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 F1 I1 R1
|
750 |
51.0 |
2595496 |
93.6% |
2429384 |
106.4 |
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 | 94.1%
| 49.8
/ ‑2.9
| 17 | coding (259/516 nt) | ogt | O‑6‑alkylguanine‑DNA:cysteine‑protein methyltransferase |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base C (7/9); total (7/10) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.51e-01 |
ATCCGTTTGCCGCACCAACGGCACGCGCCGCGCCAGGACGGCCCAATTGCTCAGCCAGTTGGCCGTAATGCATTACCTGCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCGT‑C‑CCCCCCGTAGCAGTGGGAAGCGTATCAATAATGCTAAGATTACCGGCAAAATATTCACGAAGCTTGTCGCTTAAACCGCCTGGATTGGTGGCAGAAATGCGCTCATAGCCTTCTTTGCGAT > NC_000913/1399849‑1400100
|
aTCCGTTTGCCGCACCAACGGCACGCGCCGCGCCAGGACGGCCCAATTGCTCAGCCAGTTGGCCGTAATGCATTACCTGCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCGT‑c‑cccccccg < 2:959471/139‑3 (MQ=255)
aTCCGTTTGCCGCACCAACGGCACGCGCCGCGCCAGGACGGCCCAATTGCTCAGCCAGTTGGCCGTAATGCATTACCTGCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCGT‑c‑cccccccg < 1:760986/139‑3 (MQ=255)
aTCCGTTTGCCGCACCAACGGCACGCGCCGCGCCAGGACGGCCCAATTGCTCAGCCAGTTGGCCGTAATGCATTACCTGCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCGT‑c‑cccccccg < 2:321279/139‑3 (MQ=255)
aTCCGTTTGCCGCACCAACGGCACGCGCCGCGCCAGGACGGCCCAATTGCTCAGCCAGTTGGCCGTAATGCATTACCTGCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCGT‑CTCCCCCCg < 1:438161/139‑1 (MQ=255)
tttGCCGCACCAACGGCACGCGCCGCGCCAGGACGGCCCAATTGCTCAGCCAGTTGGCCGTAATGCATTACCTGCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCGTCC‑CCCCCCGTAGCa < 1:1035658/139‑1 (MQ=255)
gCACCAACGGCACGCGCCGCGCCAGGACGGCCCAATTGCTCAGCCAGTTGGCCGTAATGCATTACCTGCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCGTCC‑CCCCCCGTAGCAGTGGGa > 1:545147/1‑139 (MQ=255)
aaCGGCACGCGCCGCGCCAGGACGGCCCAATTGCTCAGCCAGTTGGCCGTAATGCATTACCTGCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCGTCC‑CCCCCCGTAGCAGTGGGAAGCGt < 2:545147/139‑1 (MQ=255)
aCGCGCCGCGCCAGGACGGCCCAATTGCTCAGCCAGTTGGCCGGAATGCATTACCTGCCCGCAGGGGATAGTGCGTAGGGTTTTCCAGACTTCGCGCTGAAATGGCGTCC‑CCCCCCGTAGCAGTGGGAAGCGTATCaat < 2:65222/139‑1 (MQ=255)
ttGGCCGTAATGCATTACCTGCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCGTCC‑CCCCCCGTAGCAGTGGGAAGCGTATCAATAATGCTAAGATTACCGGCAAAATATTCACGAAGCtt < 2:990246/139‑1 (MQ=255)
ttGGCCGTAATGCATTACCTGCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCGTCC‑CCCCCCGTAGCAGTGGGAAGCGTATCAATAATGCTAAGATTACCGGCAAAATATTCACGAAGCtt < 1:738315/139‑1 (MQ=255)
tGGCCGTAATGCATTACCTGCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCGTCC‑CCCCCCGTAGCAGTGGGAAGCGTATCaa > 1:1234766/1‑101 (MQ=255)
tGGCCGTAATGCATTACCTGCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCGTCC‑CCCCCCGTAGCAGTGGGAAGCGTATCaa < 2:1234766/101‑1 (MQ=255)
tGGCCGTAATGCATTACCTGCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCGTCC‑CCCCCCGTAGCAGTGGGAAGCGTATCAATAATGCTAAGATTACCGGCAAAATATTCACGAAGCTTg > 1:1166086/1‑139 (MQ=255)
aTGCATTACCTGCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCGTCC‑CCCCCCGTAGCAGTGGGAAGCGTATCAATAATGCTAAGATTACCGGCAAAATATTCACGAAGCTTGTCGCTTaa < 2:1166086/139‑1 (MQ=255)
gCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCGT‑c‑cccccccg < 2:290238/61‑3 (MQ=255)
gCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCGT‑c‑cccccccg > 1:290238/1‑59 (MQ=255)
gCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCGT‑c‑ccccc > 1:772789/1‑58 (MQ=255)
gCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCGT‑c‑ccccc < 2:772789/58‑1 (MQ=255)
ccGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCGTCC‑CCCCCCGTAGCAGTggg < 1:671326/69‑1 (MQ=255)
ccGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCGTCC‑CCCCCCGTAGCAGTggg > 2:671326/1‑69 (MQ=255)
ccGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCGTCC‑CCCCCCGTAGCAGTGGGAAGCGTATCAATAATGCTAAGATTACCGGCAAAATATTCACGAAGCTTGTCGCTTAAACCGCCTGGATtg > 1:66162/1‑139 (MQ=255)
tttCCAGACTTCGCGCTGAAATGGCGTCC‑CCCCCCGTAGCAGTGGGAAGCGTATCaat > 1:857147/1‑58 (MQ=255)
tttCCAGACTTCGCGCTGAAATGGCGTCC‑CCCCCCGTAGCAGTGGGAAGCGTATCaat < 2:857147/58‑1 (MQ=255)
cgcgCTGAAATGGCGTCC‑CCCCCCGTAGCAGTGGGAAGCGTATCAATAATGCTAAGATTACCGGCAAAATATTCACGAAGCTTGTCGCTTAAACCGCCTGGATTGGTGGCAGAAATGCGCTCATAGCCTTCTTTGCGAt > 2:953315/1‑139 (MQ=255)
|
ATCCGTTTGCCGCACCAACGGCACGCGCCGCGCCAGGACGGCCCAATTGCTCAGCCAGTTGGCCGTAATGCATTACCTGCCCGCAGGGGATAGTGCGTAGTGTTTTCCAGACTTCGCGCTGAAATGGCGT‑C‑CCCCCCGTAGCAGTGGGAAGCGTATCAATAATGCTAAGATTACCGGCAAAATATTCACGAAGCTTGTCGCTTAAACCGCCTGGATTGGTGGCAGAAATGCGCTCATAGCCTTCTTTGCGAT > NC_000913/1399849‑1400100
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
