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 F21 I0 R1
|
476 |
35.3 |
2812105 |
96.7% |
2719305 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,841,701 |
C→T |
48.8% |
L134L (CTG→CTA) |
hycH ← |
protein required for maturation of hydrogenase 3 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,841,701 | 0 | C | T | 48.8%
| 6.6
/ 120.9
| 82 | L134L (CTG→CTA) | hycH | protein required for maturation of hydrogenase 3 |
| Reads supporting (aligned to +/- strand): ref base C (17/25); new base T (21/19); total (38/44) |
| Fisher's exact test for biased strand distribution p-value = 3.76e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.79e-01 |
GCCAGCAGCGGACCTGCGCCATCATCGCCCATCATGCTATTGCCAACACAGAGTAAAACGTCAGTCACGCAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGAATATCATGCAGCATACTTAACAGCATTGTA > W3110S.gb/2841632‑2841770
|
gCCAGCAGCGGACCTGCGCCATCATCGCCCATCATGCTATTGCCAACACAGAGTAAAACGTCAGTCACGCa < 1:1842003/71‑1 (MQ=255)
agcagcGGACCTGCGCCATCATCGCCCATCATGCTATTGCCAACACAGAGTAAAACGTCAGTCACGTAGtc > 1:2179136/1‑71 (MQ=255)
gcgcCATCATCGCCCATCATGCTATTGCCAACACAGAGTAAAACGTCAGTCACGCAGTCTCCTCACCATc > 1:534589/1‑70 (MQ=255)
cgcCATCATCGCCCATCATGCTATTGCCAACACAGAGTAAAACGTCAGTCACGTAGTCTCCTCACCATCa < 1:1055145/70‑1 (MQ=255)
cgcCATCATCGCCCATCATGCTATTGCCAACACAGAGTAAAACGTCAGTCACGCAGTCTCCTCACCATCa < 1:1323873/70‑1 (MQ=255)
gcCATCATCGCCCATCATGCTATTGCCAACACAGAGTAAAACGTCAGTCACGTAGTCTCCTCACCATCaaa < 1:1162027/71‑1 (MQ=255)
gcCATCATCGCCCATCATGCTATTGCCAACACAGAGTAAAACGTCAGTCACGTAGTCTCCTCACCATCaaa < 1:597857/71‑1 (MQ=255)
gcCATCATCGCCCATCATGCTATTGCCAACACAGAGTAAAACGTCAGTCACGTAGTCTCCTCACCATCaaa < 1:932542/71‑1 (MQ=255)
catcatCGCCCATCATGCTATTGCCAACACAGAGTAAAACGTCAGTCACGCAGTCTCCTCACCATCAAATa < 1:1178582/71‑1 (MQ=255)
catcatCGCCCATCATGCTATTGCCAACACAGAGTAAAACGTCAGTCACGCAGTCTCCTCACCATCAAATa < 1:960766/71‑1 (MQ=255)
catcGCCCATCATGCTATTGCCTACACAGAGTAAAACGTCAGTCACGTAGTCTCCTCACCATCaaa < 1:1611963/66‑1 (MQ=255)
catcGCCCATCATGCTATTGCCAACACAGAGTAAAACGTCAGTCACGCAGTCTCCTCACCATCAAATAGa > 1:420109/1‑70 (MQ=255)
atcGCCCATCATGCTATTGCCAACACAGAGTAAAACGTCAGTCACGCAGTCTCCTCAc > 1:559600/1‑58 (MQ=255)
atcGCCCATCATGCTATTGCCAACACAGAGTAAAACGTCAGTCACGCAGTCTCCTCACCATCAAATAGATg > 1:786917/1‑71 (MQ=255)
atcGCCCATCATGCTATTGCCAACACAGAGTAAAACGTCAGTCACGCAGTCTCCTCACCATCAAATAGATg > 1:2347433/1‑71 (MQ=255)
atcGCCCATCATGCTATTGCCAACACAGAGTAAAACGTCAGTCACGCAGTCTCCTCACCATCAAATAGATg > 1:2725606/1‑71 (MQ=255)
catcatGCTATTGCTAACACAGAGTAAAACGTCAGTCACGTAGTctcc < 1:1004390/48‑1 (MQ=255)
catcatGCTATTGCCAACACAGAGTAAAACGTCAGTCACGTAGTctcc < 1:33338/48‑1 (MQ=255)
catcatGCTATTGCCAACACAGAGTAAAACGTCAGTCACGTAGTctcc < 1:1954444/48‑1 (MQ=255)
catcatGCTATTGCCAACACAGAGTAAAACGTCAGTCACGTAGTCTCCTCACCATCAAATAGATGGCGttt > 1:77745/1‑71 (MQ=255)
catcatGCTATTGCCAACACAGAGTAAAACGTCAGTCACGTAGTCTCCTCACCATCAAATAGATGGCGttt < 1:1879755/71‑1 (MQ=255)
atcatGCTATTGCCAACACAGAGTAAAACGTCAGTCACGTAGTCTCCTCACCATCAAATAGATGGCGtttt < 1:1136048/71‑1 (MQ=255)
atcatGCTATTGCCAACACAGAGTAAAACGTCAGTCACGCAGtct < 1:1975283/45‑1 (MQ=255)
atcatGCTATTGCCAACACAGAGTAAAACGTCAGTCACGCAGtct < 1:2231660/45‑1 (MQ=255)
atcatGCTATTGCCAACACAGAGTAAAACGTCAGTCACGCAGtct < 1:1182351/45‑1 (MQ=255)
atcatGCTATTGCCAACACAGAGTAAAACGTCAGTCACGCAGtct < 1:1971938/45‑1 (MQ=255)
tcatGCTATTGCCAACACAGAGTAAAACGTCAGTCACGTAGTCTCCTCAcc < 1:2515437/51‑1 (MQ=255)
tcatGCTATTGCCAACACAGAGTAAAACGTCAGTCACGTAGTCTCCTCACCATCa < 1:1677653/55‑1 (MQ=255)
tcatGCTATTGCCAACACAGAGTAAAACGTCAGTCACGTAGTCTCCTCACCATCa < 1:773884/55‑1 (MQ=255)
tcatGCTATTGCCAACACAGAGTAAAACGTCAGTCACGCAGTCTCCTCACCATCAAATAg < 1:1456910/60‑1 (MQ=255)
tcatGCTATTGCCAACACAGAGTAAAACGTCAGTCACGCAGTCTCCTCACCATCAAATAGAt < 1:1348966/62‑1 (MQ=255)
tcatGCTATTGCCAACACAGAGTAAAACGTCAGTCACGCAGTCTCCTCACCATCAAATAGAt < 1:399207/62‑1 (MQ=255)
catGCTATTGCCAACACAGAGTAAAACGTCAGTCACGCAGTCTCCTCACCATCAAATAGATGGCGTTTTcc > 1:1569809/1‑71 (MQ=255)
atGCTATTGCCAACACAGAGTAAAACGTCAGTCACGTAGTCTCCTCACCATCaaa > 1:799888/1‑55 (MQ=255)
atGCTATTGCCAACACAGAGTAAAACGTCAGTCACGTAGTCTCCTCACCATCaaa > 1:1306666/1‑55 (MQ=255)
atGCTATTGCCAACACAGAGTAAAACGTCAGTCACGCAGTCTCCTCACCATCa < 1:1323067/53‑1 (MQ=255)
atGCTATTGCCAACACAGAGTAAAACGTCAGTCACGCAGTCTCCTCACCATCAAATAGATGGCGTTTTCCt < 1:1825333/71‑1 (MQ=255)
aTTGCCAACACAGAGTAAAACGTCAGTCACGCAGTCTCCTCACCATCAAATAGATGGCGTTTTCCtgatg > 1:131927/1‑70 (MQ=255)
ttGCCAACACAGAGTAAAACGTCAGTCACGTAGTCTCCTCACCATCAAATAGATGGCGTTTTCCtgatg < 1:1728267/69‑1 (MQ=255)
ttGCCAACACAGAGTAAAACGTCAGTCACGCAGTCTCCTCACCATCaa < 1:150087/48‑1 (MQ=255)
ttGCCAACACAGAGTAAAACGTCAGTCACGCAGTCTCCTCACCATCaa < 1:2470685/48‑1 (MQ=255)
ttGCCAACACAGAGTAAAACGTCAGTCACGCAGTCTCCTCACCATCaa < 1:789448/48‑1 (MQ=255)
ttGCCAACACAGAGTAAAACGTCAGTCACGCAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGaa > 1:746427/1‑71 (MQ=255)
gCCAACACAGAGTAAAACGTCAGTCACGTAGTCTCCTCACCATCAAATAGATGGCGTTTTCCtga > 1:2150415/1‑65 (MQ=255)
gCCAACACAGAGTAAAACGTCAGTCACGTAGTCTCCTCACCATCAAATAGATGGCGTTTTCCtga > 1:493387/1‑65 (MQ=255)
gCCAACACAGAGTAAAACGTCAGTCACGTAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGAat > 1:1224539/1‑70 (MQ=255)
cAACACAGAGTAAAACGTCAGTCACGTAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGAATATc < 1:51135/71‑1 (MQ=255)
cAACACAGAGTAAAACGTCAGTCACGCAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGAATATc < 1:1402991/71‑1 (MQ=255)
aaCACAGAGTAAAACGTCAGTCACGTAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGAATATCa > 1:94796/1‑71 (MQ=255)
aaCACAGAGTAAAACGTCAGTCACGCAGTCTCCTCACCATCAAATAGa > 1:761087/1‑48 (MQ=255)
acacAGAGTAAAACGTCAGTCACGTAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGAATATCAt > 1:639098/1‑71 (MQ=255)
cacaGAGTAAAACGTCAGTCACGCAGTCTCCTCACCATCAAATAGATGGCGTTTTCCtgatg < 1:1197515/62‑1 (MQ=255)
acaGAGTAAAACGTCAGTCACGTAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGAATATCATg > 1:1452976/1‑70 (MQ=255)
agTAAAACGTCAGTCACGCAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGAATATCATgcagca < 1:1426339/71‑1 (MQ=255)
gTAAAACGTCAGTCACGCAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGAATATCATgcagca < 1:2536687/70‑1 (MQ=255)
tAAAACGTCAGTCACGTAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGAatat < 1:2251000/60‑1 (MQ=255)
tAAAACGTCAGTCACGCAGTCTCCTCACCATCAAATa < 1:1780749/37‑1 (MQ=255)
tAAAACGTCAGTCACGCAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGAATATCATGCAGCATa < 1:2252924/71‑1 (MQ=255)
aaaCGTCAGTCACGTAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGAATATCATGCAGCATACt > 1:487079/1‑71 (MQ=255)
aaaCGTCAGTCACGTAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGAATATCATGCAGCATACt > 1:2585710/1‑71 (MQ=255)
aaaCGTCAGTCACGTAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGAATATCATGCAGCATACt > 1:697040/1‑71 (MQ=255)
aaaCGTCAGTCACGCAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGAATATCATGCAGCATACt > 1:504042/1‑71 (MQ=255)
aaCGTCAGTCACGTAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGAATATCATGCAGCATACtt < 1:777695/71‑1 (MQ=255)
aaCGTCAGTCACGCAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGAATATCATGCAGCATACtt < 1:1006111/71‑1 (MQ=255)
aaCGTCAGTCACGCAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGAATATCATGCAGCATACtt < 1:2056601/71‑1 (MQ=255)
cagtcaCGTAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGAATATCATGCAGCATACTTAACAg > 1:2047526/1‑71 (MQ=255)
cagtcaCGTAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGAATATCATGCAGCATACTTAACAg > 1:1771832/1‑71 (MQ=255)
cagtcaCGTAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGAATATCATGCAGCATACTTAACAg > 1:2050789/1‑71 (MQ=255)
cagtcaCGCAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGAATATCATGCAGCATACTTAACa > 1:166216/1‑70 (MQ=255)
caCGTAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGaa > 1:1832536/1‑45 (MQ=255)
caCGTAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGaa > 1:2576933/1‑45 (MQ=255)
caCGCAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGAATATCATGCAGCATACTTAACAGCAtt > 1:2081361/1‑71 (MQ=255)
caCGCAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGAATATCATGCAGCATACTTAACAGCAtt > 1:201117/1‑71 (MQ=255)
aCGTAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGAata > 1:2504804/1‑46 (MQ=255)
aCGTAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGAata > 1:1288972/1‑46 (MQ=255)
aCGTAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGAATATCATGCAGCATACTTAACAGCATTg < 1:2047387/71‑1 (MQ=255)
aCGTAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGAATATCATGCAGCATACTTAACAGCATTg > 1:201444/1‑71 (MQ=255)
aCGTAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGAATATCATGCAGCATACTTAACAGCATTg < 1:1285180/71‑1 (MQ=255)
aCGCAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGAATATCATGCAGCATACTTAACAGCa > 1:2513689/1‑68 (MQ=255)
aCGCAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGAATATCATGCAGCATACTTAACAGCATTg < 1:767812/71‑1 (MQ=255)
gCAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGaa > 1:2186068/1‑42 (MQ=255)
gCAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGAATATCATGCAGCATACTTAACAGCATTGTa > 1:972602/1‑71 (MQ=255)
|
GCCAGCAGCGGACCTGCGCCATCATCGCCCATCATGCTATTGCCAACACAGAGTAAAACGTCAGTCACGCAGTCTCCTCACCATCAAATAGATGGCGTTTTCCTGATGAATATCATGCAGCATACTTAACAGCATTGTA > W3110S.gb/2841632‑2841770
|
| 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
