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 |
3,332,723 |
A→G |
22.2% |
A84A (GCT→GCC) |
rpmA ← |
50S ribosomal subunit protein L27 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,332,723 | 0 | A | G | 22.2%
| 86.0
/ 22.7
| 45 | A84A (GCT→GCC) | rpmA | 50S ribosomal subunit protein L27 |
| Reads supporting (aligned to +/- strand): ref base A (17/18); new base G (7/3); total (24/21) |
| Fisher's exact test for biased strand distribution p-value = 2.96e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.97e-01 |
GAATGTAAAAAGCCCCGCAACGTGTTGCGGGGCTTTCATCCGTTACCGGGACGCGAAAAACTTATTCAGCTTCGATGCTGATAAATTTACGGTTTTTCGGGCCTTTAACTTCGAATTTCACTTTACCGTCTGCTTTAG > W3110S.gb/3332656‑3332793
|
gAATGTAAAAAGCCCCGCAACGTGTTGCGGGGCTTTCATCCGTTACCGGGACGCGAAAAACTTATTCAGCt > 1:604647/1‑71 (MQ=255)
aTGTAAAAAGCCCCGCAACGTGTTGCGGGGCTTTCATCCGTTACCGGGACGCGAAAAACTTATTCAGCTTc < 1:3727992/71‑1 (MQ=255)
tAAAAAGCCCCGCAACGTGTTGCGGGGCTTTCATCCGTTACCGGGACGCGAAAAACTTATTCGGCTTCGAt > 1:4296272/1‑71 (MQ=255)
tAAAAAGCCCCGCAACGTGTTGCGGGGCTTTCATCCGTTACCGGGACGCGAAAAACTTATTCGGCTTCGAt > 1:4301697/1‑71 (MQ=255)
gCCCCGCAACGTGTTGCGGGGCTTTCATCCGTTACCGGGACGCGAAAAACTTATTCAGCTTCGATGCTGAt < 1:405992/71‑1 (MQ=255)
ccGCAACGTGTTGCGGGGCTTTCATCCGTTACCGGGACGCGAAAAACTTATTCAGc < 1:1831564/56‑1 (MQ=255)
ccGCAACGTGTTGCGGGGCTTTCATCCGTTACCGGGACGCGAAAAACTTATTCAGCTTCGATGCTGATaaa > 1:1676833/1‑71 (MQ=255)
cGCAACGTGTTGCGGGGCTTTCATCCGTTACCGGGACGCGAAAAACTTATTCAGCTTCGATGCTGATAAAt > 1:1485348/1‑71 (MQ=255)
gCAACGTGTTGCGGGGCTTTCATCCGTTACCGGGACGCGAAAAACTTATTCAGCTTCGATGCTGATAAAtt < 1:1622716/71‑1 (MQ=255)
cAACGTGTTGCGGGGCTTTCATCCGTTACCGGGACGCGAAAAACTTATTCAGCTTCGAt > 1:627777/1‑59 (MQ=255)
cGTGTTGCGGGGCTTTCATCCGTTACCGGGACGCGAAAAACTTATTCGGCTTCGa > 1:3114532/1‑55 (MQ=255)
cGTGTTGCGGGGCTTTCATCCGTTACCGGGACGCGAAAAACTTATTCGGCTTCGa > 1:3551592/1‑55 (MQ=255)
ttGCGGGGCTTTCATCCGTTACCGGGACGCGAAAAACTTATTCAGCTTc < 1:7663/49‑1 (MQ=255)
ttGCGGGGCTTTCATCCGTTACCGGGACGCGAAAAACTTATTCAGCTTCGATGCTGATaaa < 1:241965/61‑1 (MQ=255)
ttGCGGGGCTTTCATCCGTTACCGGGACGCGAAAAACTTATTCAGCTTCGATGCTGATAAATTTACGGttt < 1:1678597/71‑1 (MQ=255)
gCGGGGCTTTCATCCGTTACCGGGACGCGAAAAACTTATTCAGCTTCGATGCTGATAAATTTACgg > 1:2871815/1‑66 (MQ=255)
cGGGGCTTTCATCCGTTACCGGGACGCGAAAAACTTATTCAGCTTCGATGCTGATAAATTTACGGttttt < 1:1211454/70‑1 (MQ=255)
cGGGGCTTTCATCCGTTACCGGGACGCGAAAAACTTATTCAGCTTCGATGCTGATAAATTTACGGTTTTTc < 1:1412522/71‑1 (MQ=255)
gggCTTTCATCCGTTACCGGGACGCGAAAAACTTATTCAGCTTc < 1:1565689/44‑1 (MQ=255)
cTTTCATCCGTTACCGGGACGCGAAAAACTTATTCAGATTCGATGCTGa > 1:3287550/1‑49 (MQ=255)
tttCATCCGTTACCGGGACGCGAAAAACTTATTCAGCTTCGATGCTGATAAATTTa > 1:4394239/1‑56 (MQ=255)
ttCATCCGTTACCGGGACGCGAAAAACTTATTCAGCTTc < 1:2818303/39‑1 (MQ=255)
ttCATCCGTTACCGGGACGCGAAAAACTTATTCAGCTTc < 1:619328/39‑1 (MQ=255)
tCATCCGTTACCGGGACGCGAAAAACTTATTCAGCTTCGATGCTGATAAATTTACGGTTTTTCGGGCCttt > 1:1349629/1‑71 (MQ=255)
cATCCGTTACCGGGACGCGAAAAACTTATTCAGCTTCGa > 1:3464036/1‑39 (MQ=255)
cATCCGTTACCGGGACGCGAAAAACTTATTCAGCTTCGATGCTGATAAATTTACGGTTTTTCGGGCCttt > 1:3043283/1‑70 (MQ=255)
ccGTTACCGGGACGCGAAAAACTTATTCAGCTTCGa > 1:1535593/1‑36 (MQ=255)
ccGTTACCGGGACGCGAAAAACTTATTCAGCTTCGATGCTGATAAATTTACg > 1:2158847/1‑52 (MQ=255)
ccGGGACGCGAAAAACTTATTCGGCTTCGATGCTGATaa < 1:896515/39‑1 (MQ=255)
ggACGCGAAAAACTTATTCGGCTTCGATGCTGATAAATTTACg < 1:1376232/43‑1 (MQ=255)
aaaaaCTTATTCGGCTTCGATGCTGATAAATTTACGGttttt > 1:292751/1‑42 (MQ=255)
aaaaaCTTATTCGGCTTCGATGCTGATAAATTTACGGTTTTTCGGGCCTTTAACTTCGa < 1:4157505/59‑1 (MQ=255)
aaaaaCTTATTCAGCTTCGATGCTGATAAATTTACGGttt < 1:4217132/40‑1 (MQ=255)
aaaaaCTTATTCAGCTTCGATGCTGATAAATTTACGGTTTTTc < 1:3894809/43‑1 (MQ=255)
aaaaaCTTATTCAGCTTCGATGCTGATAAATTTACGGTTTTTCGGGCCTTTAACTTCg < 1:3403187/58‑1 (MQ=255)
aaaaaCTTATTCAGCTTCGATGCTGATAAATTTACGGTTTTTCGGGCCTTTAACTTCGAATTTCACTTTa < 1:1831396/70‑1 (MQ=255)
aaaCTTATTCAGCTTCGATGCTGATAAATTTACgg > 1:2197119/1‑35 (MQ=255)
aaaCTTATTCAGCTTCGATGCTGATAAATTTACGGTTTTTCGGGc > 1:4053679/1‑45 (MQ=255)
aaaCTTATTCAGCTTCGATGCTGATAAATTTACGGTTTTTCGGGc > 1:3420049/1‑45 (MQ=255)
aaaCTTATTCAGCTTCGATGCTGATAAATTTACGGTTTTTCGGGCCTTTAACTTCGAATTTCa > 1:4413652/1‑63 (MQ=255)
aCTTATTCGGCTTCGATGCTGATAAATTTACGGTTTTTCGGGCCTTTAACTTCGAATTTCACTTTACCGTc > 1:1265792/1‑71 (MQ=255)
aCTTATTCGGCTTCGATGCTGATAAATTTACGGTTTTTCGGGCCTTTAACTTCGAATTTCACTTTACCGTc > 1:464354/1‑71 (MQ=255)
ttCAGCTTCGATGCTGATAAATTTACGGTTTTTCGGGCCTTTAACTTCGAATTTCACTTTACCGTcttctt < 1:3534122/71‑1 (MQ=255)
ttCAGCTTCGATGCTGATAAATTTACGGTTTTTCGGGCCTTTAACTTCGAATTTCACTTTACCGTCTGCtt < 1:58421/71‑1 (MQ=255)
cAGCTTCGATGCTGATAAATTTACGGTTTTTCGGGCCTTTAACTTCGAATTTCACTTTAc > 1:2773041/1‑60 (MQ=255)
aGCTTCGATGCTGATAAATTTACGGTTTTTCGGGCCTTTAACTTCGAATTTCACTTTACCGTCTGCtt > 1:315919/1‑68 (MQ=255)
aGCTTCGATGCTGATAAATTTACGGTTTTTCGGGCCTTTAACTTCGAATTTCACTTTACCGTCTGCTTTAg > 1:3790464/1‑71 (MQ=255)
|
GAATGTAAAAAGCCCCGCAACGTGTTGCGGGGCTTTCATCCGTTACCGGGACGCGAAAAACTTATTCAGCTTCGATGCTGATAAATTTACGGTTTTTCGGGCCTTTAACTTCGAATTTCACTTTACCGTCTGCTTTAG > W3110S.gb/3332656‑3332793
|
| 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
