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 |
2,183,814 |
T→A |
9.3% |
V129E (GTG→GAG) |
yegU → |
predicted hydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,183,814 | 0 | T | A | 9.3%
| 109.5
/ 4.7
| 43 | V129E (GTG→GAG) | yegU | predicted hydrolase |
| Reads supporting (aligned to +/- strand): ref base T (19/20); new base A (2/2); total (21/22) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.88e-01 |
CCGACCTCGAAGATTGCGCTTAACGCCATTCGCGACGGTAAACCCGTTGCTGAACTGGAAAACAACGGCGTGACCAACGGCGCAGCGATGCGCGTCTCGCCATTAGGTTGTTTGCTTCCGGCGCGTGATGTTGA > W3110S.gb/2183744‑2183877
|
ccGACCTCGAAGATTGCGCTTAACGCCATTCGCGACGGTAAACCCGTTGCTGAACTGGAAAACAACGGCGt > 1:4102783/1‑71 (MQ=255)
ccGACCTCGAAGATTGCGCTTAACGCCATTCGCGACGGTAAACCCGTTGCTGAACTGGAAAACAACGGCGt > 1:2353115/1‑71 (MQ=255)
ccGACCTCGAAGATTGCGCTTAACGCCATTCGCGACGGTAAAACCGTTGCTGAACTGGAAAACAACGGCGt > 1:4160278/1‑71 (MQ=255)
cGACCTCGAAGATTGCGCTTAACGCCATTCGCGACGGTAAACCCGTTGCTGAACTGGAAAACAACGGCGt < 1:2437576/70‑1 (MQ=255)
aCCTCGAAGATTGCGCTTAACGCCATTCGCGACGGTAAACCCGTTGCTGAACTGGAAAACAACGGCGTGa > 1:3908299/1‑70 (MQ=255)
cTCGAAGATTGCGCTTAACGCCATTCGCGACGGTAAACCCGTTGCTGAACTGGAAAACAACGGCGTGAcc > 1:4545165/1‑70 (MQ=255)
cTCGAAGATTGCGCTTAACGCCATTCGCGACGGTAAACCCGTTGCTGAACTGGAAAACAACGGCGTGAcc > 1:3006381/1‑70 (MQ=255)
cTCGAAGATTGCGCTTAACGCCATTCGCGACGGTAAACCCGTTGCTGAACTGGAAAACAACGGCGTGAcc > 1:3930163/1‑70 (MQ=255)
gAAGATTGCGCTTAACGCCATTCGCGACGGTAAACCCGTTGCTGAACTGGAAAACAACGGCGTGACCAACg > 1:4196464/1‑71 (MQ=255)
gAAGATTGCGCTTAACGCCATTCGCGACGGTAAACCCGTTGCTGAACTGGAAAACAACGGCGTGACCAACg > 1:404727/1‑71 (MQ=255)
gAAGATTGCGCTTAACGCCATTCGCGACGGTAAACCCGTTGCTGAACTGGAAAACAACGGCGAGACCaa < 1:3512489/69‑1 (MQ=255)
gAAGATTGCGCTTAACGCCATTCGCGACCGTAAACCCGTTGCTGAACTGGAAAACAACGGCGTGACCAACg > 1:1730227/1‑71 (MQ=255)
aGATTGCGCTTAACCCCATTCGCGACGGTAAACCCGTTGCTGAACTGGAAAACAACGGCGTGACCAACg < 1:290353/69‑1 (MQ=255)
cgcTTAACGCCATTCGCGACGGTAAACCCGTTGCTGAACTGGAAAACAACGGCGTGACCAACGGCGCAGc < 1:4367357/70‑1 (MQ=255)
gcTTAACGCCATTCGCGACGGTAAACCCGTTGCTGAACTGGAAAACAACGGCGAGACCAACGGCGCAGc < 1:3103119/69‑1 (MQ=255)
aCGCCATTCGCGACGGTAAACCCGTTGCTGAACTGGAAAACAACGGCGTGACCAACGGCGCAGCGa > 1:3624863/1‑66 (MQ=255)
cGCCATTCGCGACGGTAAACCCGTTGCTGAACTGGAAAACAACGGCGTGAcc < 1:2114396/52‑1 (MQ=255)
cGCCATTCGCGACGGTAAACCCGTTGCTGAACTGGAAAACAACGGCGTGACCAACGGCGCAGc < 1:368003/63‑1 (MQ=255)
cATTCGCGACGGTAAACCCGTTGCTGAACTGGAAAACAACGGCGTGACCAACGGCGCAGc < 1:3142534/60‑1 (MQ=255)
cATTCGCGACGGTAAACCCGTTGCTGAACTGGAAAACAACGGCGTGACCAACGGCGCAGc < 1:848944/60‑1 (MQ=255)
cATTCGCGACGGTAAACCCGTTGCTGAACTGGAAAACAACGGCGTGACCAACGGCGCAGCGATGCGCGtc > 1:3151139/1‑70 (MQ=255)
aTTCGCGACGGTAAACCCGTTGCTGAACTGGAAAACAACGGCGTGACCAACGGCGCAGCGa > 1:2554714/1‑61 (MQ=255)
cgcgACGGTAAACCCGTTGCTGAACTGGAAAACAACGGCGTGACCAACGGCGCAGCGATGCGCGTCTCGc < 1:2952741/70‑1 (MQ=255)
cgcgACGGTAAACCCGTTGCTGAACTGGAAAACAACGGCGTGACCAACGGCGCAGCGATGCGCGTCTCGc > 1:1010975/1‑70 (MQ=255)
cgcgACGGTAAACCCGTTGCTGAACTGGAAAACAACGGCGTGACCAACGGCGCAGCGATGCGCGTCTCGc < 1:1036110/70‑1 (MQ=255)
gcgACGGTAAACCCGTTGCTGAACTGGAAAACAACGGCGTGACCAACGGCGCAGCTATGCGCGTCTCGcc < 1:3087963/70‑1 (MQ=255)
tAAACCCGTTGCTGAACTGGAAAACAACGGCGTGACCAACGGCGCAGCGATGCGCGTCTCGCCATTAg < 1:4254987/68‑1 (MQ=255)
aaaCCCGTTGCTGAACTGGAAAACAACGGCGTGACCaa > 1:2045078/1‑38 (MQ=255)
aaCCCGTTGCTGAACTGGAAAACAACGGCGTGACCAACGGCGCAGCGATGCGCGTCTCGCCATTAGgttgt > 1:2879647/1‑71 (MQ=255)
aaCCCGTTGCTGAACTGGAAAACAACGGCGTGACCAACGGCGCAGCGATGCGCGTCTCGCCATTAGgttgt > 1:3958839/1‑71 (MQ=255)
aaCCCGTTGCTGAACTGGAAAACAACGGCGTGACCAACGGCGCAGCGATGCGCGTCTCGCCATTAGgttgt > 1:1853498/1‑71 (MQ=255)
aaCCAGTTGCTGAACTGGAAAACAACGGCGTGACCAACGGCGCAGCGATGCGCGtct > 1:1994235/1‑57 (MQ=255)
cGTTGCTGAACTGGAAAACAACGGCGAGACCAACGGCGCAGCGa > 1:3426394/1‑44 (MQ=255)
cGTTGCTGAACTGGAAAACAACGGCGAGACCAACGGCGCAGCGa > 1:509453/1‑44 (MQ=255)
gTTGCTGAACTGGAAAACAACGGCGTGACCAACGGCGCAGCGATg > 1:328958/1‑45 (MQ=255)
ttGCTGAACTGGAAAACAACGGCGTGACCAACGGCGCAGCGATGCGCGTCTCGc < 1:2374866/54‑1 (MQ=255)
tGCTGAACTGGAAAACAACGGCGTGACCAACGGCGCAGc < 1:2253282/39‑1 (MQ=255)
gCTGAACTGGAAAACAACGGCGTGACCAACGGCGCAGCGATGCGCGTCTCGCCATTAGGTTGTTTGCTTcc > 1:4411434/1‑71 (MQ=255)
gCTGAACTGGAAAACAACGGCGTGACCAACGGCGCAGCGATGCGCGTCTCGCCATTAGGTTGTTTGCTTc < 1:1483444/70‑1 (MQ=255)
gAACTGGAAAACAACGGCGTGACCAACGGCGCAGc < 1:1731509/35‑1 (MQ=255)
aCTGGAAAACAACGGCGTGACCAACGGCGCAGCGATGCGCGTCTCGCCATTAGGTTGTTTGCTTCCGgcgc > 1:276889/1‑71 (MQ=255)
cTGGAAAACAACGGCGTGACCAACGGCGCAGCGATGCGCGTCTCGCCATTAGGTTGttt < 1:2174888/59‑1 (MQ=255)
gAAATCAACGGCGTGACCAACGGCGCAGCGATGCGCGTCTCGCCATTAGGTTGTTTGCTTCCGGCGCGt < 1:3729138/69‑1 (MQ=255)
acaacGGCGTGACCAACGGCGCAGCGATGCGCGTCTCGCCATTAGGTTGTTTGCTTCCGGCGCGTGATGtt < 1:1443818/71‑1 (MQ=255)
acaacGGCGTGACCAACGGCGCAGCGATGCGCGTCTCGCCATTAGGTTGTTTGCTTCCGGCGCGTGATGtt < 1:632735/71‑1 (MQ=255)
aacGGCGTGACCAACGGCGCAGCGATGCGCGTCTCGCCATTAGGTTGTTTGCTTCCGGCGCGTGATGTTGa < 1:1538855/71‑1 (MQ=255)
gTGACCAACGGCGCAGCGATGCGCGTCTCGCCATTAGGTTGTTTGCTTc < 1:1112662/49‑1 (MQ=255)
tGACCAACGGCGCAGCGATGCGCGTCTCGCCATTAGGTTGttt < 1:657411/43‑1 (MQ=255)
|
CCGACCTCGAAGATTGCGCTTAACGCCATTCGCGACGGTAAACCCGTTGCTGAACTGGAAAACAACGGCGTGACCAACGGCGCAGCGATGCGCGTCTCGCCATTAGGTTGTTTGCTTCCGGCGCGTGATGTTGA > W3110S.gb/2183744‑2183877
|
| 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
