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 F17 I0 R1
|
71 |
95.7 |
2922988 |
91.7% |
2680379 |
65.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,133,843 |
T→C |
100% |
intergenic (‑69/‑218) |
ydiY ← / → pfkB |
conserved hypothetical protein/6‑phosphofructokinase II |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,133,843 | 0 | T | C | 81.3%
| 111.8
/ 20.0
| 48 | intergenic (‑69/‑218) | ydiY/pfkB | conserved hypothetical protein/6‑phosphofructokinase II |
| Reads supporting (aligned to +/- strand): ref base T (3/6); new base C (39/0); total (42/6) |
| Fisher's exact test for biased strand distribution p-value = 6.85e-06 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.17e-01 |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
TATCAAGAGTCCGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGATTAGCGTCCCTGGAAAGGTAACG > minE/1133776‑1133865
|
tATCAAGAGTCCGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGATTa > 1:1673889/1‑70 (MQ=255)
tATCAAGAGTCCGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGATTAg > 1:2638716/1‑71 (MQ=255)
tATCAAGAGTCCGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGCATCAAAGATTAg > 1:829772/1‑71 (MQ=255)
cGTACAACAAAAAAAGAGCCCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:2116199/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGCCCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:2523598/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGACCGTCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:988553/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTgg > 1:2109336/1‑69 (MQ=255)
cGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:2004787/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:2066493/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:1008890/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:2182409/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:24235/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:2616853/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:2635436/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:2763685/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:277056/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:2864112/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:2912400/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:459102/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:665172/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:672258/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:674556/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:741229/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:1901593/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:1024971/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:103521/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:1256106/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:1335764/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:1403310/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:1441305/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:1459692/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:1512759/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:155990/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:1623422/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:1633858/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:1715780/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:1716908/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:1719006/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:1863374/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:1866577/1‑70 (MQ=255)
cGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:1906818/1‑70 (MQ=255)
cGTAAAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGACTAGCGTCCCTGGa > 1:124044/1‑70 (MQ=255)
aaaaaaaGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGATTAGCGTCCCTGGAAAGGTAACg < 1:1451465/71‑1 (MQ=255)
aaaaaaaGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGATTAGCGTCCCTGGAAAGGTAACg < 1:1416512/71‑1 (MQ=255)
aaaaaaaGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGATTAGCGTCCCTGGAAAGGTAACg < 1:21108/71‑1 (MQ=255)
aaaaaaaGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGATTAGCGTCCATGGAAAGGTAACg < 1:2414148/71‑1 (MQ=255)
aaaaaaGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGATTAGCGTCCCTGGAAAGGTAACg < 1:2719319/70‑1 (MQ=255)
aaaaaaGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGATTAGCGTCCCTGGAAAGGTAACg < 1:2738338/70‑1 (MQ=255)
|
TATCAAGAGTCCGTACAACAAAAAAAGAGACCATCGCGGTCCCGGAAACTTTCTTAAGGATCAAAGATTAGCGTCCCTGGAAAGGTAACG > minE/1133776‑1133865
|
| 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
