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 R2
|
370 |
72.1 |
3738297 |
91.5% |
3420541 |
62.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,547,976 |
T→C |
10.2% |
V62A (GTT→GCT) |
htrL → |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,547,976 | 0 | T | C | 10.2%
| 152.7
/ 9.3
| 59 | V62A (GTT→GCT) | htrL | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (23/30); new base C (3/3); total (26/33) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.23e-01 |
TACTTTGAGCGTCTGGCCGCACTTGAAAATGAGATGATTATTTTCACTTCTCCCGATTTGAAACCAAGGGTTGAAGCGATTCGCAACGGAAAACCAACAACGGTTATCGTTATCGATATAAAAAAGAAATTTAGATATAT > minE/2547906‑2548045
|
tACTTTGAGCGTCTGGCCGCACTTGAAAATGAGATGATTATTTTCACTTCTCCCGATTTGAAACCAAGGGt > 1:1521461/1‑71 (MQ=255)
cTTTGAGCGTCTGGCCGCACTTGAAAATGAGATGATTATTTTCACTTCTCCCGATTTGAAACCAAGGGTTg < 1:2299004/71‑1 (MQ=255)
cTTTGAGCGTCTGGCCGCACTTGAAAATGAGATGATTATTTTCACTTCTCCCGATTTGAAACCAAGGGTTg < 1:1199100/71‑1 (MQ=255)
ttGAGCGTCTGGCCGCACTTGAAAATGAGATGATTATTTTCACTTCTCCCGATTTGAAACCAAGGGTTg > 1:920740/1‑69 (MQ=255)
tGAGCGTCTGGCCGCACTTGAAAATGAGATGATTATTTTCACTTCTCCCGATTTGAAACCAAGGGTTGa < 1:1534327/69‑1 (MQ=255)
tGAGCGTCTGGCCGCACTTGAAAATGAGATGATTATTTTCACTTCTCCCGATTTGAAACCAAGGGTTGAAg > 1:1963337/1‑71 (MQ=255)
tGAGCGTCTGGCCGCACTTGAAAATGAGATGATTATTTTCACTTCTCCCGATTTGAAACCAAGGGCTGAAg > 1:1163719/1‑71 (MQ=255)
gAGCGTCTGGCCGCACTTGAAAATGAGATGATTATTTTCACTTCTCCCGATTTGAAACCAAGGGCTGa < 1:1093411/68‑1 (MQ=255)
aGCGTCTGGCCGCACTTGAAAATGAGATGATTATTTTCACTTCTCCCGATTTGAAACCAAGGGTTGAAGCg < 1:1999098/71‑1 (MQ=255)
gCGTCTGGCCGCACTTGAAAATGAGATGATTATTTTCACTTCTCCCGATTTGAAACCAAGGGTTGAAGCGa < 1:1792169/71‑1 (MQ=255)
gTCTGGCCGCACTTGAAAATGAGATGATTATTTTCACTTCTCCCGATTTGAAACCAAGGGTTGAAGCGAtt > 1:3208507/1‑71 (MQ=255)
gTCTGGCCGCACTTGAAAATGAGATGATTATTTTCACTTCTCCCGATTTGAAACCAAGGGTTGAAGCGAtt < 1:1127940/71‑1 (MQ=255)
gCCGCACTTGAAAATGAGATGATTATTTTCACTTCTCCCGATTTGAAACCAAGGGTTGAAGCGATTCg < 1:3248024/68‑1 (MQ=255)
gCCGCACTTGAAAATGAGATGATTATTTTCACTTCTCCCGATTTGAAACCAAGGGTTGAAGCGATTCg < 1:1004863/68‑1 (MQ=255)
gCCGCACTTGAAAATGAGATGATTATTTTCACTTCTCCCGATTTGAAACCAAGGGCTGAAGCGATTCGCaa < 1:79609/71‑1 (MQ=255)
gCCGCACTTGAAAATGAGATGATTATTTTCACTTCTCCCGATTTGAAACCAAGGGCTGAAGCGATTCGCaa < 1:506011/71‑1 (MQ=255)
ccGCACTTGAAAATGAGATGATTATTTTCACTTCTCCCGATTTGAAACCAAGGGTTGaa > 1:1134183/1‑59 (MQ=255)
ccGCACTTGAAAATGAGATGATTATTTTCACTTCTCCCGATTTGAAACCAAGGGTTGAAGCGATTCGCa < 1:2833034/69‑1 (MQ=255)
cGCACTTGAAAATGAGATGATTATTTTCACTTCTCCCGATTTGAAACCAAGGGTTGAAGCGATTCGCAACg > 1:2923626/1‑71 (MQ=255)
aCTTGAAAATGAGATGATTATTTTCACTTCTCCCGATTTGAAACCAAGGGTTg < 1:3624474/53‑1 (MQ=255)
aCTTGAAAATGAGATGATTATTTTCACTTCTCCCGATTTGAAACCAAGGGTTGAAGCGATTCGCAACGGa > 1:2639375/1‑70 (MQ=255)
tGAAAATGAGATGATTATTTTCACTTCTCCCGATTTGAAACCAAGGGTTGAAGCGATTCGCAACGGaaaa > 1:251755/1‑70 (MQ=255)
aaaaTGAGATGATTATTTTCACTTCTCCCGATTTGAAACCAAGGGTTGAAGCGATTCGCAACGGAAAAcc < 1:2485127/70‑1 (MQ=255)
aaaTGAGATGATTATTTTCACTTCTCCCGATTTGAAACCAAGGGTTGAAGCGATTCGCAACGGAAAACcaa > 1:688336/1‑71 (MQ=255)
aTGAGATGATTATTTTCACTTCTCCCGATTTGAAACCAAGGGTTGAAGCGATTCGCAACGGAAAACcaaca < 1:2350586/71‑1 (MQ=255)
tGAGATGATTATTTTCACTTCTCCCGATTTGAAACCAAGGGTTGAAGCGATTCGCAACGGAAAACcaacaa < 1:1317088/71‑1 (MQ=255)
tGAGATGATTATTTTCACTTCTCCCGATTTGAAACCAAGGGTTGAAGCGATTCGCAACGGAAAACcaacaa < 1:1771488/71‑1 (MQ=255)
gatgatTATTTTCACTTCTCCCGATTTGAAACCAAGGGTTGAAGCGATTCGCAACGGaa < 1:1303391/59‑1 (MQ=255)
attattTTCACTTCTCCCGATTTGAAACCAAGGGTTGAAGc < 1:2051976/41‑1 (MQ=255)
ttattTTCACTTCTCCCGATTTGAAACCAAGGGCTGAAGCGATTCGCAACGGAAAACCAACAACGgttatc > 1:1087910/1‑71 (MQ=255)
ttattTTCACTTCTCCCGATTTGAAACAAAGGGCTGAAGCGATTCGCAACGGAAAACCAACAACGgttat > 1:3713881/1‑70 (MQ=255)
tattTTCACTTCTCCCGATTTGAAACCAAGGGTTGAAGCGATTCGCAAc > 1:2304969/1‑49 (MQ=255)
tattTTCACTTCTCCCGATTTGAAACCAAGGGTTGAAGCGATTCGCAAc > 1:399265/1‑49 (MQ=255)
ttttCACTTCTCCCGATTTGAAACCAAGGGTTGAAGCGATTCGCAACGGAAAACCAACAACGgttatcgtt < 1:2274495/71‑1 (MQ=255)
aCTTCTCCCGATTTGAAACCAAGGGTTGAAGCGATTCGCAACGGAAAACCAACAACGGttatcgttatcg < 1:2917412/70‑1 (MQ=255)
aCTTCTCCCGATTTGAAACCAAGGGTTGAAGCGATTCGCAACGGAAAACCAACAACGGttatcgttatcg < 1:2976768/70‑1 (MQ=255)
cTTCTCCCGATTTGAAACCAAGGGTTGAAGCGATTCGCAACGGaa < 1:2094215/45‑1 (MQ=255)
ctcCCGATTTGAAACCAAGGGTTGAAGCGATTCGCaa > 1:2286581/1‑37 (MQ=255)
ctcCCGATTTGAAACCAAGGGTTGAAGCGATTCGCaa > 1:2809559/1‑37 (MQ=255)
cccGATTTGAAACCAAGGGTTGAAGCGATTCGCAACGGAAAACCAACAACGGTTATCGTTATCGATATaa > 1:3235385/1‑70 (MQ=255)
ccGATTTGAAACCAAGGGTTGAAGCGATTCGCAACGGAAAACCAACAACGGTTATCGTTATCGATATaaa < 1:1104372/70‑1 (MQ=255)
aTTTGAAACCAAGGGTTGAAGCGATTCGCAACGGAAAACCAACAACGGTTATCGTTATCGATATaaaa > 1:1517563/1‑68 (MQ=255)
aCCAAGGGTTGAAGCGATTCGCAACGGAAAACCAACAACGGTTATCGTTATCGATATAAAAAAGaaa > 1:3675307/1‑67 (MQ=255)
aCCAAGGGTTGAAGCGATTCGCAACGGAAAACCAACAACGGTTATCGTTATCGATATAAAAAAGaaa > 1:1535055/1‑67 (MQ=255)
aCCAAGGGTTGAAGCGATTCGCAACGGAAAACCAACAACGGTTATCGTTATCGATATAAAAAAGAAATTTa < 1:520090/71‑1 (MQ=255)
aCCAAGGGTTGAAGCGATTCGCAACGGAAAACCAACAACGGTTATCGTTATCGATATAAAAAAGAAATTTa < 1:3706059/71‑1 (MQ=255)
aCCAAGGGTTGAAGCGATTCGCAACGGAAAACCAACAACGGTTATCGTTATCGATATAAAAAAGAAATTTa < 1:174264/71‑1 (MQ=255)
aCCAAGGGTTGAAGCGATTCGCAACGGAAAACCAACAACGGTTATCGTTATCGATATAAAAAAGAAATTTa < 1:1721465/71‑1 (MQ=255)
ccAAGGGTTGAAGCGATTCGCAACGGAAAACCAACAACGGTTATCGTTATCGATATAAAAAAGAAAtt > 1:108095/1‑68 (MQ=255)
ccAAGGGTTGAAGCGATTCGCAACGGAAAACCAACAACGGTTATCGTTATCGATATAAAAAAGAAATTTAg < 1:502940/71‑1 (MQ=255)
aaGGGTTGAAGCGATTCGCAACGGAAAACCAACAACGgttatc > 1:3081744/1‑43 (MQ=255)
aaGGGTTGAAGCGATTCGCAACGGAAAACCAACAACGgttatc > 1:1744794/1‑43 (MQ=255)
aaGGGTTGAAGCGATTCGCAACGGAAAACCAACAACGGTTATCGTTATCGATATAAAAAAGaa < 1:538062/63‑1 (MQ=255)
gggTTGAAGCGATTCGCAACGGAAAACCAACAACGGTTATCGTTATCGATATAAAAAAGAAATTTAGata > 1:1858329/1‑70 (MQ=255)
gggTTGAAGCGATTCGCAACGGAAAACCAACAACGGTTATCGTTATCGATATAAAAAAGAAATTTAGata > 1:1475894/1‑70 (MQ=255)
ggTTGAAGCGATTCGCAACGGAAAACCAACAACGgttatcgttat < 1:3239907/45‑1 (MQ=255)
ggTTGAAGCGATTCGCAACGGAAAACCAACAACGGttatcgttatcg > 1:2680820/1‑47 (MQ=255)
ggTTGAAGCGATTCGCAACGGAAAACCAACAACGGttatcgttatcg > 1:2490042/1‑47 (MQ=255)
gTTGAAGCGATTCGCAACGGAAAACCAACAACGGTTATCGTTATCGATATAAAAAAGAAATTTAGatatat < 1:1924018/71‑1 (MQ=255)
gTTGAAGCGATTCGCAACGGAAAA‑CAACAACGGTTATCGTTATCGATATAAAAAAGAAATTTAGatatat < 1:961313/70‑1 (MQ=255)
ttGAAGCGATTCGCAACGGAAAACCAACAACGgttatcgtt < 1:2436147/41‑1 (MQ=255)
ttGAAGCGATTCGCAACGGAAAACCAACAACGgttatc < 1:2742607/38‑1 (MQ=255)
|
TACTTTGAGCGTCTGGCCGCACTTGAAAATGAGATGATTATTTTCACTTCTCCCGATTTGAAACCAAGGGTTGAAGCGATTCGCAACGGAAAACCAACAACGGTTATCGTTATCGATATAAAAAAGAAATTTAGATATAT > minE/2547906‑2548045
|
| 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
