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 I1 R1
|
748 |
32.0 |
1685426 |
92.6% |
1560704 |
103.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,824,478 |
(C)6→7 |
intergenic (‑132/+13) |
pncC ← / ← mltB |
nicotinamide‑nucleotide amidohydrolase, NMN amidohydrolase/membrane‑bound lytic murein transglycosylase B |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,824,472 | 1 | . | C | 93.3%
| 44.7
/ ‑2.7
| 15 | intergenic (‑126/+19) | pncC/mltB | nicotinamide‑nucleotide amidohydrolase, NMN amidohydrolase/membrane‑bound lytic murein transglycosylase B |
| Reads supporting (aligned to +/- strand): ref base . (1/0); new base C (6/8); total (7/8) |
| Fisher's exact test for biased strand distribution p-value = 4.67e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.18e-01 |
CTGTCAGTCATCACAACCTCTGTCAGTCAAAAATTTATGCCGGACAAGATAGCACTTTCGTCAGGAAGATGGTGTTGGCGTTGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACG‑C‑CCCCCTCTTGTAAATAGCTACTGTACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGTAATGGGTGCTGTGGTTGTAACGGGTGATGGTGTAGAAGTTCGGCAGACCGTAC > NC_000913/2824336‑2824599
|
cTGTCAGTCATCACAACCTCTGTCAGTCAAAAATTTATGCCGGACAAGATAGCACTTTCGTCAGGAAGATGGTGTTGGCGTTGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACG‑c‑c > 2:474748/1‑139 (MQ=255)
cagtcaTCACAACCTCTGTCAGTCAAAAATTTATGCCGGACAAGATAGCACTTTCGTCAGGAAGATGGTGTTGGCGTTGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACG‑c‑ccccc < 1:229169/139‑1 (MQ=255)
gtcaTCACAACCTCTGTCAGTCAAAAATTTATGCCGGACAAGATAGCACTTTCGTCAGGAAGATGGTGTTGGCGTTGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACG‑c‑cccccct < 1:474748/139‑3 (MQ=255)
cacaACCTCTGTCAGTCAAAAATTTATGCCGGACAAGATAGCACTTTCGTCAGGAAGATGGTGTTGGCGTTGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCC‑CCCCCTCTTGt > 2:205645/1‑139 (MQ=255)
acaACCTCTGTCAGTCAAAAATTTATGCCGGACAAGATAGCACTTTCGTCAGGAAGATGGTGTTGGCGTTGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCC‑CCCCCTCTTGTa < 1:277743/139‑1 (MQ=255)
ctctGTCAGTCAAAAATTTATGCCGGACAAGATAGCACTTTCGTCAGGAAGATGGTGTTGGCGTTGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCC‑CCCCCTCTTGTAAATAg > 2:615917/1‑139 (MQ=255)
ctctGTCAGTCAAAAATTTATGCCGGACAAGATAGCACTTTCGTCAGGAAGATGGTGTTGGCGTTGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACG‑c‑ccccc > 1:427726/1‑126 (MQ=255)
ctctGTCAGTCAAAAATTTATGCCGGACAAGATAGCACTTTCGTCAGGAAGATGGTGTTGGCGTTGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACG‑c‑ccccc > 1:447636/1‑126 (MQ=255)
ctctGTCAGTCAAAAATTTATGCCGGACAAGATAGCACTTTCGTCAGGAAGATGGTGTTGGCGTTGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACG‑c‑ccccc < 2:447636/126‑1 (MQ=255)
ctctGTCAGTCAAAAATTTATGCCGGACAAGATAGCACTTTCGTCAGGAAGATGGTGTTGGCGTTGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACG‑c‑ccccc < 2:427726/126‑1 (MQ=255)
tCGTCAGGAAGCTGGTGCTGGCCTTGCAATTTTACGAGGAGGATTCAGAAACAAGCTGATTAGCCAGAGGGAAGCTCACG‑CTCCCCCCCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGcc > 2:419058/1‑139 (MQ=255)
ggAAGATGGTGTTGGCGTTGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCC‑CCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCg < 1:742800/139‑1 (MQ=255)
tgtTGGCGTTGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCC‑CCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGt > 2:653082/1‑139 (MQ=255)
ttGGCGTTGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACG‑c‑ccc > 2:718213/1‑67 (MQ=255)
ttGGCGTTGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACG‑c‑ccc < 1:718213/67‑1 (MQ=255)
gCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCC‑CCCCCTCTTGTAAATAGTTACT‑TACTCgcgccagcgcc > 2:142769/1‑95 (MQ=255)
gCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCC‑CCCCCTCTTGTAAATAGTTACT‑TACTCgcgccagcgcc < 1:142769/95‑1 (MQ=255)
aTTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCC‑CCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGTAATGGGTGCtgtg < 1:713897/139‑1 (MQ=255)
aTTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCC‑CCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGTAATGGGTGCTGTGGTTGTAACGGGTGa < 1:414363/139‑1 (MQ=255)
ccAGAGGGAAGCTCACGCC‑CCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGTAATGGGTGCTGTGGTTGTAACGGGTGATGGTGTAGAAGTTCGGCAGAc > 1:815787/1‑139 (MQ=255)
ccAGAGGGAAGCTCACGCC‑CCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGTAATGGGTGCTGTGGTTGTAACGGGTGATGGTGTAGAAGTTCGGCAGAc < 1:653082/139‑1 (MQ=255)
gggAAGCTCACGCC‑CCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCGAACTGCCAGACCGCCATTGCGTAATGGGTGCTGTGGTTGTAACGGGTGATGGTGTAGAAGTTCGGCAGACCGTAc < 1:615917/139‑1 (MQ=255)
aGCTCACGCC‑CCCCCTCTTGTAAATAGTTACT‑TACTCgcgc > 2:157305/1‑41 (MQ=255)
aGCTCACGCC‑CCCCCTCTTGTAAATAGTTACT‑TACTCgcgc < 1:157305/41‑1 (MQ=255)
|
CTGTCAGTCATCACAACCTCTGTCAGTCAAAAATTTATGCCGGACAAGATAGCACTTTCGTCAGGAAGATGGTGTTGGCGTTGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACG‑C‑CCCCCTCTTGTAAATAGCTACTGTACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGTAATGGGTGCTGTGGTTGTAACGGGTGATGGTGTAGAAGTTCGGCAGACCGTAC > NC_000913/2824336‑2824599
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
