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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
788,075 |
G→A |
28.6% |
P461S (CCA→TCA) |
ycgB ← |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 788,075 | 0 | G | A | 28.6%
| 61.0
/ 26.9
| 42 | P461S (CCA→TCA) | ycgB | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (12/18); new base A (6/6); total (18/24) |
| Fisher's exact test for biased strand distribution p-value = 7.32e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CCCACAGGCGATGCACATGCTTCAGGACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGGAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGTTCCAGATCTGAATATTCGGCTCCA > minE/788009‑788143
|
cccACAGGCGATGCACATGCTTCAGGACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGAAat < 1:548767/70‑1 (MQ=255)
ccACAGGCGATGCACATGCTTCAGGACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGAAatat < 1:187626/71‑1 (MQ=255)
gCGATGCACATGCTTCAGGACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGGAATATAACGCa < 1:673941/71‑1 (MQ=255)
tGCACATGCTTCAGGACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGGAATATAACGCAGAGt < 1:1441794/71‑1 (MQ=255)
acaTGCTTCAGGACTTCTTTGCGCCCCCGATCTAGCGGTGCGCGATTATGTgg < 1:3431034/53‑1 (MQ=255)
aTGCTTCAGGACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGAAATATAACGCAGCGTCAGCg < 1:1584187/71‑1 (MQ=255)
tGCTTCAGGACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGGAATATAACGCAGCGTCAGCGa < 1:3335757/71‑1 (MQ=255)
cTTCAGTACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGGAATATAACGCAGCGTCAGCGaa < 1:533717/70‑1 (MQ=255)
cttcttTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGGAATATAACGCAGCGTCAGCGAACGGt < 1:1123299/66‑1 (MQ=255)
cttcttTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGGAATATAACGCAGCGTCAGCGAACGGTcgccg > 1:156816/1‑71 (MQ=255)
ttcttTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGGAATATAACGCAGCGTCAGCGAACGGTcgccgc > 1:1106077/1‑71 (MQ=255)
ttcttTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGGAATATAACGCAGCGTCAGCGAACGGTcgccgc > 1:2192647/1‑71 (MQ=255)
ttcttTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGAAATATAACGCAGCGTCAGCGAACGGTcgccgc > 1:1950734/1‑71 (MQ=255)
ttcttTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGAAATATAACGCAGCGTCAGCGAACGGTcgccg > 1:2175364/1‑70 (MQ=255)
cttTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGAAATATAACGCAGCGTCAGCGAACGGTCGCcgcg > 1:230876/1‑70 (MQ=255)
cttTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGAAATATAACGCAGCGTCAGCGAACGGTCGCcgcg > 1:2605247/1‑70 (MQ=255)
tGCGCCCCCGATCCAGCGGTGCGCGATTATGTGGAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCaa < 1:854101/70‑1 (MQ=255)
gcgcCCCCGATCCAGCGGTGCGCGATTATGTGGAATATAACGCAGCGTc > 1:2591487/1‑49 (MQ=255)
gcgcCCCCGATCCAGCGGTGAGCGATTATGTGGAATATAACGCAGCGTc > 1:1508299/1‑49 (MQ=255)
gcCCCCGATCCAGCGGTGCGCGATTATGTGGAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATcc < 1:1182818/71‑1 (MQ=255)
cccTATCCAGCGGTGCGCGATTATGTGGAATATAACGCAGCGTCAGCGAACGGt < 1:2856702/54‑1 (MQ=255)
cccGATCCAGCGGTGCGCGATTATGTGGAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCAc > 1:3502551/1‑70 (MQ=255)
cGATCCAGCGGTGCGCGATTATGTGGAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGtt > 1:3847548/1‑71 (MQ=255)
gATCCAGCGGTGCGCGATTATGTGGAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCa < 1:1748347/60‑1 (MQ=255)
aTCCAGCGGTGCGCGATTATGTGAAATATAACGCAGCGTCAGCGAACGGt < 1:3092849/50‑1 (MQ=255)
aTCCAGCGGTGCGCGATTATGTGAAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGTTcc < 1:2894773/71‑1 (MQ=255)
tCCAGCGGTGCGCGATTATGTGGAATATAACGCAGCGTCAGCGAACGGTcgccgc < 1:2031779/55‑1 (MQ=255)
tCCAGCGGTGCGCGATTATGTGAAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGTTcc < 1:2979154/70‑1 (MQ=255)
cAGCGGTGCGCGATTATGTGGAATATAACGCAGCGTCAGCGAAc > 1:3235093/1‑44 (MQ=255)
cAGCGGTGCGCGATTATGTGGAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGTTCCAg < 1:2354668/70‑1 (MQ=255)
aGCGGTGCGCGATTATGTGGAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGTTc > 1:340937/1‑66 (MQ=255)
cGGTGCGCGATTATGTGGAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGTTCCAGATCt < 1:3056880/71‑1 (MQ=255)
ggggcgcGATTATGTGAAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGTTCCAGATCt > 1:1141065/4‑70 (MQ=255)
ggTGCGCGATTATGTGGAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGTTCCAGATCTg < 1:2609896/71‑1 (MQ=255)
gTGCGCGATTATGTGGAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGTTCCAGATCTg > 1:186860/1‑70 (MQ=255)
cgcgATTATGTGGAATATAACGCAGCGTCAGCGAACGGTc > 1:830455/1‑40 (MQ=255)
cgcgATTATGTGGAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGTTCCAGATCTGAata < 1:926751/71‑1 (MQ=255)
cgcgATTATGTGGAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGTTCCAGATCTGAata < 1:3437630/71‑1 (MQ=255)
cgcgATTATGTGGAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGTTCCAGACCTGAata < 1:3291789/71‑1 (MQ=255)
gcgATTATGTGGAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGTTCCAGATCTGAatat > 1:3238249/1‑71 (MQ=255)
ttATGTGAAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGTTCCAGATCTGAATATTCg > 1:3184303/1‑70 (MQ=255)
gtgGAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGTTCCAGATCTGAATATTCGGCTc < 1:3719746/70‑1 (MQ=255)
tgGAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGTTCCAGATCTGAATATTCGGCTCCa < 1:3811341/71‑1 (MQ=255)
ggAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGTTCCAGATCTGAATATTCGGCTc > 1:1054525/1‑68 (MQ=255)
|
CCCACAGGCGATGCACATGCTTCAGGACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGGAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGTTCCAGATCTGAATATTCGGCTCCA > minE/788009‑788143
|
| 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
