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 |
334,390 |
T→C |
100% |
T336T (ACT→ACC) |
ushA → |
bifunctional UDP‑sugar hydrolase and 5'‑nucleotidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 334,390 | 0 | T | C | 76.4%
| 74.9
/ 17.2
| 59 | T336T (ACT→ACC) | ushA | bifunctional UDP‑sugar hydrolase and 5'‑nucleotidase |
| Reads supporting (aligned to +/- strand): ref base T (13/1); new base C (33/12); total (46/13) |
| Fisher's exact test for biased strand distribution p-value = 1.59e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.09e-01 |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
CCGGTGAACCTGAAGAAGAAAGTGACCTGGGAAGACGGGAAAAGCGAGCGCGTGCTTTACACTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAGGCAAAGCG > minE/334328‑334456
|
ccGGTGAACCTGAAGAAGAAAGTGACCTGGGAAGACGGGAAAAGCGAGCGCGTGCTTTACACTCCTGaa > 1:382013/1‑69 (MQ=255)
ccGGTGAACCTGAAGAAGAAAGTGACCTGGGAAGACGGGAAAAGCGAGCGCGTGCTTTACACTCCTGaa > 1:1398112/1‑69 (MQ=255)
gaaAGTGACCTGGGAAGACGGGAAAAGCGAGCGCGTGCTTTACACTCCTGAAATCGCTGAAAACCAGCa > 1:3043854/1‑69 (MQ=255)
gaaAGTGACCTGGGAAGACGGGAAAAGCGAGCGCGTGCTTTACACTCCTGAAATCGCTGAAAACCAGCa > 1:616795/1‑69 (MQ=255)
cTGTGAAGACGGGAAAAGCGAGCGCGTGCTTTACACTCCTGAAATCGCTGAAAACCAGCAAATGAtctc < 1:227217/69‑1 (MQ=255)
gggAAGACGGGAAAAGCGAGCGCGTGCTTTACACTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGc > 1:2636910/1‑69 (MQ=255)
gggAAGACGGGAAAAGCGAGCGCGTGCTTTACACTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGc > 1:675789/1‑69 (MQ=255)
gggAAGACGGGAAAAGCGAGCGCGTGCTTTACACTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGc > 1:3332461/1‑69 (MQ=255)
gggAAGACGGGAAAAGCGAGCGCGTGCTTTACACTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGc > 1:1426018/1‑69 (MQ=255)
gACGGGAAAAGCGAGCTCGTGCTTTACACTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGtt > 1:3201201/1‑68 (MQ=255)
gACGGGAAAAGCGAGCGCGTGCTTTACACTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGtt > 1:3183437/1‑68 (MQ=255)
gACGGGAAAAGCGAGCGCGTGCTTTACACTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGtt > 1:379376/1‑68 (MQ=255)
gACGGGAAAAGCGAGCGCGTGCTTTACACTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGtt > 1:2915451/1‑68 (MQ=255)
gggAAAAGCGAGCGCGTGCTGTACACCCCTGAAATCGCTGAAAACCAGCTAATGATCTCGCTGTTATCa < 1:118821/69‑1 (MQ=255)
gggAAAAGCGAGCGCGTGCTGTACACCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCa < 1:2468296/69‑1 (MQ=255)
gggAAAAGCGAGCGCGTGCTGTACACCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCa < 1:2494275/69‑1 (MQ=255)
gggAAAAGCGAGCGCGTGCTGTACACCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCa < 1:2260275/69‑1 (MQ=255)
gggAAAAGCGAGCGCGTGCTGTACACCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCa < 1:2190042/69‑1 (MQ=255)
gggAAAAGCGAGCGCGTGCTGTACACCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCa < 1:2193929/69‑1 (MQ=255)
gggAAAAGCGAGCGCGTGCTGTACACCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCa < 1:1027583/69‑1 (MQ=255)
gggAAAAGCGAGCGCGTGCTGTACACCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCa < 1:1096979/69‑1 (MQ=255)
gggAAAAGCGAGCGCGTGCTGTACACCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCa < 1:1125340/69‑1 (MQ=255)
gggAAAAGCGAGCGCGTGCTGTACACCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCa < 1:1814413/69‑1 (MQ=255)
gggAAAAGCGAGCGCGTGCTGTACACCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCa < 1:570269/69‑1 (MQ=255)
ggAAAAGCGAGCGCGTGCTGTACACCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCa < 1:1090171/68‑1 (MQ=255)
tGCTGTACACCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTTTTATCACCGTTCCAGAACaaa > 1:1339463/1‑68 (MQ=255)
tGCTGTACACCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACaaa > 1:611639/1‑68 (MQ=255)
tGCTGTACACCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACaaa > 1:2811550/1‑68 (MQ=255)
tGCTGTACACCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACaaa > 1:2747424/1‑68 (MQ=255)
tGCTGTACACCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACaaa > 1:2189402/1‑68 (MQ=255)
tGCTGTACACCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACaaa > 1:956164/1‑68 (MQ=255)
tGCTGTACACCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACaaa > 1:2635631/1‑68 (MQ=255)
tGCTGTACACCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACaaa > 1:2582019/1‑68 (MQ=255)
tGCTGTACACCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACaaa > 1:2105515/1‑68 (MQ=255)
tGCTGTACACCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACaaa > 1:1409401/1‑68 (MQ=255)
tGCTGTACACCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACaaa > 1:159825/1‑68 (MQ=255)
tGCTGTACACCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACaaa > 1:648150/1‑68 (MQ=255)
tGCTGTACACCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACaaa > 1:230629/1‑68 (MQ=255)
tGCTGTACACCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACaaa > 1:2300405/1‑68 (MQ=255)
tGCTGTACACCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACaaa > 1:3151806/1‑68 (MQ=255)
cacaCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAgg > 1:326007/1‑63 (MQ=255)
cacCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGt > 1:2526150/1‑41 (MQ=255)
cacCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAgg > 1:626155/1‑63 (MQ=255)
cacCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAgg > 1:981354/1‑63 (MQ=255)
cacCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAgg > 1:527672/1‑63 (MQ=255)
cacCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAgg > 1:2629150/1‑63 (MQ=255)
cacCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAgg > 1:2617834/1‑63 (MQ=255)
cacCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAgg > 1:2399065/1‑63 (MQ=255)
cacCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAgg > 1:2202302/1‑63 (MQ=255)
cacCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAgg > 1:2124727/1‑63 (MQ=255)
cacCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAgg > 1:1922773/1‑63 (MQ=255)
cacCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAgg > 1:1817375/1‑63 (MQ=255)
cacCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAgg > 1:1791661/1‑63 (MQ=255)
cacCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAgg > 1:1787769/1‑63 (MQ=255)
cacCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAgg > 1:1640846/1‑63 (MQ=255)
cacCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAgg > 1:1307672/1‑63 (MQ=255)
cacCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAgg > 1:117097/1‑63 (MQ=255)
cacCCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAgg > 1:108861/1‑63 (MQ=255)
cacCCCAGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAgg > 1:441821/1‑63 (MQ=255)
cTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAGGCAAAgcg > 1:2668989/1‑68 (MQ=255)
|
CCGGTGAACCTGAAGAAGAAAGTGACCTGGGAAGACGGGAAAAGCGAGCGCGTGCTTTACACTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAGGCAAAGCG > minE/334328‑334456
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
