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 |
1,327,163 |
T→C |
20.0% |
intergenic (‑153/+123) |
wcaK ← / ← wzxC |
predicted pyruvyl transferase/colanic acid exporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,327,163 | 0 | T | C | 20.0%
| 69.2
/ 10.3
| 30 | intergenic (‑153/+123) | wcaK/wzxC | predicted pyruvyl transferase/colanic acid exporter |
| Reads supporting (aligned to +/- strand): ref base T (13/11); new base C (3/3); total (16/14) |
| 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 |
TCAGGCCTACAAGACCCGAGCACAGAACCGTAGGACGGATAAGGCGTTCACGCCGCATCCGGCATTCAGTGCCTGATGCGACGCTGACGCGTCTTATCAGGCCTACAGGTCCCGAGCACAGAACCGTAGGACGGA > minE/1327098‑1327232
|
tCAGGCCTACAAGACCCGAGCACAGAACCGTAGGACGGATAAGGCGTTCACGCCGCATCCGGCATTCAGTg > 1:3359663/1‑71 (MQ=255)
gCCTACAAGACCCGAGCACAGAACCGTAGGACGGATAAGGCGTTCACGCCGCATCCGGCATTCAGTGCCTg < 1:2173838/71‑1 (MQ=255)
ccTACAAGACCCGAGCACAGAACCGTAGGACGGATAAGGCGTTCACGCCGCATCCGGCATTCAGTGCCTGa < 1:2513445/71‑1 (MQ=255)
tACAAGACCCGAGCACAGAACCGTAGGACGGATAAGGCGTTCACGCCGCATCCGGCATTCAGTGCCTGATg > 1:2605930/1‑71 (MQ=255)
cAAGACCCGAGCACAGAACCGTAGGACGGATAAGGCGTTCACGCCGCATCCGGCATTCAGTGCCTGATGCg < 1:258520/71‑1 (MQ=255)
aaGACCCGAGCACAGAACCGTAGGACGGATAAGGCGTTCACGCCGCATCCGGCATTCAGTGCCTGATGCGa > 1:2317013/1‑71 (MQ=255)
aGACCCGAGCACAGAACCGTAGGACGGATAAGGCGTTCACGCCGCATCCGGCATTCAGTGc > 1:768160/1‑61 (MQ=255)
aGAACCGTAGGACGGATAAGGCGTTCACGCAGCATCCGGCATTCAGTGCCTGATGCGa > 1:2046003/1‑58 (MQ=255)
ccccGTAGGACGGATAAGGCGTTTACGCTGCATCCGGCAACCTATGCCTGATGCGACGCTGAAGCGTCTTa > 1:3443401/3‑71 (MQ=11)
aaCCGTAGGACGGATAAGGCGTTCACGCCGCATCCGGCATTCAGTGCCTGATGCGACGCTGACGCGTCTTa > 1:2399944/1‑71 (MQ=255)
cccGTAGGACGGATAAGGCGTTTACGCTGCATCCGGCAACCTATGCCTGATGCGACGCTGAAGCGTCTTAt < 1:581783/70‑1 (MQ=11)
ccGTAGGACGGATAAGGCGTTCACGCCGCATCCGGCATTCAGTGCCTGATGCGACGCTGACGCGTCTTATc < 1:1761952/71‑1 (MQ=255)
gTAGGACGGATAAGGCGTTCACGCCGCATCCGGCATTCAGTGCCTGa < 1:3559753/47‑1 (MQ=255)
gTAGGACGGATAAGGCGTTCACGCCGCATCCGGCATTCAGTGCCTGATGCGACGCTGACGCGTCTTATCAg < 1:64397/71‑1 (MQ=255)
tAGGACGGATAAGGCGTTCACGCCGCATCCGGCATTCAGTGCCTGATGCGACGCTGACGCGTCTTATCAgg > 1:320066/1‑71 (MQ=255)
caGGACGGATAAGGCTTTCACGCCTTATCCGACAACAACTGCCTGATGCGACGCTGACGCGTc < 1:392608/62‑1 (MQ=9)
caGGACGGATAAGGCTTTCACGCCTTATCCGACAACAACTGCCTGATGCGACGCTGACGCGTCTTATCAgg > 1:1780504/2‑71 (MQ=14)
ggACGGATAAGGCGTTCACGCCGCATCCGGCATTCAGTGCCTGATGCGACGCTGACGCGTCTTATCAGGcc < 1:3437885/71‑1 (MQ=255)
gACGGATAAGGCTTTCACGCCTTATCCGACAACAACTGCCTGATGCGACGCTGACGCGTCTTATCAGGcc > 1:3628021/1‑70 (MQ=11)
aCGGATAAGGCTTTCACGCCTTATCCGACAACAACTTCCTGATGCGACGCTGACGCGTCTTATCAGGCCTa < 1:3546791/71‑1 (MQ=2)
aCGGATAAGGCGTTCACGCCGCATCCGGCATTCAGTGCCTGATGCGACGCTGACGCGTCTTATCAGGCCTa < 1:1623898/71‑1 (MQ=255)
aCGGATAAGGCGTTCACGCCGCATCCGGCATTCAGTGCCTGATGCGACGCTGACGCGTCTTATCAGGCCTa < 1:809116/71‑1 (MQ=255)
aTAAGGCGTTCACGCCGCATCCGGCATTCAGTGCCTGATGCGACGCTGACGCGTCTTATCAGGCCTACAg > 1:3711482/1‑70 (MQ=255)
aaGGCGTTCACGCCGCATCCGGCATTCAGTGCCTGATGCGACGCTGACGCGTCTTATCAGGCCTACAGGTc > 1:574995/1‑71 (MQ=255)
ggCGTTCACGCCGCATCCGGCATTCAGTGCCTGATGCGACGCTGACGCGTCTTATCAGGCCTACAGGTccc < 1:1327311/71‑1 (MQ=255)
gTTCACGCCGCATCCGGCATTCAGTGCCTGATGCGACGCTGACGCGTCTTATCAGGCCTACAGGTCCCGAg > 1:139580/1‑71 (MQ=255)
cgcATCCGGCATTCAGTGCCTGATGCGACGCTGACGCGTCTTATCAGGCCTACAGGTCCCGAGCACAGAAc > 1:3232511/1‑71 (MQ=255)
gcATCCGGCATTCAGTGCCTGATGCGACGCTGACGCGTCTTATCAGGCCTAc < 1:911362/52‑1 (MQ=255)
cATTCAGTGCCTGATGCGACGCTGACGCGTCTTATCAGGCCTACAGGTCCCGAGCACAGAAc > 1:1568165/1‑62 (MQ=255)
cATTCAGTGCCTGATGCGACGCTGACGCGTCTTATCAGGCCTACAGGTCCCGAGCACAGAACCGTAGGACg > 1:2270982/1‑71 (MQ=255)
ttCAGTGCCTGATGCGACGCTGACGCGTCTTATCAGGCCTACAGGTCCCGAGCACAGAACCGTAGGACGGa > 1:3777527/1‑71 (MQ=255)
|
TCAGGCCTACAAGACCCGAGCACAGAACCGTAGGACGGATAAGGCGTTCACGCCGCATCCGGCATTCAGTGCCTGATGCGACGCTGACGCGTCTTATCAGGCCTACAGGTCCCGAGCACAGAACCGTAGGACGGA > minE/1327098‑1327232
|
| 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
