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 F1 I0 R2
|
532 |
47.8 |
3863072 |
94.9% |
3666055 |
61.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,119,282 |
C→T |
21.9% |
E420E (GAG→GAA) |
wcaK ← |
predicted pyruvyl transferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,119,282 | 0 | C | T | 21.9%
| 75.8
/ 16.8
| 41 | E420E (GAG→GAA) | wcaK | predicted pyruvyl transferase |
| Reads supporting (aligned to +/- strand): ref base C (18/14); new base T (5/4); total (23/18) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.84e-01 |
CGAAGGTTTCTGACGACAGCGGGAATTTCAGTAAAAAGAAGCCGACCTTCATTTCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGACTGACGGCTTCACTAAGTCGCG > W3110S.gb/2119213‑2119349
|
cGAAGGTTTCTGACGACAGCGGGAATTTCAGTAAAAAGAAGCCGACCTTCATTTCACCTCCCCGATGCGCt > 1:3121411/1‑71 (MQ=255)
tCTGACGACAGCGGGAATTTCAGTAAAAAGAAGCCGACCTTCATTTCACCTCCCCGATGCGCTCAAGca > 1:324214/1‑69 (MQ=255)
acgacAGCGGGAATTTCAGTAAAAAGAAGCCGACCTTCATTTCACCTCCCCGATGCGCTCAAGCACAg < 1:1066905/68‑1 (MQ=255)
gAATTTCAGTAAAAAGAAGCCGACCTTCATTTCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTg < 1:1602571/71‑1 (MQ=255)
gAATTTCAGTAAAAAGAAGCCGACCTTCATTTCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTg < 1:2695483/71‑1 (MQ=255)
aaTTTCAGTAAAAAGAAGCCGACCTTCATTTCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTg > 1:1716309/1‑70 (MQ=255)
tttCAGTAAAAAGAAGCCGACCTTCATTTCACCTCCCCGATGCGCTCAAGCACAg < 1:2040386/55‑1 (MQ=255)
aaaaGAAGCCGACCTTCATTTCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCt < 1:3788577/71‑1 (MQ=255)
aaaGAAGCCGACCTTCATTTCACCTCCCCGATGCGCTCaa < 1:750480/40‑1 (MQ=255)
agaagCCGACCTTCATTTCACCTCCCCGATGCGTTCAAGCACAGATTGCACCATCTGCATTccc > 1:1952566/1‑63 (MQ=255)
gCCGACCTTCATTTCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTc < 1:731362/71‑1 (MQ=255)
cGACCTTCATTTCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCAc < 1:925139/71‑1 (MQ=255)
cGACCTTCATTTCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCAc < 1:3431443/71‑1 (MQ=255)
cGACCTTCATTTCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCAc < 1:1941588/71‑1 (MQ=255)
aCCTTCATTTCACCTCCCCGATGCGCTCAAGCACAg < 1:413277/36‑1 (MQ=255)
ttCATTTCACCTCCCCGATGCGTTCAAGCACAGATTGCACCATCTGCATTCCCGTCTGACGTTcgc < 1:2618492/66‑3 (MQ=255)
ttCATTTCACCTCCCCGATGCGTTCAAGCACAGATTGCACCATCTGCATTCCCGTCTGACGTTcgc < 1:413721/66‑3 (MQ=255)
ttCATTTCACCTCCCCGATGCGTTCAAGCACAGATTGCACCATCTGCATTCCCGTCTGACGTTcgc < 1:3550499/66‑3 (MQ=255)
ttCATTTCACCTCCCCGATGCGTTCAAGCACAGATTGCACCATCTGCATTCCCGTCTGACGTTcgc < 1:1633846/66‑3 (MQ=255)
tCATTTCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCAc < 1:2876005/65‑1 (MQ=255)
tCATTTCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGa > 1:487594/1‑67 (MQ=255)
tCATTTCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGa > 1:1283918/1‑67 (MQ=255)
tCATTTCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGa > 1:2121304/1‑67 (MQ=255)
cATTTCACCTCCCCGATGCGTTCAAGCACAGATTGCACCATCTGCATTCCCGTCTGACGTTCGCGAc > 1:10062/1‑67 (MQ=255)
cATTTCACCTCCCCGATGCGTTCAAGCACAGATTGCACCATCTGCATTCCCGTCTGACGTTCGCGAc > 1:92340/1‑67 (MQ=255)
cATTTCACCTCCCCGATGCGTTCAAGCACAGATTGCACCATCTGCATTCCCGTCTGACGTTCGCGAc > 1:1978661/1‑67 (MQ=255)
cATTTCACCTCCCCGATGCGTTCAAGCACAGATTGCACCATCTGCATTCCCGTCTGACGATCGCGAc > 1:1403891/1‑67 (MQ=255)
cATTTCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGACTGa > 1:613996/1‑70 (MQ=255)
cATTTCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGACTGa > 1:3230896/1‑70 (MQ=255)
cATTTCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGACTGAc > 1:2671621/1‑71 (MQ=255)
aCCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGACTGACGGCtt < 1:844057/70‑1 (MQ=255)
aCCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGACTGACGGCtt < 1:2592283/70‑1 (MQ=255)
cTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGACTGACGGCTTCAc > 1:1795821/1‑71 (MQ=255)
cTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGACTGACGGCTTCAc > 1:3129392/1‑71 (MQ=255)
ccccGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGACTGACGGCTTCACt > 1:2849266/1‑70 (MQ=255)
ccccGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGACTGACGGCTTCACt > 1:2829198/1‑70 (MQ=255)
cccGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGACTGACGGATTCACt > 1:3253535/1‑69 (MQ=255)
cccGATGCGCTCAAGCACAGACTGAACCATCTGCATTCCTGTCTGACGCTCACGACTGACGGCTTCACt > 1:845578/1‑69 (MQ=255)
cGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGa > 1:2474880/1‑44 (MQ=255)
cGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGAc > 1:2637940/1‑54 (MQ=255)
tGCGCTCAAGCACAGACTGCACCATCTGCATTCCt > 1:705444/1‑35 (MQ=255)
gcgcTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGACTGACGGCTTCACTAAGTcgcg > 1:2339735/1‑71 (MQ=255)
cgcTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGACTGACg > 1:1504743/1‑54 (MQ=255)
cgcTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGACTGACGGCTTCACTAAGTcgcg < 1:3489712/70‑1 (MQ=255)
|
CGAAGGTTTCTGACGACAGCGGGAATTTCAGTAAAAAGAAGCCGACCTTCATTTCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGACTGACGGCTTCACTAAGTCGCG > W3110S.gb/2119213‑2119349
|
| 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
