACTCATCCg > 1:589467/1‑70 (MQ=255)
ccgccAGGGCAAGCGCCTAAATCCACCGCCCACATCCCGTTCGCCAGGCGTTTATCCCACTCATCCGCAgg < 1:3795491/71‑1 (MQ=255)
aGGGCAAGCGCCTAAATCCACCGCCCACATCCCGTTCGCCAGGCGTTCATCCCACTCATCCGCAGGAATa > 1:1726376/1‑70 (MQ=255)
cAAGCGCCTAAATCCACCGCCCACATCCCGTTCGCCAGGCGTTTATCCCACTCATCCGCAGTAATAAacac < 1:3570360/71‑1 (MQ=255)
cAAGCGCCTAAATCCACCGCCCACATCCCGTTCGCCAGGCGTTTATCCCACTCATCCGCAGGAATAAacac < 1:1230934/71‑1 (MQ=255)
cAAGCGCCTAAATCCACCGCCCACATCCCGTTCGCCAGGCGTTTATCCCACTCATCCGCAGGAATAAacac < 1:2229924/71‑1 (MQ=255)
cgcCTAAATCCACCGCCCACATCCCGTTCGCCAGGCGTTTATCCCACTCATCCGCAGGAATAAACACATGa < 1:240299/71‑1 (MQ=255)
ccTAAATCCACCGCCCACATCCCGTTCGCCAGGCGTTCATCCCACTCATCCGCAGGAATAAACACATGa < 1:2012952/69‑1 (MQ=255)
ccTAAATCCACCGCCCACATCCCGTTCGCCAGGCGTTCATCCCACTCATCCGCAGGAATAAACACATGa < 1:2812356/69‑1 (MQ=255)
ccTAAATCCACCGCCCACATCCCGTTCGCCAGGCGTTCATCCCACTCATCCGCAGGAATAAACACATGa < 1:3565955/69‑1 (MQ=255)
aaaTCCACCGCCCACATCCCGTTCGCCAGGCGTTCATCCCACTCATCCGCAGGAATAAAcaca > 1:3458733/1‑63 (MQ=255)
aaaTCCACCGCCCACATCCCGTTCGCCAGGCGTTCATCCCACTCATCCGCAGGAATAAACACATGaa > 1:185941/1‑67 (MQ=255)
aaaTCCACCGCCCACATCCCGTTCGCCAGGCGTTCATCCCACTCATCCGCAGGAATAAACACATGaa > 1:398554/1‑67 (MQ=255)
aaaTCCACCGCCCACATCCCGTTCGCCAGGCGTTCATCCCACTCATCCGCAGGAATAAACACATGaa > 1:3016540/1‑67 (MQ=255)
aaTCCACCGCCCACATCCCGTTCGCCAGGCGTTTATCCCACTCATCCGCAGGAATAAACACATGaaa > 1:3490888/1‑67 (MQ=255)
aaTCCACCGCCCACATCCCGTTCGCCAGGCGTTTATCCCACTCATCCGCAGGAATAAACACATGaaa > 1:1582729/1‑67 (MQ=255)
aaTCCACCGCCCACATCCCGTTCGCCAGGCGTTTATCCCACTCATCCGCAGGAATAAACACATGaaa > 1:1578086/1‑67 (MQ=255)
aaTCCACCGCCCACATCCCGTTCGCCAGGCGTTTATCCCACTCATCCGCAGGAATAAACACATGaaa > 1:1417069/1‑67 (MQ=255)
aaTCCACCGCCCACATCCCGTTCGCCAGGCGTTTATCCCACTCATCCGCAGGAATAAACACATGaaa > 1:312301/1‑67 (MQ=255)
ccGCCCACATCCCGTTCGCCAGGCGTTCATCCCACTCATCCGCAGGAATAAACACATGAAATGCCTCTTcc < 1:831964/71‑1 (MQ=255)
cGCCCACATCCCGTTCGCCAGGCGTTCATCCCACTCATCCGCAGGAATAAACACATGAAATGCCTCTTCCa < 1:3452182/71‑1 (MQ=255)
acaTCCCGTTCGCCAGGCGTTTATCCCACTCATCCGCAGGAATa > 1:1176573/1‑44 (MQ=255)
acaTCCCGTTCGCCAGGCGTTTATCCCACTCATCCGCAGGAATa > 1:3967539/1‑44 (MQ=255)
caTCCCGTTCGCCAGGCGTTTATCCCACTCATCCGCAGGAATAAACACATGAAAt < 1:1654624/55‑1 (MQ=255)
caTCCCGTTCGCCAGGCGTTTATCCCACTCATCCGCAGGAATAAACACATGAAAt < 1:826749/55‑1 (MQ=255)
caTCCCGTTCGCCAGGCGTTTATCCCACTCATCCGCAGGAATAAACACATGAAAt < 1:1333635/55‑1 (MQ=255)
caTCCCGTTCGCCAGGCGTTTATCCCACTCATCCGCAGGAATAAACACATGAAAt < 1:1446326/55‑1 (MQ=255)
caTCCCGTTCGCCAGGCGTTCATCCCACTCATCCGCAGGaa > 1:2179020/1‑41 (MQ=255)
caTCCCGTTCGCCAGGCGTTCATCCCACTCATCCGCAGGaa > 1:1904907/1‑41 (MQ=255)
caTCCCGTTCGCCAGGCGTTCATCCCACTCATCCGCAGGaa > 1:118830/1‑41 (MQ=255)
tCCCGTTCGCCAGGTGTTCATCCCACTCATCCGCAGTAATAAACACATGAAATGCCTCTTCCAGTTTg < 1:2523123/68‑1 (MQ=255)
tCCCGTTCGCCAGGCGTTCATCCCACTCATCCGCAGGAATAAACACATGAAATGCCTCTTcc < 1:529397/62‑1 (MQ=255)
ccGTTCGCCAGGCGTTCATCCCACTCATCCGCAGGAATAAACACATGaaa > 1:2544650/1‑50 (MQ=255)
gTTCGCCAGGCGTTTATCCCACTCATCCGCAGGAATAAACACATGAAATGCCTCTTCCAGTTTGAGCGTg > 1:3433096/1‑70 (MQ=255)
gTTCGCCAGGCGTTCATCCCACTCATCCGCAGGAATAAACACATGAAATGCCTCTTCCAGTTTGAGCGTgg < 1:3989544/71‑1 (MQ=255)
gTTCGCCAGGCGTTCATCCCACTCATCCGCAGGAATAAACACATGAAATGCCTCTTCCAGTTTGAGCGTgg < 1:66622/71‑1 (MQ=255)
ttCGCCAGGCGTTCATCCCACTCATCCGCAGGAATAAACACATGAAATGCCTCTTCCAGTTTGAGCGTGGa < 1:3115713/71‑1 (MQ=255)
cGCCAGGCGTTTATCCCACTCATCCGCAGGAATAAACACATGAAATGCCTCTTCCAGTTTGAGCGTGGAAc > 1:2491781/1‑71 (MQ=255)
aGGCGTTTATCCCACTCATCCGCAGGAATAAacac < 1:3348529/35‑1 (MQ=255)
cATCCCACTCATCCGCAGGAATAAACACATGAAATGCCTCTTCCAGTTTGAGCGTGGAACGACTCGgcgc < 1:714788/70‑1 (MQ=255)
|
AGTTGGTAGGTCCAGCCGCCAGGGCAAGCGCCTAAATCCACCGCCCACATCCCGTTCGCCAGGCGTTCATCCCACTCATCCGCAGGAATAAACACATGAAATGCCTCTTCCAGTTTGAGCGTGGAACGACTCGGCGC > W3110S.gb/2939214‑2939350
|
| 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
