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 |
|
A4 F1 I1 R1
|
765 |
39.6 |
1867486 |
94.4% |
1762906 |
108.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,399,985 |
(C)7→8 |
coding (252/516 nt) |
ogt ← |
O‑6‑alkylguanine‑DNA:cysteine‑protein methyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,399,978 | 1 | . | C | 90.9%
| 68.5
/ 0.4
| 22 | coding (259/516 nt) | ogt | O‑6‑alkylguanine‑DNA:cysteine‑protein methyltransferase |
| Reads supporting (aligned to +/- strand): ref base . (1/1); new base C (9/11); total (10/12) |
| 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 |
ATTCGATCCGTTTGCCGCACCAACGGCACGCGCCGCGCCAGGACGGCCCAATTGCTCAGCCAGTTGGCCGTAATGCATTACCTGCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCG‑T‑CCCCCCCGTAGCAGTGGGAAGCGTATCAATAATGCTAAGATTACCGGCAAAATATTCACGAAGCTTGTCGCTTAAACCGCCTGGATTGGTGGCAGAAATGCGCTCATAGCCTTCTTTGCGATAATGGATGTCC > NC_000913/1399844‑1400111
|
aTTCGATCCGTTTGCCGCACCAACGGCACGCGCCGCGCCAGGACGGCCCAATTGCTCAGCCAGTTGGCCGTAATGCATTACCTGCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCG‑T‑cccc < 2:211886/139‑1 (MQ=255)
aTCCGTTTGCCGCACCAACGGCACGCGCCGCGCCAGGACGGCCCAATTGCTCAGCCAGTTGGCCGTAATGCATTACCTGCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCG‑T‑ccccccccg < 2:413722/139‑3 (MQ=255)
aTCCGTTTGCCGCACCAACGGCACGCGCCGCGCCAGGACGGCCCAATTGCTCAGCCAGTTGGCCGTAATGCATTACCTGCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCG‑T‑ccccccccg < 2:192180/139‑3 (MQ=255)
aTCCGTTTGCCGCACCAACGGCACGCGCCGCGCCAGGACGGCCCAATTGCTCAGCCAGTTGGCCGTAATGCATTACCTGCCCGCAGGGGATAGTACGTAGTATTTTCCAGACTTCGCGCTGAAATGGCG‑T‑ccccccccg > 2:396955/1‑137 (MQ=255)
cGTTTGCCGCACCAACGGCACGCGCCGCGCCAGGACGGCCCAATTGCTCAGCCAGTTGGCCGTAATGCATTACCTGCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCG‑T‑ccccccccgtag < 1:419204/139‑6 (MQ=255)
gTTTGCCGCACCAACGACACGCGCCGCGCCAGGACGGCCCAATTGCTCAGCCAGTTGGCCGTAATGCATTACCTGCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCG‑TCCCCCCCCGTAGc < 1:702387/139‑1 (MQ=255)
aCGGCACGCGCCGCGCCAGGACGGCCCAATTGCTCAGCCAGTTGGCCGTAATGCATTACCTGCCCGCAGGGGATAGTGCGTAGTGGTTTCCAGACTTCGCGCTGAAATGGCG‑TCCCCCCCCGTAGCAGTGGGAAGCGTa > 1:627194/1‑139 (MQ=255)
gcgccgcgccAGGACGGCCCAATTGCTCAGCCAGTTGGCCGTAATGCATTACCTGCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCG‑TCCCCCCCCGTAGCAGTGGGAAGCGTATCaataa > 1:262675/1‑139 (MQ=255)
cgccgcgccAGGACGGCCCAATTGCTCAGCCAGTTGGCCGTAATGCATTACCTGCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCG‑TCCCCCCCCGTAGCAGTGGGAAGCGTATCaataat < 2:427106/139‑1 (MQ=255)
gccgcgccAGGACGGCCCAATTGCTCAGCCAGTTGGCCGTAATGCATTACCTGCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCG‑TCCCCCCCCGTAGCAGTGGGAAGCGTATCAATAATg > 1:443363/1‑139 (MQ=255)
ccAATTGCTCAGCCAGTTGGCCGTAATGCATTACCTGCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCG‑TCCCCCCCCGTAGCAGTGGGAAGCGTATCAATAATGCTAAGATTACCGGCaa < 2:443363/139‑1 (MQ=255)
ttGGCCGTAATGCATTACCTGCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCG‑TCCCCCCCCGTAGCAGTGGGAAGCGTATCAATAATGCTAAGATTACCGGCAAAATATTCACGAAGCtt < 1:599452/139‑1 (MQ=255)
ttGGCCGTAATGCATTACCTGCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCG‑TCCCCCCCCGTAGCAGTGGGAAGCGTATCAATAATGCTAAGATTACCGGCAAAATATTCACGAAGCtt < 2:262675/139‑1 (MQ=255)
aaTGCATTACCTGCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCG‑TCCCCCCCCGTAGCAGTGGGAAGCGTATCAATAATGCTAAGATTACCGGCAAAATATTCACGAAGCTTGTCGCTTa > 1:312579/1‑139 (MQ=255)
ttACCTGCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCG‑TCCCCCCCCGTAGCAGTGGGAAGCGTATCAATAATGCTAAGATTACCGGCAAAATATTCACGAAGCTTGTCGCTTAAACCGc < 2:811195/139‑1 (MQ=255)
tGCCCGCAGGGGATAGTGCGTAGTGTTTTCTAGACTTCGCGCTGAAATGGCGAC‑CCCCCCCGTAGCAGTGGGAAGCGTATCAATAATGCTAAGATTACCGGCAAAACATTCACGAAGCTTGTCGCTTAAACCGCCTGGa < 2:739910/139‑1 (MQ=255)
gCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCG‑TCCCCCCCCGTAGCAGTGGGa > 2:360754/1‑72 (MQ=255)
gCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCG‑TCCCCCCCCGTAGCAGTGGGa < 1:360754/72‑1 (MQ=255)
ccGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCG‑TCCCCCCCCGTAGCAGTGGGAAGCGTATCaata > 1:687880/1‑82 (MQ=255)
ccGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCG‑TCCCCCCCCGTAGCAGTGGGAAGCGTATCaata < 2:687880/82‑1 (MQ=255)
cAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCG‑T‑ccccccc < 2:767458/54‑1 (MQ=255)
cAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCG‑T‑ccccccc > 1:767458/1‑54 (MQ=255)
aTAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCG‑TCCCCCCCCGTAGCAGTGGGAAGCGTATCAATAATGCTAAGATTACCGGCAAAATATTCACGAAGCTTGTCGCTTAAACCGCCTGGATTGGTGGCAGaa > 2:200324/1‑139 (MQ=255)
tGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCG‑T‑ccccccccg < 2:735812/46‑3 (MQ=255)
tGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCG‑T‑ccccccccg > 1:735812/1‑44 (MQ=255)
gCGTAGTGTTTTCCAGACTTCGCGCTGAAATAGCGAC‑CCCCCCCGTAGAAGTGGGAAGCGTTTCAATAATGCTACGATTACCGGCAAAATATTCACGAAGCTTGACTCTTAAACTGACTGGATTGGTGGCAGTAATgcg > 2:24204/1‑139 (MQ=255)
aGTGTTTTCCAGACTTCGCGCTGAAATGGCG‑TCCCCCCCCGTAGCAGTGGGAAGCGTATCAATAATGCTAAGATTACCGGCAAAATATTCACGAAGCTTGTCGCTTaa < 1:930108/108‑1 (MQ=255)
aGTGTTTTCCAGACTTCGCGCTGAAATGGCG‑TCCCCCCCCGTAGCAGTGGGAAGCGTATCAATAATGCTAAGATTACCGGCAAAATATTCACGAAGCTTGTCGCTTaa > 2:930108/1‑108 (MQ=255)
aGACTTCGCGCTGAAATGGCG‑TCCCCCCCCGTAGCAGTGGGAAGCGTATCAATAATGCTAAGATTACCGGCAAAATATTCACGAAGCTTGTCGCTTAAACCGCCTGGATTGGTGGCAGAAATGCGCTCATAGCcttctt > 2:67813/1‑139 (MQ=255)
ttCGCGCTGAAATGGCG‑TCCCCCCCCGTAGCAGTGGGAAGCGTATCAATAATGCTAAGATTACCGGCAAAATATTCACGAAGCTTGTCGCTTAAACCGCCTGGATTGGTGGCAGAAATGCGCTCATAGCCTTCTTTGCg < 1:200324/139‑1 (MQ=255)
ggCG‑TCCCCCCCCGTAGCAGTGGGAAGCGTATCAATAATGCTAAGATTACCGGCAAAATATTCACGAAGCTTGTCGCTTAAACCGCCTGGATTGGTGGCAGAAATGCGCTCATAGCCTTCTTTGCGATAATGGATGTcc < 1:67813/139‑1 (MQ=255)
|
ATTCGATCCGTTTGCCGCACCAACGGCACGCGCCGCGCCAGGACGGCCCAATTGCTCAGCCAGTTGGCCGTAATGCATTACCTGCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCG‑T‑CCCCCCCGTAGCAGTGGGAAGCGTATCAATAATGCTAAGATTACCGGCAAAATATTCACGAAGCTTGTCGCTTAAACCGCCTGGATTGGTGGCAGAAATGCGCTCATAGCCTTCTTTGCGATAATGGATGTCC > NC_000913/1399844‑1400111
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
