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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,628,386 |
T→C |
67.8% |
P220P (CCA→CCG) |
ypfG ← |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,628,386 | 0 | T | C | 67.8%
| 58.0
/ 32.8
| 68 | P220P (CCA→CCG) | ypfG | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (14/8); new base C (28/18); total (42/26) |
| 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 |
TCACAGCTAATCATCATCAGCGCTTTATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGTTTCCATAATCCAGCAAATCGT > minE/1628321‑1628444
|
tCACAGCTAATCATCATCAGCGCTTTATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATg < 1:975939/67‑1 (MQ=255)
tCACAGCTAATCATCATCAGCGCTTTATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATg < 1:966513/67‑1 (MQ=255)
tCACAGCTAATCATCATCAGCGCTTTATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATg < 1:1030199/67‑1 (MQ=255)
tCACAGCTAATCATCATCAGCGCTTTATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATg < 1:399788/67‑1 (MQ=255)
tCACAGCTAATCATCATCAGCGCTTTATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATg < 1:395860/67‑1 (MQ=255)
tCACAGCTAATCATCATCAGCGCTTTATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATg < 1:3158880/67‑1 (MQ=255)
tCACAGCTAATCATCATCAGCGCTTTATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATg < 1:258446/67‑1 (MQ=255)
caGCGCTTTATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATGGATCAAGCGAGCAGCGCAg > 1:985373/1‑69 (MQ=255)
caGCGCTTTATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATGGATCAAGCGAGCAGCGCAg > 1:956431/1‑69 (MQ=255)
caGCGCTTTATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATGGATCAAGCGAGCAGCGCAg > 1:2270898/1‑69 (MQ=255)
agCGCAGTGACATTCACCTCACGACGCAATGGATCAAGCGag < 1:3088599/42‑1 (MQ=255)
gcgcAGTGACATTCACATCACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGTTTc > 1:391050/1‑69 (MQ=255)
gACATTCACCTCATGACGCAATGGATCAAGCGAGCAGCGCAGACCa > 1:2944150/1‑46 (MQ=255)
aCATTCACCTCACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGTTTCCATAATc > 1:2888668/1‑68 (MQ=255)
aTTCACCTCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt < 1:1362702/65‑1 (MQ=255)
aTTCACCTCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt < 1:3137395/65‑1 (MQ=255)
aTTCACCTCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt < 1:3343613/65‑1 (MQ=255)
aTTCACCTCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt < 1:2771362/65‑1 (MQ=255)
aTTCACCTCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt < 1:351279/65‑1 (MQ=255)
aTTCACCTCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt < 1:377655/65‑1 (MQ=255)
aTTCACCTCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt < 1:425384/65‑1 (MQ=255)
aTTCACCTCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt < 1:2215407/65‑1 (MQ=255)
aTTCACCTCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt < 1:486458/65‑1 (MQ=255)
aTTCACCTCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt < 1:2096289/65‑1 (MQ=255)
aTTCACCTCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt < 1:1948788/65‑1 (MQ=255)
aTTCACCTCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt < 1:1442692/65‑1 (MQ=255)
aTTCACCTCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt < 1:782431/65‑1 (MQ=255)
aTTCACCTCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt < 1:819451/65‑1 (MQ=255)
aTTCACCTCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt < 1:1681432/65‑1 (MQ=255)
aTTCACCTCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt < 1:1023689/65‑1 (MQ=255)
ttCACCTCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt < 1:2162789/64‑1 (MQ=255)
tCACCTCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt < 1:2414318/63‑1 (MQ=255)
cACCTCACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGTTTCCATAATCCAGCaa > 1:2244380/1‑69 (MQ=255)
cACCTCACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGTTTCCATAATCCAGCaa > 1:393782/1‑69 (MQ=255)
tCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt > 1:1010909/1‑58 (MQ=255)
tCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt > 1:1358577/1‑58 (MQ=255)
tCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt > 1:3096793/1‑58 (MQ=255)
tCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt > 1:1015971/1‑58 (MQ=255)
tCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt > 1:3377761/1‑58 (MQ=255)
tCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt > 1:81655/1‑58 (MQ=255)
tCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt > 1:1164926/1‑58 (MQ=255)
tCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt > 1:1069727/1‑58 (MQ=255)
tCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt > 1:604797/1‑58 (MQ=255)
tCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt > 1:2312823/1‑58 (MQ=255)
tCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt > 1:1517481/1‑58 (MQ=255)
tCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt > 1:154363/1‑58 (MQ=255)
tCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt > 1:1636845/1‑58 (MQ=255)
tCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt > 1:1727356/1‑58 (MQ=255)
tCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt > 1:1944028/1‑58 (MQ=255)
tCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt > 1:2061405/1‑58 (MQ=255)
tCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt > 1:2179851/1‑58 (MQ=255)
tCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt > 1:226834/1‑58 (MQ=255)
tCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt > 1:1301207/1‑58 (MQ=255)
tCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt > 1:3068855/1‑58 (MQ=255)
tCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt > 1:2527519/1‑58 (MQ=255)
tCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt > 1:1248681/1‑58 (MQ=255)
tCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt > 1:2667735/1‑58 (MQ=255)
tCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt > 1:2807311/1‑58 (MQ=255)
tCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt > 1:2808435/1‑58 (MQ=255)
tCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt > 1:2858975/1‑58 (MQ=255)
tCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGCCAGTTTCCATAAt > 1:304776/1‑58 (MQ=255)
tCACGACGTAACGGATCAAGCGAACAGCGCAGACCATTCATCCGACAGTTTCCATAAt > 1:1171009/1‑58 (MQ=255)
cACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGTTTCCATAATCCAGCAAATCg > 1:2344313/1‑68 (MQ=255)
cACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGTTTCCATAATCCAGCAAATCg > 1:248232/1‑68 (MQ=255)
cACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGTTTCCATAATCCAGCAAATCg > 1:190348/1‑68 (MQ=255)
cACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGTTTCCATAATCCAGCAAATCGt > 1:589045/1‑69 (MQ=255)
cACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGTTTCCATAATCCAGCAAATCGt > 1:3149325/1‑69 (MQ=255)
cACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGTTTCCATAATCCAGCAAATCGt > 1:1023876/1‑69 (MQ=255)
|
TCACAGCTAATCATCATCAGCGCTTTATCATCAGTCAGCGCAGTGACATTCACCTCACGACGCAATGGATCAAGCGAGCAGCGCAGACCATTCATCCGCCAGTTTCCATAATCCAGCAAATCGT > minE/1628321‑1628444
|
| 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
