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 |
2,244,129 |
C→T |
100% |
L181L (CTG→CTA) |
hemE ← |
uroporphyrinogen decarboxylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,244,129 | 0 | C | T | 78.4%
| 67.8
/ 15.4
| 37 | L181L (CTG→CTA) | hemE | uroporphyrinogen decarboxylase |
| Reads supporting (aligned to +/- strand): ref base C (6/2); new base T (0/29); total (6/31) |
| Fisher's exact test for biased strand distribution p-value = 1.20e-05 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.89e-01 |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
TGAGCACCGGCTTTAATCTGCGCATTCAGATACAAAGTGACGCTTTTCGCCAGTTTATCGAGCAGAGCGTGCAGCGCCTGCGGATCGGCATACATCATTTTTTTGATCACGGTGAAG > minE/2244067‑2244183
|
tGAGCACCGGCTTTAATCTGCGCATTCAGATACAAAGTGACGCTTTTCGCCAGTTTATCGAGCagag < 1:1088013/67‑1 (MQ=255)
tAATCTGCGCATTCAGATACAACGTGACGCGTTTCGCCAGTTTATCGAGTAGCGCGTGCa < 1:805448/60‑1 (MQ=255)
tAATCTGCGCATTCAGATACAAAGTGACGCTTTTCGCCAGTTTATCGAGTAGCGCGTGCa < 1:2065273/60‑1 (MQ=255)
tAATCTGCGCATTCAGATACAAAGTGACGCTTTTCGCCAGTTTATCGAGTAGCGCGTGCa < 1:6425/60‑1 (MQ=255)
tAATCTGCGCATTCAGATACAAAGTGACGCTTTTCGCCAGTTTATCGAGTAGCGCGTGCa < 1:470870/60‑1 (MQ=255)
tAATCTGCGCATTCAGATACAAAGTGACGCTTTTCGCCAGTTTATCGAGTAGCGCGTGCa < 1:265784/60‑1 (MQ=255)
tAATCTGCGCATTCAGATACAAAGTGACGCTTTTCGCCAGTTTATCGAGTAGCGCGTGCa < 1:250742/60‑1 (MQ=255)
tAATCTGCGCATTCAGATACAAAGTGACGCTTTTCGCCAGTTTATCGAGTAGCGCGTGCa < 1:645838/60‑1 (MQ=255)
tAATCTGCGCATTCAGATACAAAGTGACGCTTTTCGCCAGTTTATCGAGTAGCGCGTGCa < 1:2164805/60‑1 (MQ=255)
tAATCTGCGCATTCAGATACAAAGTGACGCTTTTCGCCAGTTTATCGAGTAGCGCGTGCa < 1:2160741/60‑1 (MQ=255)
tAATCTGCGCATTCAGATACAAAGTGACGCTTTTCGCCAGTTTATCGAGTAGCGCGTGCa < 1:2130334/60‑1 (MQ=255)
tAATCTGCGCATTCAGATACAAAGTGACGCTTTTCGCCAGTTTATCGAGTAGCGCGTGCa < 1:2107875/60‑1 (MQ=255)
tAATCTGCGCATTCAGATACAAAGTGACGCTTTTCGCCAGTTTATCGAGTAGCGCGTGCa < 1:2101727/60‑1 (MQ=255)
tAATCTGCGCATTCAGATACAAAGTGACGCTTTTCGCCAGTTTATCGAGTAGCGCGTGCa < 1:2092161/60‑1 (MQ=255)
tAATCTGCGCATTCAGATACAAAGTGACGCTTTTCGCCAGTTTATCGAGTAGCGCGTGCa < 1:2073282/60‑1 (MQ=255)
tAATCTGCGCATTCAGATACAAAGTGACGCTTTTCGCCAGTTTATCGAGTAGCGCGTGCa < 1:2070598/60‑1 (MQ=255)
tAATCTGCGCATTCAGATACAAAGTGACGCTTTTCGCCAGTTTATCGAGTAGCGCGTGCa < 1:2043029/60‑1 (MQ=255)
tAATCTGCGCATTCAGATACAAAGTGACGCTTTTCGCCAGTTTATCGAGTAGCGCGTGCa < 1:1987702/60‑1 (MQ=255)
tAATCTGCGCATTCAGATACAAAGTGACGCTTTTCGCCAGTTTATCGAGTAGCGCGTGCa < 1:1866633/60‑1 (MQ=255)
tAATCTGCGCATTCAGATACAAAGTGACGCTTTTCGCCAGTTTATCGAGTAGCGCGTGCa < 1:1852038/60‑1 (MQ=255)
tAATCTGCGCATTCAGATACAAAGTGACGCTTTTCGCCAGTTTATCGAGTAGCGCGTGCa < 1:181459/60‑1 (MQ=255)
tAATCTGCGCATTCAGATACAAAGTGACGCTTTTCGCCAGTTTATCGAGTAGCGCGTGCa < 1:653433/60‑1 (MQ=255)
tAATCTGCGCATTCAGATACAAAGTGACGCTTTTCGCCAGTTTATCGAGTAGCGCGTGCa < 1:1571927/60‑1 (MQ=255)
tAATCTGCGCATTCAGATACAAAGTGACGCTTTTCGCCAGTTTATCGAGTAGCGCGTGCa < 1:707252/60‑1 (MQ=255)
tAATCTGCGCATTCAGATACAAAGTGACGCTTTTCGCCAGTTTATCGAGTAGCGCGTGCa < 1:1414869/60‑1 (MQ=255)
tAATCTGCGCATTCAGATACAAAGTGACGCTTTTCGCCAGTTTATCGAGTAGCGCGTGCa < 1:1001581/60‑1 (MQ=255)
tAATCTGCGCATTCAGATACAAAGTGACGCTTTTCGCCAGTTTATCGAGTAGCGCGGGCa < 1:1663221/60‑1 (MQ=255)
tAATCTGCGCATTCAGATACAAAGCGACGCTTTTCGCCAGTTTATCGAGTAGCGCGTGCa < 1:1645659/60‑1 (MQ=255)
aaTCTGCGCATTCAGATACAAAGTGACGCTTTTCGCCAGTTTATCGAGTAGCGCGTGCa < 1:360350/59‑1 (MQ=255)
cTGCGCATTCAGATACAAAGTGACGCTTTTCGCCAGTTTATCGAGTAGCGCGTGCa < 1:1072331/56‑1 (MQ=255)
ggtACAAAGTGACGCTTTTCGCCAGTTTATCGAGCAGAGCGTGCAGCGCCTGCGGATCgg > 1:52537/3‑60 (MQ=255)
gATACAAAGTGACGCTTTTCGCCAGTTTATCGAGCAGAGCGTGCAGCGCCTGCGGATCgg > 1:2215497/1‑60 (MQ=255)
gATACAAAGTGACGCTTTTCGCCAGTTTATCGAGCAGAGCGTGCAGCGCCTGCGGATCgg > 1:145673/1‑60 (MQ=255)
gATACAAAGTGACGCTTTTCGCCAGTTTATCGAGCAGAGCGTGCAGCGCCTGCGGATCgg > 1:1422637/1‑60 (MQ=255)
gATACAAAGTGACGCTTTTCGCCAGTTTATCGAGCAGAGCGTGCAGCGCCTGCGGATCgg > 1:903754/1‑60 (MQ=255)
gATACAAAGTGACGCTTTTCGCCAGTTTATCGAGCAGAGCGTGAAGCGCCTGCGGATCgg > 1:1681633/1‑60 (MQ=255)
cAGTTTATCGAGCAGAGCGTGCAGCGCCTGCGGATCGGCATACATCATTTTTTTGATCACGGTGAAg < 1:624526/67‑1 (MQ=255)
|
TGAGCACCGGCTTTAATCTGCGCATTCAGATACAAAGTGACGCTTTTCGCCAGTTTATCGAGCAGAGCGTGCAGCGCCTGCGGATCGGCATACATCATTTTTTTGATCACGGTGAAG > minE/2244067‑2244183
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
