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 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
904,996 |
G→A |
70.5% |
intergenic (‑107/‑19) |
ybjP ← / → ybjQ |
predicted lipoprotein/conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 904,996 | 0 | G | A | 70.5%
| 112.2
/ 63.5
| 78 | intergenic (‑107/‑19) | ybjP/ybjQ | predicted lipoprotein/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (15/8); new base A (34/21); total (49/29) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AATGATATCCTTTCAATAATAGCGTATCAGTCTGATAATGCTTTTGAGATCGAAGGCTTAGCAAACAAGGAGATCGATCATGCAATTTTCTACAACCCCAACTCTGGAAGGCCAGACCATCGTTGAA > W3110S.gb/904936‑905062
|
aatGATATCCTTTCAATAATAGCGTAACAGTCTGATAATGCTTTTGAGATCGAAGGCTTAACAAACAAg < 1:2157629/69‑1 (MQ=255)
atGATATCCTTTCAATAATAGCGTATCAGTCTGATAATGCTTTTGAGATCGAAGGCTTAACAAACAAg < 1:1990329/68‑1 (MQ=255)
atatCCTTTCAATAATAGCGTATCAGTCTGATAATGCTTTTGAGATCGAAGGCTTAGCAAACa > 1:901387/1‑63 (MQ=255)
ccTTTCAATAATAGCGTATCAGTCTGATAATGCTTTTGAGATCGAAGGCTTAACAAACAAGGAgatcg > 1:214990/1‑68 (MQ=255)
cTTTCAATAATAGCGTATCAGTCTGATAATGCTTTTGAGATCGAAGGCTTAACAAACAAGGAgatcgat < 1:3462207/69‑1 (MQ=255)
cAATAATAGCGTATCAGTCTGATAATGCTTTTGAGATCGAAGGCTTAGCAAACAAGGAgat > 1:1604947/1‑61 (MQ=255)
cAATAATAGCGTATCAGTCTGATAATGCTTTTGAGATCGAAGGCTTAGCAAACAAGGAGATCGATCAt > 1:2045065/1‑68 (MQ=255)
cAATAATAGCGTATCAGTCTGATAATGCTTTTGAGATCGAAGGCTTAGCAAACAAGGAGATCGATCAt > 1:804761/1‑68 (MQ=255)
cAATAATAGCGTATCAGTCTGATAATGCTTTTGAGATCGAAGGCTTAGCAAACAAGGAGATCGATCAt > 1:1629914/1‑68 (MQ=255)
cAATAATAGCGTATCAGTCTGATAATGCTTTTGAGATCGAAGGCTTAACAAACAAGGAGATCGATCAt > 1:635852/1‑68 (MQ=255)
cAATAATAGCGTATCAGTCTGATAATGCTTTTGAGATCGAAGGCTTAACAAACAAGGAGATCGATCAt > 1:3461442/1‑68 (MQ=255)
ataataGCGTATCAGTCTGATAATGCTTTTGAGATCGAAGGCTTAACAAACAAGGAGATCGATCATGc < 1:2329131/68‑1 (MQ=255)
ataGCGTATCAGTCTGATAATGCTTTTGAGATCGAAGGCTTAACAAACAAGGAGATCGATCATGCaa > 1:3125940/1‑67 (MQ=255)
ataGCGTATCAGTCTGATAATGCTTTTGAGATCGAAGGCTTAACAAACAAGGAGATCGATCATGCAAtt > 1:1969006/1‑69 (MQ=255)
ataGCGTATCAGTCTGATAATGCTTTTGAGATCGAAGGCTTAACAAACAAGGAGATCGATCATGCAAtt < 1:1675328/69‑1 (MQ=255)
ataGCGTATCAGTCTGATAATGCTTTTGAGATCGAAGGCTTAACAAACAAGGAGATCGATCATGCAAtt > 1:2361934/1‑69 (MQ=255)
ataGCGTATCAGTCTGATAATGCTTTTGAGATCGAAGGCTTAACAAACAAGGAGATCGATCATGCAAtt > 1:245433/1‑69 (MQ=255)
ataGCGTATCAGTCTGATAATGCTTTTGAGATCGAAGGCTTAACAAACAAGGAGATCGATCATGCAAtt > 1:308538/1‑69 (MQ=255)
aGCGTATCAGTCTGATAATGCTTTTGAGATCGAAGGCTTAACAAACAAGGAGATCGATCATGCAAttt > 1:2479430/1‑68 (MQ=255)
aGCGTATCAGTCTGATAATGCTTTTGAGATCGAAGGCTTAACAAACAAGGAGATCGATCATGCAAttt > 1:1147284/1‑68 (MQ=255)
aGCGTATCAGTCTGATAATGCTTTTGAGATCGAAGGCTTAACAAACAAGGAGATCGATCATG‑AATTTTc > 1:2751164/1‑69 (MQ=255)
gCGTATCAGTCTGATAATGCTTTTGAGATCGAAGGCTTAACAAACAAGTAGATCGATCATGCAATTTTc < 1:171851/69‑1 (MQ=255)
gCGTATCAGTCTGATAATGCTTTTGAGATCGAAGGCTTAACAAACAAGGAGATCGATCATGCAATTTTc < 1:2310531/69‑1 (MQ=255)
tATCAGTCTGATAATGCTTTTGAGATCGAAGGCTTAACAAACAAGGAGATCGATCATGCAATTTTCTAc < 1:1336588/69‑1 (MQ=255)
tATCAGTCTGATAATGCTTTTGAGATCGAAGGCTTAACAAACAAGGAGATCGATCATGCAATTTTCTAc < 1:2653292/69‑1 (MQ=255)
tATCAGTCTGATAATGCTTTTGAGATCGAAGGCTTAACAAACAAGGAGATCGATCATGCAATTTTCTAc < 1:2890468/69‑1 (MQ=255)
tCAGTCTGATAATGCTTTTGAGATCGAAGGCTTAGCAAACAAGGAGATCGATCATGCAATTTTCTACaa > 1:2293683/1‑69 (MQ=255)
tCAGTCTGATAATGCTTTTGAGATCGAAGGCTTAACAAACAAGGAgatcg > 1:2136364/1‑50 (MQ=255)
tCAGTCTGATAATGCTTTTGAGATCGAAGGCTTAACAAACAAGGAgatcg > 1:2948867/1‑50 (MQ=255)
tCAGTCTGATAATGCTTTTGAGATCGAAGGCTTAACAAACAAGGAGATCGATCATGCAATTTTCTACaa > 1:383932/1‑69 (MQ=255)
tCAGTCTGATAATGCTTTTGAGATCGAAGGCTTAACAAACAAGGAGATCGATCATGCAATTTTCTACaa > 1:1721237/1‑69 (MQ=255)
tCAGTCTGATAATGCTTTTGAGATCGAAGGCTTAACAAACAAGGAGATCGATCATGCAATTTTCTACaa > 1:3646977/1‑69 (MQ=255)
tGATAATGCTTTTGAGATCGAAGGCTTAGCAAACa < 1:2995085/35‑1 (MQ=255)
tGATAATGCTTTTGAGATCGAAGGCTTAGCAAACa > 1:1531162/1‑35 (MQ=255)
tGATAATGCTTTTGAGATCGAAGGCTTAACAAACAAGGAGATCGATCATGCAATTTTCTACAAcccc > 1:1748325/1‑67 (MQ=255)
tGATAATGCTTTTGAGATCGAAGGCTTAACAAACAAGGAGATCGATCATGCAATTTTCTACAAcccc > 1:462862/1‑67 (MQ=255)
tGATAATGCTTTTGAGATCGAAGGCTTAACAAACAAGGAGATCGATCATGCAATTTTCTACAACCCCa > 1:2706883/1‑68 (MQ=255)
aTAATGCTTTTGAGATCGAAGGCTTAACAAACAAGGAGATCGATCATGCAATTTTCTACAACCCCAAct > 1:2755968/1‑69 (MQ=255)
tAATGCTTTTGAGATCGAAGGCTTAGCAAACAAGGAgatcg > 1:2816230/1‑41 (MQ=255)
tAATGCTTTTGAGATCGAAGGCTTAGCAAACAAGGAgatcg > 1:304881/1‑41 (MQ=255)
tAATGCTTTTGAGATCGAAGGCTTAGCAAACAAGGAgatcg > 1:3103762/1‑41 (MQ=255)
aaTGCTTTTGAGATCGAAGGCTTAACAAACAAGgaga > 1:2296271/1‑37 (MQ=255)
aaTGCTTTTGAGATCGAAGGCTTAACAAACAAGGAGATCGATCATGCAATTTTCTACAACCCCAActc > 1:3694000/1‑68 (MQ=255)
aaTGCTTTTGAGATCGAAGGCTTAACAAACAAGGAGATCGATCATGCAATTTTCTACAACCCCAActc > 1:2446042/1‑68 (MQ=255)
aaTGCTTTTGAGATCGAAGGCTTAACAAACAAGGAGATCGATCATGCAATTTTCTACAACCCCAActc > 1:1526896/1‑68 (MQ=255)
aaTGCTTTTGAGATCGAAGGCTTAACAAACAAGGAGATCGATCATGCAATTTTCTACAACCCCAActc > 1:2306846/1‑68 (MQ=255)
aaTGCTTTTGAGATCGAAGGCTTAACAAACAAGGAGATCGATCATGCAATTTTCTACAACCCCAActc > 1:3707816/1‑68 (MQ=255)
aaTGCTTTTGAGATCGAAGGCTTAACAAACAAGGAGATCGATCATGCAATTTTCTACAACCCCAAct > 1:571296/1‑67 (MQ=255)
tGCTTTTGAGATCGAAGGCTTAGCAAACAAGGAGATCGATCATGCAATTTTCTACAACCCCAActct > 1:3404137/1‑67 (MQ=255)
tGCTTTTGAGATCGAAGGCTTAACAAACAAGGAGATCGATCATGCAATTTTc > 1:927236/1‑52 (MQ=255)
tGCTTTTGAGATCGAAGGCTTAACAAACAAGGAGATCGATCATGCAATTTTc > 1:1643640/1‑52 (MQ=255)
tGCTTTTGAGATCGAAGGCTTAACAAACAAGGAGATCGATCATGCAATTTTc > 1:1703544/1‑52 (MQ=255)
gCTTTTGAGATCGAAGGCTTAACAAACAAGGAGATCGATCATGCAATTTTCTACAACCCCAACTCTgg < 1:3278631/68‑1 (MQ=255)
gCTTTTGAGATCGAAGGCTTAACAAACAAGGAGATCGATCATGCAATTTTCTACAACCCCAACTCTgg < 1:2824138/68‑1 (MQ=255)
cTTTTGAGATCGAAGGCTTAGCAAACAAGGAGATCGATCATGCAATTTTCTACAACCCCAACTCTGGaa > 1:973862/1‑69 (MQ=255)
cTTTTGAGATCGAAGGCTTAGCAAACAAGGAGATCGATCATGCAATTTTCTACAACCCCAACTCTGGaa > 1:2395543/1‑69 (MQ=255)
cTTTTGAGATCGAAGGCTTAGCAAACAAGGAGATCGATCATGCAATTTTCTACAACCCCAACTCTGGaa > 1:2176214/1‑69 (MQ=255)
cTTTTGAGATCGAAGGCTTAGCAAACAAGGAGATCGATCATGCAATTTTCTACAACCCCAACTCTGGaa > 1:232982/1‑69 (MQ=255)
tttGAGATCGAAGGCTTAGCAAACAAGGAGATCGATCATGCAATTTTCTACAACCCCAACTCTGGAAgg < 1:1953500/69‑1 (MQ=255)
tttGAGATCGAAGGCTTAGCAAACAAGGAGATCGATCATGCAATTTTCTACAACCCCAACTCTGGAAgg < 1:1957776/69‑1 (MQ=255)
gagaTCGAAGGCTTAACAAACAAGGAGATCGATCATGCAATTTTCTACAACCCCAACTCTGGAAGGCCa > 1:3285275/1‑69 (MQ=255)
agaTCGAAGGCTTAGCAAACAAGGAGATCGATCATGCAATTTTCTACAACCCCAACTCTGGAAGGCCa < 1:1388615/68‑1 (MQ=255)
aTCGAAGGCTTAGCAAACAAGGAGATCGATCATGCAATTTTCTACAACCCCAACTCTGGAAGGCCAGa < 1:2661291/68‑1 (MQ=255)
tCGAAGGCTTAACAAACAAGGAGATCGATCATGCAATTTTCTACAACCCCAACTCTGGAAGGCCAGAcc < 1:2230029/69‑1 (MQ=255)
cGAAGGCTTAACAAACAAGGAGATCGATCATGCAAtttt > 1:2354270/1‑39 (MQ=255)
cGAAGGCTTAACAAACAAGGAGATCGATCATGCAAtttt > 1:1816259/1‑39 (MQ=255)
cGAAGGCTTAACAAACAAGGAGATCGATCATGCAATTTTCTACAACCCCAACTCTGGAAGGc < 1:3123272/62‑1 (MQ=255)
cGAAGGCTTAACAAACAAGGAGATCGATCATGCAATTTTCTACAACCCCAACTCTGGAAGGc < 1:1192926/62‑1 (MQ=255)
cGAAGGCTTAACAAACAAGGAGATCGATCATGCAATTTTCTACAACCCCAACTCTGGAAGGCCAGAcc > 1:1304074/1‑68 (MQ=255)
aGGCTTAACAAACAAGGAGATCGATCATGCAATTTTCTACAACCCCAACTCTGGAAGGCCAGACCATc < 1:1769968/68‑1 (MQ=255)
aGGCTTAACAAACAAGGAGATCGATCATGCAATTTTCTACAACCCCAACTCTGGAAGGCCAGACCATc < 1:1656258/68‑1 (MQ=255)
aGGCTTAACAAACAAGGAGATCGATCATGCAATTTTCTACAACCCCAACTCTGGAAGGCCAGACCATc < 1:777421/68‑1 (MQ=255)
aGGCTTAACAAACAAGGAGATCGATCATGCAATTTTCTACAACCCCAACTCTGGAAGGCCAGACCATc < 1:2967040/68‑1 (MQ=255)
cTTAACAAACAAGGAGATCGATCATGCAATTTTCTACAACCCCAACTCTGGAAGGCCAGACCATCGTTg < 1:229717/69‑1 (MQ=255)
cTTAACAAACAAGGAGATCGATCATGCAATTTTCTACAACCCCAACTCTGGAAGGCCAGACCATCGTTg < 1:665456/69‑1 (MQ=255)
tAGCAAACAAGGAGATCGATCATGCAATTTTCTACAACCCCAACTCTGGAAGGCCAGACCATCGTTGaa < 1:2334125/69‑1 (MQ=255)
tAGCAAACAAGGAGATCGATCATGCAATTTTCTACAACCCCAACTCTGGAAGGCCAGACCATCGTTGaa < 1:1627072/69‑1 (MQ=255)
tAGCAAACAAGGAGATCGATCATGCAATTTTCTACAACCCCAACTCTGGAAGGCCAGACCATCGTTGaa < 1:1483195/69‑1 (MQ=255)
|
AATGATATCCTTTCAATAATAGCGTATCAGTCTGATAATGCTTTTGAGATCGAAGGCTTAGCAAACAAGGAGATCGATCATGCAATTTTCTACAACCCCAACTCTGGAAGGCCAGACCATCGTTGAA > W3110S.gb/904936‑905062
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
