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 |
|
A12 F1 I1 R1
|
65 |
25.3 |
1027584 |
98.0% |
1007032 |
120.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,818,550 |
(C)7→8 |
intergenic (‑50/+55) |
chbF ← / ← chbR |
phospho‑chitobiase, general 6‑phospho‑beta‑glucosidase activity/repressor of chb operon for N,N'‑diacetylchitobiose utilization |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,818,543 | 1 | . | C | 92.9%
| 44.7
/ ‑2.3
| 14 | intergenic (‑43/+62) | chbF/chbR | phospho‑chitobiase, general 6‑phospho‑beta‑glucosidase activity/repressor of chb operon for N,N'‑diacetylchitobiose utilization |
| Reads supporting (aligned to +/- strand): ref base . (1/0); new base C (8/5); total (9/5) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.84e-01 |
TCGTGATAACGCTTAATAAATCCTTCCAGTAACTCCGGGGTATAGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTG‑CCCC‑CCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGTCAATTTCTTACGATAGCTCTTAGGCGTAAAGGACGTTAATTTCTTAAACGT > NC_000913/1818412‑1818673
|
tCGTGATAACGCTTAATAAATCCTTCCAGTAACTCCGGGTTATATCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTACAGTACAGAATACTGATATCTGGCATATCTG‑cccc‑ccc < 1:473386/139‑1 (MQ=255)
cTTAATAAATCCTTCCAGTAACTCCGGGGTATAGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCC‑CCCGGACataaat < 2:510865/139‑1 (MQ=255)
tCCAGTAACTCCGGGGTATAGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCC‑CCCGGACATAAATAATCCAGCAACAg > 1:420169/1‑139 (MQ=255)
aGTAACTCCGGGGTATAGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCC‑CCCGGACATAAATAATCCAGCAACAGGAc < 1:75038/139‑1 (MQ=255)
ggTATAGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCC‑CCCGGACATAAATAATCCAGCAACAGGACAGATATGTGaa < 1:84174/139‑1 (MQ=255)
acTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCC‑CCCGGACATAAATAATCCAGCAACAGGACAGATAtgt > 1:144644/1‑105 (MQ=255)
acTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCC‑CCCGGACATAAATAATCCAGCAACAGGACAGATAtgt < 2:144644/105‑1 (MQ=255)
aaTACTGATATCTGGCATATCTGCCCCC‑CCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGTCAATTTCTTACGATAGCTCTTAGGCGTAAAGGACGt > 2:203619/1‑139 (MQ=255)
tGATATCTGGCATATCTGCCCCC‑CCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGTCAATTTCTTACGATAGCTCTTAGGCGTAAAGGACGTTAAtt > 1:165092/1‑139 (MQ=255)
tGATATCTGGCATATCTGCCCCC‑CCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGTCAATTTCTTACGATAGCTCTTAGGCGTAAAGGACGTTAAtt > 2:482211/1‑139 (MQ=255)
tCTGGCATATCTG‑CCCCGCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGTCAATTTCTTACGATAGCTCTTAGGCGTAAAGGACGTTAATTTCTTa > 2:321143/1‑139 (MQ=255)
tGGCATATCTGCCCCC‑CCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGTCAATTTCTTACGATAGctct < 1:112706/111‑1 (MQ=255)
tGGCATATCTGCCCCC‑CCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGTCAATTTCTTACGATAGctct > 2:112706/1‑111 (MQ=255)
tGGCATATCTGCCCCC‑CCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGTCAATTTCTTACGATAGCTCTTAGGCGTAAAGGACGTTAATTTCTTaaa > 1:64437/1‑139 (MQ=255)
cATATCTGCCCCC‑CCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGTCAATTTCTTACGATAGCTCTTAGGCGTAAAGGACGTTAATTTCTTAAACGt > 1:312596/1‑139 (MQ=255)
|
TCGTGATAACGCTTAATAAATCCTTCCAGTAACTCCGGGGTATAGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTG‑CCCC‑CCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGTCAATTTCTTACGATAGCTCTTAGGCGTAAAGGACGTTAATTTCTTAAACGT > NC_000913/1818412‑1818673
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
