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 |
3,862,230 |
G→A |
pseudogene (1374/1617 nt) |
glvC ← |
pseudogene, arbutin specific enzyme IIC component of PTS,enzyme, Transport of small molecules: Carbohydrates, organic acids, alcohols, PTS system, arbutin‑like IIB component, PTS system, arbutin‑like IIC component |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,862,230 | 0 | G | A | 100.0%
| 69.8
/ NA
| 23 | pseudogene (1374/1617 nt) | glvC | pseudogene, arbutin specific enzyme IIC component of PTS,enzyme, Transport of small molecules: Carbohydrates, organic acids, alcohols, PTS system, arbutin‑like IIB component, PTS system, arbutin‑like IIC component |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (13/10); total (13/10) |
CGGAAGACGCCGTGCGCTCCCAGCTTTTTAAAGACTTCGTCATCCAGCGTTTGTGACATGTCATGCAGTGCAATACGTAAACGCGTCGCGCAATTGTTAATGCTGGAGATATTGCCGACCCCGCCCAGGGCTTGCAGGATACCGGCAGCCTGATCCAGCTCTTTTTTTGGCTCTGCCGCGGTGGTTTGGCCTCGCGAGGCTTTGTATTCGGCTTTTGAGTAGAGTTTCACTTCCGCATCTTCACGTCCCGGCGT > NC_000913/3862108‑3862361
|
cGGAAGACGCCGTGCGCTCCCAGCTTTTTAAAGACTTCGTCATCCAGCGTTTGGGACATGTCATGCAGTGCAATACGTAAACGCGTCGCGCAATTGTTAATGCTGGAGATATTGACGACCCCACCCAGGGCTTGCAGGa < 2:922717/139‑1 (MQ=255)
cGTCATCCAGCGTTTGTGACATGTCATGCAGTGCAATACGTAAACGCGTCGCGCAATTGTTAATGCTGGAGATATTGCCGACCCCACCCAGGGCTTGCAGGATACCGGCAGCCTGATCCAGCTCTTTTTTTGGCTCTGc > 1:513494/1‑139 (MQ=255)
ccAGGGTTTGTTACATGTCATGCAGTGCAATACGTAAACGCGTCGCGCAATTGTTAATGCTGGAGATATTGCCGACCCCACCCAGGGCTTGCAGGATACCGGCAGCCTGATCCAGCTCTTTTTTTGGCTCTGCCGCggt > 2:540048/1‑139 (MQ=255)
gTCATGCAGTGCAATACGTAAACGCGTCGCGCAATTGTTAATGCTGGAGATATTGCCGACCCCACCCAgg < 2:894063/70‑1 (MQ=255)
gTCATGCAGTGCAATACGTAAACGCGTCGCGCAATTGTTAATGCTGGAGATATTGCCGACCCCACCCAgg > 1:894063/1‑70 (MQ=255)
tCATGCAGTGCAATACGTAAACGCGTCGCGCAATTGTTAATGCTGGAGATATTGCCGACCCCACCCAGGGCTTGCAGGATACCGGCAGCCTGATCCAGCTCTTTTTTTGGCTCTGCCGCGGTGGTTTGGCCTCGCGAgg > 2:616474/1‑139 (MQ=255)
gTGCAATACGTAAACGCGTCGCGCAATTGTTAATGCTGGAGATATTGCCGACCCCACCCAGGGc < 1:705841/64‑1 (MQ=255)
gTGCAATACGTAAACGCGTCGCGCAATTGTTAATGCTGGAGATATTGCCGACCCCACCCAGGGc > 2:705841/1‑64 (MQ=255)
gCAATACGTAAACGCGTCGCGCAATTGTTAATGCTGGAGATATTGCCGACCCCACCCAGGGCTTGCAGGATACCGGCAGCCTGATCCAGCTCTTTTTTTGGCTCTGCCGCGGTGGTTTGGCCTCGCGAGGCTTTGTAtt > 2:673882/1‑139 (MQ=255)
tAAACGCGTCGCGCAATTGTTAATGCTGGAGATATTGCCGACCCCACCCAGGGCTTGCAGGATACCGGCAGCCTGATCCAGCTCTTTTTTTGGCTCTGCCGCGGTGGTTTGGCCTCGCGAGGCTTTGTATTCGGCtttt < 2:513494/139‑1 (MQ=255)
aaaCGCGTCGCGCAATTGTTAATGCTGGAGATATTGCCGACCCCACCCAGGGCTTGCAGGATACCGGCAGCCTGATCCAGCTCTTTTTTTGGCTCTGCCGCGGTGGTTTGGCCTCGCGAGGCTTTGTATTCGGCTTTTg > 1:312789/1‑139 (MQ=255)
aaaCGCGTCGCGCAATTGTTAATGCTGGAGATATTGCCGACCCCACCCAGGGCTTGCAGGATACCGGCAGCCTGATCCAGCTCTTTTTTTGGCTCTGCCGCGGTGGTTTGGCCTCGCGAGGCTTTGTATTCGGCTTTTg > 2:879440/1‑139 (MQ=255)
cgcgTCGCGCAATTGTTAATGCTGGAGATATTGCCGACCCCACCCAGGGCTTGCAGGATACCGGCAGCCTGATCCAGCTCTTTTTTTGGCTCTGCCGCGGTGGTTTGGCCTCGCGAGGCTTTGTATTCGGCTTTTGAGt < 1:616474/139‑1 (MQ=255)
cgTCGCGCAATTGTTAATGCTGGAGATATTGCCGACCCCACCCAGGGCTTGCAGGATACCgg < 2:926654/62‑1 (MQ=255)
cgTCGCGCAATTGTTAATGCTGGAGATATTGCCGACCCCACCCAGGGCTTGCAGGATACCgg > 1:926654/1‑62 (MQ=255)
ggAGATATTGCCGACCCCACCCAGGGCTTGCAGGATACCGGCAGCCTGATCCAGCTCTTTTTTTGGCTCTGCCGCGGTGGTTTGGCCTCGCGAGGCTTTGTATTCGGCTTTTGAGTAGAGTTTCACTTCCGCATCTTCa > 2:193220/1‑139 (MQ=255)
ttGCCGACCCCACCCAGGGCTTGCAGGATACCGGCAGCCTGATCCAGCTCTTTTTTTGGCTCTGCCGCGGTGGTTTGGCCTCGCGAGGCTTTGTATTCGGCTTTTGAg > 2:61211/1‑108 (MQ=255)
ttGCCGACCCCACCCAGGGCTTGCAGGATACCGGCAGCCTGATCCAGCTCTTTTTTTGGCTCTGCCGCGGTGGTTTGGCCTCGCGAGGCTTTGTATTCGGCTTTTGAg < 1:61211/108‑1 (MQ=255)
ttGCCGACCCCACCCAGGGCTTGCAGGATACCGGCAGCCTGATCCAGCTCTTTTTTTGGCTCTGCCGCGGTGGTTTGGCCTCGCGAGGCTTTGTATTCGGCTTTTGAGTAGAGTTTCACTTCCGCATCTTCACGTCCCg < 1:193220/139‑1 (MQ=255)
tGCCGACCCCACCCAGGGCTTGCAGGATACCGGCAGCCTGATCCAGCTCTTTTTTTGGCTCTGCCGCGGTGGTTTGGCCTCGCGAGGCTTTGTATTCGGCTTTTGAGTAGAGTTTCACTTCCGCATCTTCACGTCCCgg < 1:879440/139‑1 (MQ=255)
tGCCGACCCCACCCAGGGCTTGCAGGATACCGGCAGCCTGATCCAGCTCTTTTTTTGGCTCTGCAGCGGTGGTTTGGCCTCGCGAGGCTTTGTATTCGGCTTTTGAGTATAGTTTCACTGCCGCATCTTCACGTCCCgg < 1:620705/139‑1 (MQ=255)
ccGACCCCACCCAGGCCTTGCAGGATACCGGCAGCCTGATCCAGCTCTTTTTTTGGCTCTGCCGCGGTGGTTTGGCCTCGCGAGGCTGTGTATTCGGCTTTTGAGTAGAGTTTCACTTCCGCATCTTCACGTCCCGGCg > 2:620705/1‑139 (MQ=255)
cGACCCCACCCAGGGCTTGCAGGATACCGGCAGCCTGATCCAGCTCTTTTTTTGGCTCTGCCGCGGTGGTTTGGCCTCGCGAGGCTTTGTATTCGGCTTTTGAGTAGAGTTTCACTTCCGCATCTTCACGTCCCGGCGt > 1:230116/1‑139 (MQ=255)
|
CGGAAGACGCCGTGCGCTCCCAGCTTTTTAAAGACTTCGTCATCCAGCGTTTGTGACATGTCATGCAGTGCAATACGTAAACGCGTCGCGCAATTGTTAATGCTGGAGATATTGCCGACCCCGCCCAGGGCTTGCAGGATACCGGCAGCCTGATCCAGCTCTTTTTTTGGCTCTGCCGCGGTGGTTTGGCCTCGCGAGGCTTTGTATTCGGCTTTTGAGTAGAGTTTCACTTCCGCATCTTCACGTCCCGGCGT > NC_000913/3862108‑3862361
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
