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 |
804,017 |
G→A |
51.6% |
R246R (CGG→CGA) |
dhaR → |
predicted DNA‑binding transcriptional regulator, dihydroxyacetone |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 804,017 | 0 | G | A | 51.6%
| ‑3.7
/ 53.2
| 60 | R246R (CGG→CGA) | dhaR | predicted DNA‑binding transcriptional regulator, dihydroxyacetone |
| Reads supporting (aligned to +/- strand): ref base G (14/15); new base A (17/14); total (31/29) |
| Fisher's exact test for biased strand distribution p-value = 7.96e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.69e-01 |
TTGCAATTTATTAATGCCCAGGCGGCGCGGGTCTTGCGCCTTGACGCGACGGCAAGTCAGGGACGGGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGCAACAAGCAATAAAACAGGCACATCCG > minE/803952‑804080
|
ttGCAATTTATTAATGCCCAGGCGGCGCGGGTCTTGCGCCTTGACGCGACGGCAAGTCAGTGACGGGCa > 1:2919863/1‑69 (MQ=255)
ttGCAATTTATTAATGCCCAGGCGGCGCGGGTCTTGCGCCTTGACGCGACGGCAAGTCAGTGACGGGCa > 1:2923751/1‑69 (MQ=255)
ttGCAATTTATTAATGCCCAGGCGGCGCGGGTCTTGCGCCTTGACGCGACGGCAAGTCAGGGACGGGCa > 1:237378/1‑69 (MQ=255)
ttGCAATTTATTAATGCCCAGGCGGCGCGGGTCTTGCGCCTTGACGCGACGGCAAGTCAGGGACGGGCa > 1:3408486/1‑69 (MQ=255)
ttattaATGCCCAGGCGGCGCGGGTCTTGCGCCTTGACGCGACGGCAAGTCAGGGACGGGCAATCa < 1:232387/66‑1 (MQ=255)
gCCCAGGCGGCGCGGGTCTTGCGCCTTGACGCGACGGCAAGTCAGGGACGGGCAATCACTGAACTCtt < 1:77267/68‑1 (MQ=255)
gCCCAGGCGGCGCGGGTCTTGCGCCTTGACGCGACGGCAAGTCAGGGACGGGCAATCACTGAACTCtt < 1:541111/68‑1 (MQ=255)
gCCCAGGCGGCGCGGGTCTTGCGCCTTGACGCGACGGCAAGTCAGGGACGGGCAATCACTGAACTCtt < 1:45875/68‑1 (MQ=255)
gCCCAGGCGGCGCGGGTCTTGCGCCTTGACGCGACGGCAAGTCAGGGACGGGCAATCACTGAACTCtt < 1:276127/68‑1 (MQ=255)
gCCCAGGCGGCGCGGGTCTTGCGCCTTGACGCGACGGCAAGTCAGGGACGGGCAATCACTGAACTCtt < 1:1625923/68‑1 (MQ=255)
ggcgCGGGACTTGCGCCTTGACGCGACGGCAAGTCAGGGACGGGCAATCa < 1:681833/50‑1 (MQ=255)
gcgGGTCTTGCGCCTTGACGCGACGGCAAGTCAGGGACGGGCAATCACTGAACTCTTAACGTTACccgc > 1:244846/1‑69 (MQ=255)
cTTGCGCCTTGACGCGACGGCAAGTCAGGGACGGGCAATCACTGAACTCTTAACGTTACCCGCCGTAtt < 1:2497559/69‑1 (MQ=255)
ttGCGCCTTGACGCGACGGCAAGTCAGGGACGGGCAATCACTGAACTCTTAACGTTACCCGCCGTAtt < 1:1135275/68‑1 (MQ=255)
gcgcCTTGACGCGACGGCAAGTCAGGGACGAGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGc < 1:3427097/68‑1 (MQ=255)
gcgcCTTGACGCGACGGCAAGTCAGGGACGAGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGc < 1:1334529/68‑1 (MQ=255)
gcgttGACGCGACGGCAAGTCAGGGTCGAGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGc < 1:1752054/63‑1 (MQ=255)
gcCTTGACGCGACGGCAAGTCATGGACGAGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGc < 1:2307987/66‑1 (MQ=255)
gcCTTGACGCGACGGCAAGTCAGGGACGAGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGc < 1:301860/66‑1 (MQ=255)
gcCTTGACGCGACGGCAAGTCAGGGACGAGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGc < 1:1655969/66‑1 (MQ=255)
gcCTTGACGCGACGGCAAGTCAGGGACGAGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGc < 1:1685450/66‑1 (MQ=255)
gcCTTGACGCGACGGCAAGTCAGGGACGAGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGc < 1:269073/66‑1 (MQ=255)
gcCTTGACGCGACGGCAAGTCAGGGACGAGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGc < 1:2677717/66‑1 (MQ=255)
gcCTTGACGCGACGGCAAGTCAGGGACGAGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGc < 1:3427311/66‑1 (MQ=255)
gcCTTGACGCGACGGCAAGTCAGGGACGAGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGc < 1:1222761/66‑1 (MQ=255)
ccTTGACGCGACGGCAAGTCAGGGACGAGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGc < 1:1918640/65‑1 (MQ=255)
ccTTGACGCGACGGCAAGTCAGGGACGAGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGc < 1:2222546/65‑1 (MQ=255)
aCGCGACGGCAAGTCAGGGACGGGCAATCACTGAACTCTTAACGTTACCCGCCGTAtt < 1:105841/58‑1 (MQ=255)
cAAGTCAGGGACGGGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGCAACAAGCAATAAAACAgg < 1:1271817/69‑1 (MQ=255)
aaGTCAGGGACGAGCAATCACTGAACTCTTAACGTTACCCGCCGTa > 1:479988/1‑46 (MQ=255)
aaGTCAGGGACGAGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGCAACAAGCa > 1:1842801/1‑58 (MQ=255)
aaGTCAGGGACGAGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGCAACAAGCAATAAAACAgt > 1:589786/1‑67 (MQ=255)
aaGTCAGGGACGAGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGCAACAAGCAATAAAACAgt > 1:605446/1‑67 (MQ=255)
aaGTCAGGGACGAGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGCAACAAGCAATAAAACAgt > 1:413355/1‑67 (MQ=255)
aaGTCAGGGACGAGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGCAACAAGCAATAAAACAgt > 1:1330681/1‑67 (MQ=255)
aaGTCAGGGACGAGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGCAACAAGCAATAAAACAgt > 1:319176/1‑67 (MQ=255)
aaGTCAGGGACGAGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGCAACAAGCAATAAAACAgt > 1:684003/1‑67 (MQ=255)
aaGTCAGGGACGAGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGCAACAAGCAATAAAACAgt > 1:3160736/1‑67 (MQ=255)
aaGTCAGGGACGAGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGCAACAAGCAATAAAACAgt > 1:3102226/1‑67 (MQ=255)
aaGTCAGGGACGAGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGCAACAAGCAATAAAACAgt > 1:725514/1‑67 (MQ=255)
aaGTCAGGGACGAGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGCAACAAGCAATAAAACAgt > 1:1384008/1‑67 (MQ=255)
aaGTCAGGGACGAGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGCAACAAGCAATAAAACAgt > 1:1419155/1‑67 (MQ=255)
aaGTCAGGGACGAGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGCAACAAGCAATAAAACAgt > 1:2707744/1‑67 (MQ=255)
aaGTCAGGGACGAGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGCAACAAGCAATAAAACAgt > 1:3047804/1‑67 (MQ=255)
aaGTCAGGGACGAGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGCAACAAGCAATAAAACAgt > 1:2876965/1‑67 (MQ=255)
aaGTCAGGGACGAGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGCAACAAGCAATAAAACAgt > 1:1775074/1‑67 (MQ=255)
cAGGGACGGGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGCAACAAGCAATAAAACAGGcaca > 1:3086086/1‑68 (MQ=255)
cAGGGACGGGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGCAACAAGCAATAAAACAGGcaca > 1:312842/1‑68 (MQ=255)
cAGGGACGGGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGCAACAAGCAATAAAACAGGcaca > 1:335680/1‑68 (MQ=255)
cAGGGACGGGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGCAACAAGCAATAAAACAGGCACAt > 1:1371617/1‑69 (MQ=255)
cAGGGACGGGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGCAACAAGCAATAAAACAGGCACAt > 1:4993/1‑69 (MQ=255)
cAGGGACGGGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGCAACAAGCAATAAAACAGGCACAt > 1:2757087/1‑69 (MQ=255)
cAGGGACGGGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGCAACAAGCAATAAAACAGGCACAt > 1:2796872/1‑69 (MQ=255)
cAGGGACGGGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGCAACAAGCAATAAAACAGGCACAt > 1:1201772/1‑69 (MQ=255)
cAGGGACGGGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGCAACAAGCAATAAAACAGGCACAt > 1:2217507/1‑69 (MQ=255)
aGGGACGGGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGCAACAAGCAATAAAACAGGCACATc < 1:1025030/69‑1 (MQ=255)
aGGGACGGGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGCAACAAGCAATAAAACAGGCACATc < 1:1259902/69‑1 (MQ=255)
ggACGGGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGCAAGAAGCAATAAAACAGGCACATCCg < 1:1359683/69‑1 (MQ=255)
ggACGGGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGCAACAAGCAATAAAACAGGCACATCCg < 1:1774821/69‑1 (MQ=255)
gACGAGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGc < 1:3172390/42‑1 (MQ=255)
ggCAATCACTGAACTCTTAACGTTACCCGCCGTAtt < 1:3039700/36‑1 (MQ=255)
|
TTGCAATTTATTAATGCCCAGGCGGCGCGGGTCTTGCGCCTTGACGCGACGGCAAGTCAGGGACGGGCAATCACTGAACTCTTAACGTTACCCGCCGTATTGCAACAAGCAATAAAACAGGCACATCCG > minE/803952‑804080
|
| 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
