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 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,726,985 |
G→A |
100% |
G415G (GGC→GGT) |
purL ← |
phosphoribosylformyl‑glycineamide synthetase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,726,985 | 0 | G | A | 85.0%
| 51.3
/ 1.7
| 34 | G415G (GGC→GGT) | purL | phosphoribosylformyl‑glycineamide synthetase |
| Reads supporting (aligned to +/- strand): ref base G (2/3); new base A (20/8); total (23/11) |
| Fisher's exact test for biased strand distribution p-value = 3.04e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.41e-01 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
CAGCTTCGCACCGACGTTGATCTCGCCTTTTTGTACGTGATCGGCGCGAATGTTGCCGATCCCGCCCGCCAGCATGATCGGTTTGTGATAACCGCGCAGCTCTTCGCCGTTGTGGCTGTTC > minE/1726922‑1727042
|
cAGCTTCGCACCGACGTTGATCTCGCCTTTTTGTACGTGATCGGCGCGAATGTTGCCGATcccgccc > 1:1111874/1‑67 (MQ=255)
cAGCTTCGCACCGACGTTGATCTCGCCTTTTTGTACGTGATCGGCGCGAATGTTGCCGATcccgccc > 1:686741/1‑67 (MQ=255)
cAGCTTCGCACCGACGTTGATCTCGCCTTTTTGTACGTGATCGGCGCGAATGTTGCCGATcccgccc > 1:57689/1‑67 (MQ=255)
cAGCTTCGCACCGACGTTGATCTCGCCTTTTTGTACGTGATCGGCGCGAATGTTGCCGATcccgccc > 1:3401950/1‑67 (MQ=255)
cAGCTTCGCACCGACGTTGATCTCGCCTTTTTGTACGTGATCGGCGCGAATGTTGCCGATcccgccc > 1:3091472/1‑67 (MQ=255)
cAGCTTCGCACCGACGTTGATCTCGCCTTTTTGTACGTGATCGGCGCGAATGTTGCCGATcccgccc > 1:2514616/1‑67 (MQ=255)
cAGCTTCGCACCGACGTTGATCTCGCCTTTTTGTACGTGATCGGCGCGAATGTTGCCGATcccgccc > 1:1819863/1‑67 (MQ=255)
gTTGATCTCGCCTTTTTGTACGTGATCGGCGCGAATGTTGCCGATCCCACCCGCCAGCATGATCGGttt < 1:853156/69‑1 (MQ=255)
gTTGATCTCGCCTTTTTGTACGTGATCGGCGCGAATGTTGCCGATCCCACCCGCCAGCATGATCGGttt < 1:844803/69‑1 (MQ=255)
gTTGATCTCGCCTTTTTGTACGTGATCGGCGCGAATGTTGCCGATCCCACCCGCCAGCATGATCGGttt < 1:3299133/69‑1 (MQ=255)
gTTGATCTCGCCTTTTTGTACGTGATCGGCGCGAATGTTGCCGATCCCACCCGCCAGCATGATCGGttt < 1:1478375/69‑1 (MQ=255)
gTTGATCTCGCCTTTTTGTACGTGATCGGCGCGAATGTTGCCGATCCCACCCGCCAGCATGATCGGttt < 1:790307/69‑1 (MQ=255)
gTTGATCTCGCCTTTTTGTACGTGATCGGCGCGAATGTTGCCGATCCCACCCGCCAGCATGATCGGttt < 1:1165087/69‑1 (MQ=255)
gTTGATCTCGCCTTTTTGTACGTGATCGGCGCGAATGTTGCCGATCCCACCCGCCAGCATGATCGGttt < 1:3417630/69‑1 (MQ=255)
ttGATCTCGCCTTTTTGTACGTGATCGGCGCGAATGTTGCCGATCCCACCCGCCAGCATGATCGGttt < 1:374615/68‑1 (MQ=255)
tGATCTCGCCTTTTTGTACGTGATCGGCGCGAATGTTGCCGATCCCGCCCGCCAGCATGATCGGTTtgt < 1:572840/69‑1 (MQ=255)
tGATCTCGCCTTTTTGTACGTGATCGGCGCGAATGTTGCCGATCCCGCCCGCCAGCATGATCGGTTtgt < 1:1462034/69‑1 (MQ=255)
cGCCTTTTTGTACGTGATCGGCGCGAATGTTGCCGATCCCGCCCGCCAGCATGATCGGTTTGTGATAAc > 1:1804186/1‑69 (MQ=255)
ttttGTACGTGATCGGCGCGAATGTTGCCGATCCCCCCCGCCa > 1:1312772/1‑43 (MQ=255)
ttttGTACGTGATCGGCGCGAATGTTGCCGATCCCACCCGCGAGCATGATCGGTTTGTGATAACCgcgc > 1:3181888/1‑69 (MQ=255)
ttttGTACGTGATCGGCGCGAATGTTGCCGATCCCACCCGCCAGCATGATCGGTTTGTGATAACCgcgc > 1:3131943/1‑69 (MQ=255)
ttttGTACGTGATCGGCGCGAATGTTGCCGATCCCACCCGCCAGCATGATCGGTTTGTGATAACCgcgc > 1:1505291/1‑69 (MQ=255)
ttttGTACGTGATCGGCGCGAATGTTGCCGATCCCACCCGCCAGCATGATCGGTTTGTGATAACCgcgc > 1:813252/1‑69 (MQ=255)
ttttGTACGTGATCGGCGCGAATGTTGCCGATCCCACCCGCCAGCATGATCGGTTTGTGATAACCgcgc > 1:893751/1‑69 (MQ=255)
ttttGTACGTGATCGGCGCGAATGTTGCCGATCCCACCCGCCAGCATGATCGGTTTGTGATAACCgcgc > 1:927210/1‑69 (MQ=255)
ttttGTACGTGATCGGCGCGAATGTTGCCGATCCCACCCGCCAGCATGATCGGTTTGTGATAACCgcgc > 1:1392494/1‑69 (MQ=255)
ttttGTACGTGATCGGCGCGAATGTTGCCGATCCCACCCGCCAGCATGATCGGTTTGTGATAACCgcgc > 1:2937084/1‑69 (MQ=255)
ttttGTACGTGATCGGCGCGAATGTTGCCGATCCCACCCGCCAGCATGATCGGTTTGTGATAACCgcgc > 1:2912636/1‑69 (MQ=255)
ttttGTACGTGATCGGCGCGAATGTTGCCGATCCCACCCGCCAGCATGATCGGTTTGTGATAACCgcgc > 1:2739925/1‑69 (MQ=255)
ttttGTACGTGATCGGCGCGAATGTTGCCGATCCCACCCGCCAGCATGATCGGTTTGTGATAACCgcgc > 1:2449243/1‑69 (MQ=255)
ttttGTACGTGATCGGCGCGAATGTTGCCGATCCCACCCGCCAGCATGATCGGTTTGTGATAACCgcgc > 1:2223875/1‑69 (MQ=255)
ttttGTACGTGATCGGCGCGAATGTTGCCGATCCCACCCGCCAGCATGATCGGTTTGTGATAACCgcgc > 1:2115754/1‑69 (MQ=255)
ttttGTACGTGATCGGCGCGAATGTTGCCGATCCCACCCGCCAGCATGATCGGTTTGTGATAACCgcgc > 1:2100356/1‑69 (MQ=255)
ttttGTACGTGATCGGCGCGAATGTTGCCGATCCCACCCGCCAGCATGATCGGTTTGTGATAACCgcgc > 1:1934203/1‑69 (MQ=255)
ttttGTACGTGATCGGCGCGAATGTTGCCGATCCCACCCGCCAGCATGATCGGTTTGTGATAACCgcgc > 1:1763943/1‑69 (MQ=255)
ttttGTACGTGATCGGCGCGAATGTTGCCGATCCCACCCGCCAGCATGATCGGTTTGTGATAACCgcgc > 1:1742191/1‑69 (MQ=255)
ttttGTACGTGATCGGCGCGAATGTTGCCGATCCCACCCGCCAGCATGATCGGTTTGTGATAACCgcgc > 1:17207/1‑69 (MQ=255)
ttttGTACGTGATCGGCGCGAATGTTGCCGATCCCACCCGCCAGCATGATCGGTTTGTGATAACCgcgc > 1:1712474/1‑69 (MQ=255)
ttttGTACGTGATCGGCGCGAATGTTGCCGATCCCACCCGCCAGCATGATCGGTTTGTGATAACCgcgc > 1:1492997/1‑69 (MQ=255)
cGGCGCGAATGTTGCCGATCCCGCCCGCCAGCATGATCGGTTTGTGATAACCGCGCAGCTCTTCGCCGt < 1:933812/69‑1 (MQ=255)
ttGCCGATCCCGCCCGCCAGCATGATCGGTTTGTGATAACCGCGCAGCTCTTCGCCGTTGTGGCTGTTc > 1:1091777/1‑69 (MQ=255)
|
CAGCTTCGCACCGACGTTGATCTCGCCTTTTTGTACGTGATCGGCGCGAATGTTGCCGATCCCGCCCGCCAGCATGATCGGTTTGTGATAACCGCGCAGCTCTTCGCCGTTGTGGCTGTTC > minE/1726922‑1727042
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
