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 F3 I0 R1
|
328 |
90.1 |
2317887 |
85.2% |
1974839 |
62.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,892,019:1 |
+GC |
100% |
intergenic (‑437/+54) |
gudP ← / ← ygdL |
predicted D‑glucarate transporter/conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,892,019 | 1 | . | G | 100.0%
| 14.7
/ NA
| 6 | intergenic (‑437/+54) | gudP/ygdL | predicted D‑glucarate transporter/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (0/6); total (0/6) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
| * | minE | 1,892,019 | 2 | . | C | 100.0%
| 14.5
/ NA
| 6 | intergenic (‑437/+54) | gudP/ygdL | predicted D‑glucarate transporter/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (0/6); total (0/6) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
CGCTCGCTGAACATATCA‑‑TAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACC > minE/1892002‑1892065
||
cgctcgctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGAcc < 1:1372873/66‑1 (MQ=38)
cgctcgctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGAcc < 1:1721670/66‑1 (MQ=38)
cgctcgctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGAcc < 1:1885578/66‑1 (MQ=38)
cgctcgctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGAcc < 1:1966020/66‑1 (MQ=38)
cgctcgctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGAcc < 1:926979/66‑1 (MQ=38)
cgctcgctGAACATATCAGCTAAGCACAGAACCGGGGCGGATAAGACGTTCGCGTCTCATCCGAcc < 1:741166/66‑1 (MQ=255)
||
CGCTCGCTGAACATATCA‑‑TAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACC > minE/1892002‑1892065
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
