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 |
1,976,696 |
C→T |
36.3% |
intergenic (+24/‑53) |
galP → / → sprT |
D‑galactose transporter/conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,976,696 | 0 | C | T | 36.3%
| 33.9
/ 30.4
| 55 | intergenic (+24/‑53) | galP/sprT | D‑galactose transporter/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (15/20); new base T (5/15); total (20/35) |
| Fisher's exact test for biased strand distribution p-value = 2.48e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AAAGGTCGTAAACTGCGCGAAATAGGCGCTCACGATTAATCTCCCCAAGCTTCCTCCCATCGCGGAGGAAGCCACCTCTTGCAGTCATCTTTTCTTCGCTCTATCCTCTGCCGCTATGAAAAC > minE/1976634‑1976756
|
aaaGGTCGTAAACTGCGCGAAATCGGCGCTCACGATTAATCTCCTCAGGCTTCCTCCCATCATggagga < 1:3043593/69‑1 (MQ=255)
aaaGGTCGTAAACTGCGCGAAATCGGCGCTCACGATTAATCTCCTCAGGCTTCCTCCCATCATggagga < 1:2332509/69‑1 (MQ=255)
aaaGGTCGTAAACTGCGCGAAATCGGCGCTCACGATTAATCTCCTCAGGCTTCCTCCCATCATggagga < 1:2289386/69‑1 (MQ=255)
aaaGGTCGTAAACTGCGCGAAATCGGCGCTCACGATTAATCTCCTCAGGCTTCCTCCCATCATggagga < 1:2154429/69‑1 (MQ=255)
aaaGGTCGTAAACTGCGCGAAATCGGCGCTCACGATTAATCTCCTCAGGCTTCCTCCCATCATggagga < 1:2472992/69‑1 (MQ=255)
aaaGGTCGTAAACTGCGCGAAATCGGCGCTCACGATTAATCTCCTCAGGCTTCCTCCCATCATggagga < 1:206264/69‑1 (MQ=255)
aaaGGTCGTAAACTGCGCGAAATCGGCGCTCACGATTAATCTCCTCAGGCTTCCTCCCATCATggagga < 1:2690819/69‑1 (MQ=255)
aaaGGTCGTAAACTGCGCGAAATCGGCGCTCACGATTAATCTCCTCAGGCTTCCTCCCATCATggagga < 1:2981291/69‑1 (MQ=255)
aaaGGTCGTAAACTGCGCGAAATCGGCGCTCACGATTAATCTCCTCAGGCTTCCTCCCATCATggagga < 1:3293021/69‑1 (MQ=255)
aaaGGTCGTAAACTGCGCGAAATCGGCGCTCACGATTAATCTCCTCAGGCTTCCTCCCATCATggagga < 1:1641400/69‑1 (MQ=255)
aaaGGTCGTAAACTGCGCGAAATCGGCGCTCACGATTAATCTCCTCAGGCTTCCTCCCATCATggagga < 1:1454502/69‑1 (MQ=255)
aaaGGTCGTAAACTGCGCGAAATCGGCGCTCACGATTAATCTCCTCAGGCTTCCTCCCATCATggagga < 1:645463/69‑1 (MQ=255)
aaaGGTCGTAAACTGCGCGAAATCGGCGCTCACGATTAATCTCCTCAGGCTTCCTCCCATCATggagga < 1:1167390/69‑1 (MQ=255)
gTCGTAAACTGCGCGAAATAGGCGCTCACGATTAATCTCCCCAAGCTTCCTCCCATCGCGGAGGAAGcc < 1:3321251/69‑1 (MQ=255)
cGTAAACTGCGCGAAATATGCGCTCACGATTAATCTCCCCAAGCTTCCTCCCATCGCGGAGGAAGCCAc < 1:2649210/69‑1 (MQ=255)
cGTAAACTGCGCGAAATAGGCGCTCACGATTAATCTCCCCAAGCTTCCTCCCATCGCGGAGGAAGCCAc < 1:1548149/69‑1 (MQ=255)
cGTAAACTGCGCGAAATAGGCGCTCACGATTAATCTCCCCAAGCTTCCTCCCATCGCGGAGGAAGCCAc < 1:2625165/69‑1 (MQ=255)
cGTAAACTGCGCGAAATAGGCGCTCACGATTAATCTCCCCAAGCTTCCTCCCATCGCGGAGGAAGCCAc < 1:3436286/69‑1 (MQ=255)
cGTAAACTGCGCGAAATAGGCGCTCACGATTAATCTCCCCAAGCTTCCTCCCATCGCGGAGGAAGCCAc < 1:354378/69‑1 (MQ=255)
gTAAACTGCGCGAAATAGGCGCTCACGATTAATCTCCCCAAGCTTCCTCCCATCGCGGAGGAAGCCAc < 1:2572398/68‑1 (MQ=255)
gTAAACTGCGCGAAATAGGCGCTCACGATTAATCTCCCCAAGCTTCCTCCCATCGCGGAGGAAGCCAc < 1:2456886/68‑1 (MQ=255)
aaaCTGCGCGAAATAGGCGCTCACGATTAATCTCCCCAAGCTTCCTCCCATCGCGGAGGAAGCCAc < 1:1949984/66‑1 (MQ=255)
cgcgAAATCGGCGCTCACGATTAATCTCCTCAGGCTTCCTCCCATCATggagga < 1:3033371/54‑1 (MQ=255)
cgcgAAATAGGCGCTCACGATTAATCTCCCCAAGCTTCCTCCCATCGCGGAGGAAGCCAc < 1:190218/60‑1 (MQ=255)
cgAAATAGGCGCTCACGATTAATCTCCCCAAGCTTCCTCCCATCGCGGAGGAAGCCACCTCTTGCAGTc > 1:575430/1‑69 (MQ=255)
cgAAATAGGCGCTCACGATTAATCTCCCCAAGCTTCCTCCCATCGCGGAGGAAGCCACCTCTTGCAGTc > 1:182946/1‑69 (MQ=255)
aaaTCGGCGCTCACGATTAATCTCCTCAGGCTTCCTCCCATCATggagga < 1:2214146/50‑1 (MQ=255)
aaaTAGGCGCTCACGATTAATCTCCCCAAGCTTCCTCCCATCGCGGAGGAAGCCACCTCTTGCAGTCAt < 1:3381842/69‑1 (MQ=255)
aaaTAGGCGCTCACGATTAATCTCCCCAAGCTTCCTCCCATCGCGGAGGAAGCCACCTCTTGCAGTCAt < 1:1748310/69‑1 (MQ=255)
aaTAGGCGCTCACGATTAATCTCCCCAAGCTTCCTCCCATCGCGGAGGAAGCCACCTCTTGCAGTCATc < 1:3144606/69‑1 (MQ=255)
aaTAGGCGCTCACGATTAATCTCCCCAAGCTTCCTCCCATCGCGGAGGAAGCCACCTCTTGCAGTCATc < 1:1412990/69‑1 (MQ=255)
aaTAGGCGCTCACGATTAATCTCCCCAAGCTTCCTCCCATCGCGGAGGAAGCCACCTCTTGCAGTCATc < 1:3259295/69‑1 (MQ=255)
aaTAGGCGCTCACGATTAATCTCCCCAAGCTTCCTCCCATCGCGGAGGAAGCCACCTCTTGCAGTCATc < 1:2460781/69‑1 (MQ=255)
aaTAGGCGCTCACGATTAATCTCCCCAAGCTTCCTCCCATCGCGGAGGAAGCCACCTCTTGCAGTCATc < 1:247650/69‑1 (MQ=255)
atcggCGCTCACGATTAATCTCCTCAGGCTTCCTCCCATCATGGAGGAAGCCACCTCTTGCAGTCATCt > 1:934969/4‑69 (MQ=255)
atcggCGCTCACGATTAATCTCCTCAGGCTTCCTCCCATCATGGAGGAAGCCACCTCTTGCAGTCATCt > 1:1234768/4‑69 (MQ=255)
atcggCGCTCACGATTAATCTCCTCAGGCTTCCTCCCATCATGGAGGAAGCCACCTCTTGCAGTCATCt > 1:596624/4‑69 (MQ=255)
atcggCGCTCACGATTAATCTCCTCAGGCTTCCTCCCATCATGGAGGAAGCCACCTCTTGCAGTCATCt > 1:2533900/4‑69 (MQ=255)
atcggCGCTCACGATTAATCTCCTCAGGCTTCCTCCCATCATGGAGGAAGCCACCTCTTGCAGTCATCt > 1:3290564/4‑69 (MQ=255)
gcgcTCACGATTAATCTCCCCAAGCTTCCTCCCATCGCGGAGGAAGCCAc < 1:1660064/50‑1 (MQ=255)
cgcTCACGATTAATCTCCCCAAGCTTCCTCCCATCGCGGAGGAAGCCACCTCTTGCAGTCATCTTttct > 1:2857005/1‑69 (MQ=255)
cgcTCACGATTAATCTCCCCAAGCTTCCTCCCATCGCGGAGGAAGCCACCTCTTGCAGTCATCTTttct > 1:628232/1‑69 (MQ=255)
cgcTCACGATTAATCTCCCCAAGCTTCCTCCCATCGCGGAGGAAGCCACCTCTTGCAGTCATCTTttc > 1:1540356/1‑68 (MQ=255)
tAATCTCCCCAAGCTTCCTCCCATCGCGGAGGAAGCCACCTCTTGCAGTCATCTTTTCTTCGCTCTATc > 1:2868335/1‑69 (MQ=255)
aTCTCCCCAAGCTTCCTCCCATCGCGGAGGAAGCCACCTCTTGCAGTCATCTTTTCTTCGCTCTATCct > 1:3018651/1‑69 (MQ=255)
tcCCCAAGCTTCCTCCCATCGCGGAGGAAGCCACCTCTTGCAGTCATCTTTTCTTCGCTCTATCctct > 1:3073049/1‑68 (MQ=255)
tcCCCAAGCTTCCTCCCATCGCGGAGGAAGCCACCTCTTGCAGTCATCTTTTCTTCGCTCTATCctct > 1:76762/1‑68 (MQ=255)
tcCCCAAGCTTCCTCCCATCGCGGAGGAAGCCACCTCTTGCAGTCATCTTTTCTTCGCTCTATCCTCTg > 1:3232412/1‑69 (MQ=255)
tcCCCAAGCTTCCTCCCATCGCGGAGGAAGCCACCTCTTGCAGTCATCTTTTCTTCGCTCTATCCTCTg > 1:2345227/1‑69 (MQ=255)
cccAAGCTTCCTCCCATCGCGGAGGAAGCCACCTCTTGCAGTCATCTTTTCTTCGCTCTATCCTCTGcc > 1:1583595/1‑69 (MQ=255)
cccAAGCTTCCTCCCATCGCGGAGGAAGCCACCTCTTGCAGTCATCTTTTCTTCGCTCTATCCTCTGcc > 1:1836475/1‑69 (MQ=255)
tcctccCATCGCGGAGGAAGCCACCTCTTGCAGTCATCTTTTCTTCGCTCTATCCTCTGCCGCTATGaa > 1:2114436/1‑69 (MQ=255)
tcctccCATCGCGGAGGAAGCCACCTCTTGCAGTCATCTTTTCTTCGCTCTATCCTCTGCCGCTATGaa > 1:476875/1‑69 (MQ=255)
tccCATCGCGGAGGAAGCCACCTCTTGCAGTCATCTTTTCTTCGCTCTATCCTCTGCCGCTATGaaaa < 1:3342548/68‑1 (MQ=255)
cccATCGCGGAGGAAGCCACCTCTTGCAGTCATCTTTTCTTCGCTCTATCCTCTGCCGCTATGAAAAc < 1:1018433/68‑1 (MQ=255)
|
AAAGGTCGTAAACTGCGCGAAATAGGCGCTCACGATTAATCTCCCCAAGCTTCCTCCCATCGCGGAGGAAGCCACCTCTTGCAGTCATCTTTTCTTCGCTCTATCCTCTGCCGCTATGAAAAC > minE/1976634‑1976756
|
| 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
