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 |
2,895,585 |
C→T |
25.6% |
R207C (CGC→TGC) |
yjfF → |
predicted sugar transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,895,585 | 0 | C | T | 25.6%
| 79.0
/ 21.9
| 66 | R207C (CGC→TGC) | yjfF | predicted sugar transporter subunit |
| Reads supporting (aligned to +/- strand): ref base C (45/4); new base T (6/11); total (51/15) |
| Fisher's exact test for biased strand distribution p-value = 1.02e-05 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.54e-01 |
CAGGTATACGCCATTGGCGGCAACGCAACGTCGGCGAATCTGATGGGGATTTCCACTCGCAGCACCACTATTCGCATTTATATGCTCTCCACCGGACTGGCAACGCTGGCGGGGATTGT > minE/2895528‑2895646
|
cAGGTATACGCCATTGGCGGCAACGCAACGTCGGCGAATCTGATGGGGATTTCCACTCgcagc > 1:479066/1‑63 (MQ=255)
cAGGTATACGCCATTGGCGGCAACGCAACGTCGGCGAATCTGATGGGGATTTCCACTCgcagc > 1:3211994/1‑63 (MQ=255)
cAGGTATACGCCATTGGCGGCAACGCAACGTCGGCGAATCTGATGGGGATTTCCACTCgcagc > 1:2703342/1‑63 (MQ=255)
cAGGTATACGCCATTGGCGGCAACGCAACGTCGGCGAATCTGATGGGGATTTCCACTCgcagc > 1:835088/1‑63 (MQ=255)
cAGGTATACGCCATTGGCGGCAACGCAACGTCGGCGAATCTGATGGGGATTTCCACTCgcagc > 1:252720/1‑63 (MQ=255)
cAGGTATACGCCATTGGCGGCAACGCAACGTCGGCGAATCTGATGGGGATTTCCACTCgcagc > 1:252082/1‑63 (MQ=255)
cAGGTATACGCCATTGGCGGCAACGCAACGTCGGCGAATCTGATGGGGATTTCCACTCgcagc > 1:1608217/1‑63 (MQ=255)
aGGTATACGCCATTGGCGGCAACGCAACGTCGGCGAATCTGATGGGGATTTCCACTCGCAGCACCACt > 1:3105076/1‑68 (MQ=255)
aGGTATACGCCATTGGCGGCAACGCAACGTCGGCGAATCTGATGGGGATTTCCACTCGCAGCACCACTa > 1:3287985/1‑69 (MQ=255)
aGGTATACGCCATTGGCGGCAACGCAACGTCGGCGAATCTGATGGGGATTTCCACTCGCAGCACCACTa > 1:2471522/1‑69 (MQ=255)
aGGTATACGCCATTGGCGGCAACGCAACGTCGGCGAATCTGATGGGGATTTCCACTCGCAGCACCACTa > 1:2410567/1‑69 (MQ=255)
aGGTATACGCCATTGGCGGCAACGCAACGTCGGCGAATCTGAAGGGGATTTCCACTCGCAGCACCACTa > 1:1632983/1‑69 (MQ=255)
cGCCATTGGCGGCAACGCAACGTCGGCGAATCTGATGGGGATTTCCACTCGCAGCACCACTATTCGCa > 1:1111166/1‑68 (MQ=255)
cGCCATTGGCGGCAACGCAACGTCGGCGAATCTGATGGGGATTTCCACTCGCAGCACCACTATTCGCa > 1:428860/1‑68 (MQ=255)
cGCCATTGGCGGCAACGCAACGTCGGCGAATCTGATGGGGATTTCCACTCGCAGCACCACTATTCGCa > 1:3340025/1‑68 (MQ=255)
cGCCATTGGCGGCAACGCAACGTCGGCGAATCTGATGGGGATTTCCACTCGCAGCACCACTATTCGCa > 1:2099075/1‑68 (MQ=255)
cGCCATTGGCGGCAACGCAACGTCGGCGAATCTGATGGGGATTTCCACTCGCAGCACCACTATTCGCa > 1:1909067/1‑68 (MQ=255)
cGCCATTGGCGGCAACGCAACGTCGGCGAATCTGATGGGGATTTCCACTCGCAGCACCACTATTCGCa > 1:179854/1‑68 (MQ=255)
ccATTGGCGGCAACGCAACGTCGGCAAACCTGATGGGGATTTTCACTTGCAGCACCACTATTCGCAtt < 1:842929/68‑1 (MQ=255)
ccATTGGCGGCAACGCAACGTCGGCAAACCTGATGGGGATTTCCACTTGCAGCACCACTATTCGCAtt < 1:1943777/68‑1 (MQ=255)
ccATTGGCGGCAACGCAACGTCGGCAAACCTGATGGGGATTTCCACTTGCAGCACCACTATTCGCAtt < 1:1240496/68‑1 (MQ=255)
ccATTGGCGGCAACGCAACGTCGGCAAACCTGATGGGGATTTCCACTTGCAGCACCACTATTCGCAtt < 1:987600/68‑1 (MQ=255)
ccATTGGCGGCAACGCAACGTCGGCAAACCTGATGGGGATTTCCACTTGCAGCACCACTATTCGCAtt < 1:752191/68‑1 (MQ=255)
ccATTGGCGGCAACGCAACGTCGGCAAACCTGATGGGGATTTCCACTTGCAGCACCACTATTCGCAtt < 1:1484414/68‑1 (MQ=255)
ccATTGGCGGCAACGCAACGTCGGCAAACCTGATGGGGATTTCCACTTGCAGCACCACTATTCGCAtt < 1:912303/68‑1 (MQ=255)
ccATTGGCGGCAACGCAACGTCGGCAAACCTGATGGGGATTTCCACTTGCAGCACCACTATTCGCAtt < 1:1578840/68‑1 (MQ=255)
ccATTGGCGGCAACGCAACGTCGGCAAACCTGATGGGGATTTCCACTTGCAGCACCACTATTCGCAtt < 1:2474923/68‑1 (MQ=255)
ccATTGGCAGCAACGCAACGTCGGCAAACCTGATGGGGATTTCCACTTGCAGCACCACTATTCGCAtt < 1:2119448/68‑1 (MQ=255)
cATTGGCGGCAACGCAACGTCGGCGAATCTGATGGGGATTTCCACTCGCAGCACCACTATTCTCATTta < 1:443221/69‑1 (MQ=255)
cATTGGCGGCAACGCAACGTCGGCGAATCTGATGGGGATTTCCACTCGCAGCACCACTATTCGCATTta < 1:2115736/69‑1 (MQ=255)
ggcggcAACGCAACGTCGGCGAATCTGATGGGGATTTCCACTCGCAGCACCACTATTCGCATTTatat > 1:630503/1‑68 (MQ=255)
ggcggcAACGCAACGTCGGCGAATCTGATGGGGATTTCCACTCGCAGCACCACTATTCGCATTTatat > 1:1901157/1‑68 (MQ=255)
ggcggcAACGCAACGTCGGCGAATCTGATGGGGATTTCCACTCGCAGCACCACTATTCGCATTTATATg > 1:819728/1‑69 (MQ=255)
caacgcaacgTCGGCGAATCTGATGGGGATTTCCACTCGCAGCACCACTATTCGCATTTATATGCtctc < 1:1833623/69‑1 (MQ=255)
caacgcaacgTCGGCGAATCTGATGGGGATTTCCACTCGCAGCACCACTATTCGCATTTATATGCtctc < 1:348295/69‑1 (MQ=255)
caacgcaacgTCGGCAACCCTGATGGGGATTTCCACTTGCAGCACCACTATTCGCATTTATATGc > 1:2966348/1‑65 (MQ=255)
caacgcaacgTCGGCAAACCTGATGGGGATTTCCACTTGCAGCACCACTATTCGCATTTatat > 1:1127501/1‑63 (MQ=255)
caacgcaacgTCGGCAAACCTGATGGGGATTTCCACTTGCAGCACCACTATTCGCATTTATATg > 1:1320934/1‑64 (MQ=255)
caacgcaacgTCGGCAAACCTGATGGGGATTTCCACTTGCAGCACCACTATTCGCATTTATATGc > 1:489141/1‑65 (MQ=255)
caacgcaacgTCGGCAAACCTGATGGGGATTTCCACTTGCAGCACCACTATTCGCATTTATATGc > 1:2582180/1‑65 (MQ=255)
caacgcaacgTCGGCAAACCTGATGGGGATTTCCACTTGCAGCACCACTATTCGCATTTATATGc > 1:2447364/1‑65 (MQ=255)
aacgcaacgTCGGCGAATCTGATGGGGATTTCCACTCGCAGCACCACTATTCGCATTTATATGCTCTcc > 1:136321/1‑69 (MQ=255)
aacgcaacgTCGGCGAATCTGATGGGGATTTCCACTCGCAGCACCACTATTCGCATTTATATGCTCTcc > 1:863444/1‑69 (MQ=255)
aacgcaacgTCGGCGAATCTGATGGGGATTTCCACTCGCAGCACCACTATTCGCATTTATATGCTCTcc > 1:2297135/1‑69 (MQ=255)
gcaacgTCGGCGAATCTGATGGGGATTTCCACTCGCAGCACCACTATTCGCATTTATATGCTCTCCAc > 1:2082115/1‑68 (MQ=255)
gcaacgTCGGCGAATCTGATGGGGATTTCCACTCGCAGCACCACTATTCGCATTTATATGCTCTCCAc > 1:344619/1‑68 (MQ=255)
gcaacgTCGGCGAATCTGATGGGGATTTCCACTCGCAGCACCACTATTCGCATTTATATGCTCTCCAc > 1:609906/1‑68 (MQ=255)
gcaacgTCGGCGAATCTGATGGGGATTTCCACTCGCAGCACCACTATTCGCATTTATATGCTCTCCAc > 1:503696/1‑68 (MQ=255)
caacgTCGGCCAATCTGATGGCGATTTCCACTCGCAGCACCACAATTCGCATTTATATGCTCTCCACCg > 1:2284135/1‑69 (MQ=255)
ggCAAACCTGATGGGGATTTCCACTTGCAGCACCACTATTCGCAtt < 1:2984543/46‑1 (MQ=255)
ttCCACTCGCAGCACCACTATTCGCATTTATATGCTCTCCACCGGACTGGCAACGCTGGCGGGGATTGt > 1:72572/1‑69 (MQ=255)
ttCCACTCGCAGCACCACTATTCGCATTTATATGCTCTCCACCGGACTGGCAACGCTGGCGGGGATTGt > 1:924264/1‑69 (MQ=255)
ttCCACTCGCAGCACCACTATTCGCATTTATATGCTCTCCACCGGACTGGCAACGCTGGCGGGGATTGt > 1:1117290/1‑69 (MQ=255)
ttCCACTCGCAGCACCACTATTCGCATTTATATGCTCTCCACCGGACTGGCAACGCTGGCGGGGATTGt > 1:1556380/1‑69 (MQ=255)
ttCCACTCGCAGCACCACTATTCGCATTTATATGCTCTCCACCGGACTGGCAACGCTGGCGGGGATTGt > 1:1552348/1‑69 (MQ=255)
tCCACTCGCAGCACCACTATTCGCATTTATATGCTCTCCACCgg > 1:495048/1‑44 (MQ=255)
tCCACTCGCAGCACCACTATTCGCATTTATATGCTCTCCACCgg > 1:492055/1‑44 (MQ=255)
tCCACTCGCAGCACCACTATTCGCATTTATATGCTCTCCACCgg > 1:3378267/1‑44 (MQ=255)
tCCACTCGCAGCACCACTATTCGCATTTATATGCTCTCCACCgg > 1:2932799/1‑44 (MQ=255)
tCCACTCGCAGCACCACTATTCGCATTTATATGCTCTCCACCgg > 1:289199/1‑44 (MQ=255)
tCCACTCGCAGCACCACTATTCGCATTTATATGCTCTCCACCgg > 1:796575/1‑44 (MQ=255)
tCCACTCGCAGCACCACTATTCGCATTTATATGCTCTCCACCgg > 1:2726591/1‑44 (MQ=255)
tCCACTCGCAGCACCACTATTCGCATTTATATGCTCTCCACCgg > 1:2645832/1‑44 (MQ=255)
tCCACTCGCAGCACCACTATTCGCATTTATATGCTCTCCACCgg > 1:218585/1‑44 (MQ=255)
tCCACTCGCAGCACCACTATTCGCATTTATATGCTCTCCACCgg > 1:2182145/1‑44 (MQ=255)
tCCACTCGCAGCACCACTATTCGCATTTATATGCTCTCCACCgg > 1:1337636/1‑44 (MQ=255)
|
CAGGTATACGCCATTGGCGGCAACGCAACGTCGGCGAATCTGATGGGGATTTCCACTCGCAGCACCACTATTCGCATTTATATGCTCTCCACCGGACTGGCAACGCTGGCGGGGATTGT > minE/2895528‑2895646
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
