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 F3 I0 R1
|
560 |
56.4 |
4650532 |
94.9% |
4413354 |
59.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,047,650 |
T→C |
30.0% |
E16E (GAA→GAG) |
gcvP ← |
glycine decarboxylase, PLP‑dependent, subunit (protein P) of glycine cleavage complex |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,047,650 | 0 | T | C | 30.0%
| 49.4
/ 30.6
| 40 | E16E (GAA→GAG) | gcvP | glycine decarboxylase, PLP‑dependent, subunit (protein P) of glycine cleavage complex |
| Reads supporting (aligned to +/- strand): ref base T (11/17); new base C (7/5); total (18/22) |
| Fisher's exact test for biased strand distribution p-value = 3.15e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.62e-01 |
GTTTAACGATTGTGCACCAACGGCATTCAGCATTTCTTGCTGTTGCGCGGCGTCCGGTCCGATATGGCGTTCAATAAAAGCGCCGCTGTTTTCAAGCTGGCTTAACGTCTGTGTCATGAGCGATGGTTCCTGAAACG > W3110S.gb/3047581‑3047717
|
gTTTAACGATTGTGCACCAACGGCATTCAGCATTTCTTGCTGTTGCGCGGCGTCCGGTCCGATATGGCGtt < 1:1246886/71‑1 (MQ=255)
gTTTAACGATTGTGCACCAACGGCATTCAGCATTTCTTGCTGTTGCGCGGCGTCCGGTCCGATATGGCGtt < 1:1889933/71‑1 (MQ=255)
tAACGATTGTGCACCAACGGCATTCAGCATTTCTTGCTGTTGCGCGGCGTCCGGTCCGATATGGCGTTCaa > 1:341085/1‑71 (MQ=255)
tAACGATTGTGCACCAACGGCATTCAGCATTTCTTGCTGTTGCGCGGCGTCCGGTCCGATATGGCGTTCa < 1:1212398/70‑1 (MQ=255)
tAACGATTGTGCACCAACGGCATTCAGCATTTCTTGCTGTTGCGCGGCGTCCGGTCCGATATGGCGTTCa < 1:3616922/70‑1 (MQ=255)
tAACGATTGTGCACCAACGGCATTCAGCATTTCTTGCTGTTGCGCGGCGTCCGGTCCGATATGGCGCTCaa > 1:2708448/1‑71 (MQ=255)
aTTGTGCACCAACGGCATTCAGCATTTCTTGCTGTTGCGCGGCGTCCGGTCCGATATGGCGTTCAATaaa < 1:1701548/70‑1 (MQ=255)
ccAACGGCATTCAGCATTTCTTGCTGTTGCGCGGCGTCCGGTCCGATATGGCGCTCa < 1:1031008/57‑1 (MQ=255)
aaCGGCATTCAGCATTTCTTGCTGTTGCGCGGCGTCCGGTCCGATATGGCGTTCAATaa > 1:1416329/1‑59 (MQ=255)
ggCATTCAGCATTTCTTGCTGTTGCGCGGCGTCCGGTCCGATATGGCGTTCAATAAAAGCGCCGCTGtttt < 1:3632127/71‑1 (MQ=255)
ttCAGCATTTCTTGCTGTTGCGCGGCGTCCGGTCCGATATGGCGTTCaa < 1:3248904/49‑1 (MQ=255)
ttCAGCATTTCTTGCTGTTGCGCGGCGTCCGGTCCGATATGGCGTTCaa < 1:3243347/49‑1 (MQ=255)
ttCAGCATTTCTTGCTGTTGCGCGGCGTCCGGTCCGATATGGCGTTCaa < 1:2629930/49‑1 (MQ=255)
ttCAGCATTTCTTGCTGTTGCGCGGCGTCCGGTCCGATATGGCGTTCa < 1:509530/48‑1 (MQ=255)
ttCAGCATTTCTTGCTGTTGCGCGGCGTCCGGTCCGATATGGCGTTCAATaaaa < 1:920418/54‑1 (MQ=255)
tCAGCATTTCTTGCTGTTGCGCGGCGTCCGGTCCGATATGGCGTTCAATAAAAgc > 1:733583/1‑55 (MQ=255)
tCAGCATTTCTTGCTGTTGCGCGGCGTCCGGTCCGATATGGCGTTCAATAAAAg < 1:2865907/54‑1 (MQ=255)
tCAGCATTTCTTGCTGTTGCGCGGCGTCCGGTCCGATATGGCGTTCAATAAAAg < 1:3030606/54‑1 (MQ=255)
tCAGCATTTCTTGCTGTTGCGCGGCGTCCGGTCCGATATGGCGCTCAAt > 1:146877/1‑49 (MQ=255)
tttCTTGCTGTTGCGCGGCGTCCGGTCCGATATGGCGTTCAATaaa < 1:3126799/46‑1 (MQ=255)
tttCTTGCTGTTGCGCGGCGTCCGGTCCGATATGGCGCTCAATAAAAgc < 1:588396/49‑1 (MQ=255)
tttCTTGCTGTTGCGCGGCGTCCGGTCCGATATGGCGCTCAATAAAAgc < 1:3536303/49‑1 (MQ=255)
tCTTGCTGTTGCGCGGCGTCCGGTCCGATATGGCGCTCAATAAAAGCGCCGCTGTTTTCAAGCTGGCTTaa > 1:210804/1‑71 (MQ=255)
tCTTGCTGTTGCGCGGCGTCCGGTCCGATATGGCGCTCAATAAAAGCGCCGCTGTTTTCAAGCTGGCTTaa > 1:285243/1‑71 (MQ=255)
tCTTGCTGTTGCGAGGCGTCCGGTCCGATATGGCGCTCAATAAAAGCGCCGCTGttt > 1:2349989/1‑57 (MQ=255)
tGCTGTTGCGCGGCGTCCGGTCCGATATGGCGCTCAATAAAAGCGCCGCTGTTTTCAAGCTGGCTTAACGt > 1:2437537/1‑71 (MQ=255)
cTGTTGCGCGGCGTCCGGTCCGATATGGCGTTCAATAAAAGCGCCGCTGTTTTCAAGCTGGCTTAACGTc < 1:2428163/70‑1 (MQ=255)
tGTTGCGCGGCGTCCGGTCCGATATGGCGTTCAAt < 1:1848803/35‑1 (MQ=255)
gTTGCGCGGCGTCCGGTCCGATATGGCGTTCAATa < 1:4312470/35‑1 (MQ=255)
gTTGCGCGGCGTCCGGTCCGATATGGCGCTCAATAAAAGCGCCGCTGTTTTCAAGc < 1:2770684/56‑1 (MQ=255)
ttGCGCGGCGTCCGGTCCGATATGGCGTTCAATaa < 1:2635758/35‑1 (MQ=255)
gcgcGGCGTCCGGTCCGATATGGCGTTCAATAAAATCGCCGCTGTTTTCAAGCTGGCTTAACGTCTgtgt > 1:2677202/1‑70 (MQ=255)
cggtccgATATGGCGTTCAATAAAAGCGCCGCTGTTTTCAAg > 1:541013/1‑42 (MQ=255)
ccgATATGGCGTTCAATAAAAGCGCCGCTGTTTTCAAGCTGGCTTAACGTCTGTGTCa > 1:329688/1‑58 (MQ=255)
ccgATATGGCGTTCAATAAAAGCGCCGCTGTTTTCAAGCTGGCTTAACGTCTGTGTCATGAGCGATGGTTc > 1:1744876/1‑71 (MQ=255)
cgATATGGCGTTCAATAAAAGCGCCGCTGTTTTCAAGCTGGCTTAACGTCTGTGTCATGAGCGATGGTTc < 1:2962569/70‑1 (MQ=255)
gATATGGCGCTCAATAAAAGCGCCGCTGTTTTCAAGCTGGCTTAACGTCTGTGTCATGAGCTATGGTTCCt < 1:1498867/71‑1 (MQ=255)
atGGCGTTCAATAAAAGCGCCGCTGTTTTCAAGCTGGCt > 1:1059253/1‑39 (MQ=255)
tGGCGTTCAATAAAAGCGCCGCTGTTTTCAAGCTGGCTTAACGTCTGTGTCATg > 1:116509/1‑54 (MQ=255)
ggCGTTCAATAAAAGCGCCGCTGTTTTCAAGCTGGCTTAACGTCTGTGTCATGAGCGATGGTTCCTGAAAc > 1:3866117/1‑71 (MQ=255)
ggCGCTCAATAAAAGCGCCGCTGTTTTCAAGCTGGCTTAACGTCTGTGTCATGAGCGATGGt > 1:418692/1‑62 (MQ=255)
gcgcTCAATAAAAGCGCCGCTGTTTTCAAGCTGGCTTAACGTCTGTGTCATGAGCGATg > 1:4225303/1‑59 (MQ=255)
gCGTTCAATAAAAGCGCCGCTGTTTTCAAGCTGGCTTAACGTCTGTGTCATGAGCAATGGTTCCTGAAACg > 1:2135973/1‑71 (MQ=255)
|
GTTTAACGATTGTGCACCAACGGCATTCAGCATTTCTTGCTGTTGCGCGGCGTCCGGTCCGATATGGCGTTCAATAAAAGCGCCGCTGTTTTCAAGCTGGCTTAACGTCTGTGTCATGAGCGATGGTTCCTGAAACG > W3110S.gb/3047581‑3047717
|
| 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
