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 |
1,179,295:1 |
+A |
100% |
coding (745/984 nt) |
ansA → |
cytoplasmic L‑asparaginase I |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,179,295 | 1 | . | A | 90.9%
| 62.5
/ 1.4
| 22 | coding (745/984 nt) | ansA | cytoplasmic L‑asparaginase I |
| Reads supporting (aligned to +/- strand): ref base . (0/2); new base A (20/0); total (20/2) |
| Fisher's exact test for biased strand distribution p-value = 4.33e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
| Rejected as polymorphism: Polymorphic indel expands or contracts a homopolymer stretch. |
ACCGGTGAAAGCATTGATTCTGCGCTCCTATGGCGTGGGTAATGCGCCAC‑AAAACAAAGCCTTCCTGCAGGAATTACAAGAAGCCAGCGATCGCGGTATTGTGGTGGTCAACCTGACACA > minE/1179246‑1179365
|
aCCGGTGAAAGCATTGATTCTGCGCTCCTATGGCGTGGGTAATGCGCCAC‑AAAACAAAGCCTTCCTGCAgg < 1:2772335/71‑1 (MQ=255)
aCCGGTGAAAGCATTGATTCTGCGCTCCTATGGCGTGGGTAATGCGCCAC‑AAAACAAAGCCTTCCTGCAgg < 1:1454989/71‑1 (MQ=255)
aGCATTGATTCTGCGCTCCTATGGCGTGGGTAATGCGCCACAAAAACAAAGCCTTCCTGCAGGAATTa > 1:822623/1‑68 (MQ=255)
aGCATTGATTCTGCGCTCCTATGGCGTGGGTAATGCGCCACAAAAACAAAGCCTTCCTGCAGGAATTAc > 1:1828583/1‑69 (MQ=255)
aGCATTGATTCTGCGCTCCTATGGCGTGGGTAATGCGCCACAAAAACAAAGCCTTCCTGCAGGAATTAc > 1:2742641/1‑69 (MQ=255)
aGCATTGATTCTGCGCTCCTATGGCGTGGGTAATGCGCCACAAAAACAAAGCCTTCCTGCAGGAATTAc > 1:2784482/1‑69 (MQ=255)
aGCATTGATTCTGCGCTCCTATGGCGTGGGTAATGCGCCACAAAAACAAAGCCTTCCTGCAGGAATTAc > 1:2701672/1‑69 (MQ=255)
aGCATTGATTCTGCGCTCCTATGGCGTGGGTAATGCGCCACAAAAACAAAGCCTTCCTGCAGGAATTAc > 1:2538925/1‑69 (MQ=255)
aGCATTGATTCTGCGCTCCTATGGCGTGGGTAATGCGCCACAAAAACAAAGCCTTCCTGCAGGAATTAc > 1:2505701/1‑69 (MQ=255)
aGCATTGATTCTGCGCTCCTATGGCGTGGGTAATGCGCCACAAAAACAAAGCCTTCCTGCAGGAATTAc > 1:2470188/1‑69 (MQ=255)
aGCATTGATTCTGCGCTCCTATGGCGTGGGTAATGCGCCACAAAAACAAAGCCTTCCTGCAGGAATTAc > 1:2861959/1‑69 (MQ=255)
aGCATTGATTCTGCGCTCCTATGGCGTGGGTAATGCGCCACAAAAACAAAGCCTTCCTGCAGGAATTAc > 1:2160235/1‑69 (MQ=255)
aGCATTGATTCTGCGCTCCTATGGCGTGGGTAATGCGCCACAAAAACAAAGCCTTCCTGCAGGAATTAc > 1:342612/1‑69 (MQ=255)
aGCATTGATTCTGCGCTCCTATGGCGTGGGTAATGCGCCACAAAAACAAAGCCTTCCTGCAGGAATTAc > 1:449452/1‑69 (MQ=255)
aGCATTGATTCTGCGCTCCTATGGCGTGGGTAATGCGCCACAAAAACAAAGCCTTCCTGCAGGAATTAc > 1:726973/1‑69 (MQ=255)
aGCATTGATTCTGCGCTCCTATGGCGTGGGTAATGCGCCACAAAAACAAAGCCTTCCTGCAGGAATTAc > 1:1553341/1‑69 (MQ=255)
aGCATTGATTCTGCGCTCCTATGGCGTGGGTAATGCGCCACAAAAACAAAGCCTTCCTGCAGGAATTAc > 1:1455970/1‑69 (MQ=255)
aGCATTGATTCTGCGCTCCTATGGCGTGGGTAATGCGCCACAAAAACAAAGCCTTCCTGCAGGAATTAc > 1:762730/1‑69 (MQ=255)
aGCATTGATTCTGCGCTCCTATGGCGTGGGTAATGCGCCACAAAAACAAAGCCTTCCTGCAGGAATTAc > 1:1423533/1‑69 (MQ=255)
aGCATTGATTCTGCGCTCCTATGGCGTGGGTAATGCGCCACAAAAACAAAGCCTTCCTGCAGGAATTAc > 1:1133866/1‑69 (MQ=255)
aGCATTGATTCTGCGCTCCTATGGCGTGGGTAATGCGCCACAAAAACAAAGCCTTCCTGCAGGAATTAc > 1:1098102/1‑69 (MQ=255)
aGCATTGATTCTGCGCTCCTATGGCGTGGGTAATGCGCCACAAAAACAAAGCCTTCCTGCAGGAATTAc > 1:1091828/1‑69 (MQ=255)
c‑aaaacaaaGCCTTCCTGCAGGAATTACAAGAAGCCAGCGATCGCGGTATTGTGGTGGTCAACCTGAcaca < 1:2478063/71‑1 (MQ=255)
c‑aaaacaaaGCCTTCCTGCAGGAATTACAAGAAGCCAGCGATCGCGGTATTGTGGTGGTCAACCTGAcaca < 1:697600/71‑1 (MQ=255)
c‑aaaacaaaGCCTTCCTGCAGGAATTACAAGAAGCCAGCGATCGCGGTATTGTGGTGGTCAACCTGAcaca < 1:334184/71‑1 (MQ=255)
c‑aaaacaaaGCCTTCCTGCAGGAATTACAAGAAGCCAGCGATCGCGGTATTGTGGTGGTCAACCTGAcaca < 1:747397/71‑1 (MQ=255)
c‑aaaacaaaGCCTTCCTGCAGGAATTACAAGAAGCCAGCGATCGCGGTATTGTGGTGGTCAACCTGAcaca < 1:2824351/71‑1 (MQ=255)
c‑aaaacaaaGCCTTCCTGCAGGAATTACAAGAAGCCAGCGATCGCGGTATTGTGGTGGTCAACCTGAcaca < 1:2807804/71‑1 (MQ=255)
c‑aaaacaaaGCCTTCCTGCAGGAATTACAAGAAGCCAGCGATCGCGGTATTGTGGTGGTCAACCTGAcaca < 1:931007/71‑1 (MQ=255)
c‑aaaacaaaGCCTTCCTGCAGGAATTACAAGAAGCCAGCGATCGCGGTATTGTGGTGGTCAACCTGAcaca < 1:2710856/71‑1 (MQ=255)
c‑aaaacaaaGCCTTCCTGCAGGAATTACAAGAAGCCAGCGATCGCGGTATTGTGGTGGTCAACCTGAcaca < 1:2708267/71‑1 (MQ=255)
c‑aaaacaaaGCCTTCCTGCAGGAATTACAAGAAGCCAGCGATCGCGGTATTGTGGTGGTCAACCTGAcaca < 1:2571922/71‑1 (MQ=255)
c‑aaaacaaaGCCTTCCTGCAGGAATTACAAGAAGCCAGCGATCGCGGTATTGTGGTGGTCAACCTGAcaca < 1:1032248/71‑1 (MQ=255)
c‑aaaacaaaGCCTTCCTGCAGGAATTACAAGAAGCCAGCGATCGCGGTATTGTGGTGGTCAACCTGAcaca < 1:2396355/71‑1 (MQ=255)
c‑aaaacaaaGCCTTCCTGCAGGAATTACAAGAAGCCAGCGATCGCGGTATTGTGGTGGTCAACCTGAcaca < 1:2342944/71‑1 (MQ=255)
c‑aaaacaaaGCCTTCCTGCAGGAATTACAAGAAGCCAGCGATCGCGGTATTGTGGTGGTCAACCTGAcaca < 1:1863488/71‑1 (MQ=255)
c‑aaaacaaaGCCTTCCTGCAGGAATTACAAGAAGCCAGCGATCGCGGTATTGTGGTGGTCAACCTGAcaca < 1:184866/71‑1 (MQ=255)
c‑aaaacaaaGCCTTCCTGCAGGAATTACAAGAAGCCAGCGATCGCGGTATTGTGGTGGTCAACCTGAcaca < 1:1705894/71‑1 (MQ=255)
c‑aaaacaaaGCCTTCCTGCAGGAATTACAAGAAGCCAGCGATCGCGGTATTGTGGTGGTCAACCTGAcaca < 1:167547/71‑1 (MQ=255)
c‑aaaacaaaGCCTTCCTGCAGGAATTACAAGAAGCCAGCGATCGCGGTATTGTGGTGGTCAACCTGAcaca < 1:1472034/71‑1 (MQ=255)
c‑aaaacaaaGCCTTCCTGCAGGAATTACAAGAAGCCAGCGATCGCGGTATTGTGGTGGTCAACCTGAcaca < 1:1425993/71‑1 (MQ=255)
c‑aaaacaaaGCCTTCCTGCAGGAATTACAAGAAGCCAGCGATCGCGGTATTGTGGTGGTCAACCTGAcaca < 1:1320825/71‑1 (MQ=255)
c‑aaaacaaaGCCTTCCTGCAGGAATTACAAGAAGCCAGCGATCGCGGTATTGTGGTGGTCAACCTGAcaca < 1:1079109/71‑1 (MQ=255)
|
ACCGGTGAAAGCATTGATTCTGCGCTCCTATGGCGTGGGTAATGCGCCAC‑AAAACAAAGCCTTCCTGCAGGAATTACAAGAAGCCAGCGATCGCGGTATTGTGGTGGTCAACCTGACACA > minE/1179246‑1179365
|
| 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
