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 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
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%
| 16.1
/ NA
| 7 | intergenic (‑437/+54) | gudP/ygdL | predicted D‑glucarate transporter/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (3/4); total (3/4) |
| 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%
| 16.0
/ NA
| 7 | intergenic (‑437/+54) | gudP/ygdL | predicted D‑glucarate transporter/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (3/4); total (3/4) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
TGCCTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCA‑‑TAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTC > minE/1891959‑1892055
||
tGCCTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCagga > 1:4545361/1‑61 (MQ=255)
cACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGtt < 1:1057122/71‑1 (MQ=255)
gCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTcgcg > 1:2106524/1‑71 (MQ=255)
aaaCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGtc < 1:2170658/69‑1 (MQ=255)
ctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAg < 1:2399963/39‑1 (MQ=25)
ctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAg < 1:4890514/39‑1 (MQ=25)
gAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGAc > 1:391254/1‑39 (MQ=25)
gAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGAc > 1:4546749/1‑39 (MQ=25)
||
TGCCTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCA‑‑TAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTC > minE/1891959‑1892055
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
