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 |
|
A1 F169 I0 R1
|
132 |
34.5 |
794130 |
89.8% |
713128 |
140.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP000730 |
1,324,256 |
(A)9→8 |
100% |
coding (1028/2010 nt) |
mutL → |
DNA mismatch repair protein MutL |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP000730 | 1,324,248 | 0 | A | . | 91.7%
| 91.1
/ 0.5
| 24 | coding (1020/2010 nt) | mutL | DNA mismatch repair protein MutL |
| Reads supporting (aligned to +/- strand): ref base A (1/1); new base . (11/11); total (12/12) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| 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. |
TTCATCCAACAAAACTAGAAGTGCGTTTATCAAAAGAAGAGCAACTATACCAATTGATTGTGAGCAAAATACAAGAAGCATTTAAAGACCGTATATTAATTCCTAAAAATAACTTGGATTATGTGCCAAAAAAAAATAAAGTATTACATTCATTCGAACAACAAAAAATCGAATTTGAACAAAGACAAAACACAGAGAATAACCAAGAGAAGACGTTTTCATCTGAAGAAAGTAACAGTAAGCCATTTATGGAAGAAAATCAAA > CP000730/1324121‑1324384
|
ttCATCCAACAAAACTAGAAGTGCGTTTATCAAAAGAAGAGCAACTATACCAATTGATTGTGAGCAAAATACAAGAAGCATTTAAAGACCGTATATTAATTCCTAAAAATAACTTGGATTATGTGCC‑AAAAAAAATAAAGt < 1:200206/141‑1 (MQ=255)
ttCATCAAACAAAACTAGAAGTGCGTTTATCAAAAGAAGAGCAACTATACCAATTGATTGTGAGCAAAATACAAGAAGCATTTAAAGACCGTATATTAATTCCTAAAAATAACTTGGATTATGTGCC‑AAAAAAAATAAAGt < 1:4536/141‑1 (MQ=255)
aacaaAACTAGAAGTGCGTTTATCAAAAGAAGAGCAACTATACCAATTGATTGTGAGCAAAATACAAGAAGCATTTAAAGACCGTATATTAATTCCTAAAAATAACTTGGATTATGTGCC‑AAAAAAAATAAAGTATTAcat < 1:328859/141‑1 (MQ=255)
acaaAACTAGAAGTGCGTTTATCAAAAGAAGAGCAACTATACCAATTGATTGTGAGCAAAATACAAGAAGCATTTAAAGACCGTATATCAAGTCCTAAAAATAACTTGGATTATGTGCC‑AAAAAAAATAAAGTATTAcatt > 1:269664/1‑141 (MQ=255)
gAAGTGCGTTTATCAAAAGAAGAGCAACTATACCAATTGATTGTGAGCAAAATACAAGAAGCATTTAAAGACCGTATATTAATTCCTAAAAATAACTTGGATTATGTGCC‑AAAAAAAATAAAGTATTACATTCATTCGaaa > 1:368067/1‑140 (MQ=255)
aGTGCGTTTATCAAAAGAAGAGCAACTATACCAATTGATTGTGAGCAAAATACAAGAAGCATTTAAAGACCGTAGATTAATTCCTACAAATACTTTGGATGATGTGCC‑AAAAAAAATAAAGAATTACATTCATTCAaacac > 2:42707/1‑140 (MQ=255)
acAAACGAAGAGTAACTATACCCATGGATTGTGAGAAAAATACAAGAAGCATTCAAAGACCGTATATTAATTCCTAAAAATAACTTGCATTATGAG‑AAAAAAAAAATAAAGTATTACATTCATTCGAACAACAAAAAATCg < 1:181021/140‑1 (MQ=255)
cAAAAGAAGAGCAACTATACCAATTGATTGTGAGCAAAATACAAGAAGCATTTAAAGACCGTATATTAATTCCTAAATATAACTTGGATTATGTG‑CAAGACAACATAAAGTATTACATTCATTCGAACAACAAAAAATCGa > 1:267713/1‑141 (MQ=255)
aaaGAAGAGCAACTATACCAATTGATTGTGAGCAAAATTCACGCGCCTATCAAATGCCGTATATTAATTCCTAAAAATAACTTGGATTATGTGCC‑AAAAAAAATAAAGTATTACATTCATTCGAACAACAAAAAATCGAAt < 1:89543/141‑1 (MQ=255)
aaaGAAGAGCAACTATACCAATTGATTGTGAGCAAAATACAAGAAGCATTTAAAGACCGTATATTAATTCCTAAAAATAACTTGGATTATGTGCC‑AAAAAAAATAAAGTATTACATTCATTCGAACAACAAAAAATCGAAt < 1:320014/141‑1 (MQ=255)
gCAACTATACCAATTGATTGTGAGCAAAATACAAGAAGCATTTAAAGACCGTATATTAATTCCTAAAAATAACTTGGATTATGTGCC‑AAAAAAAATAAAGTATTACATTCATTCGAACAACAAAAAATCGAATTTGAACaa > 1:384890/1‑141 (MQ=255)
tattgTGAGCAAAATACAAGAAGCATTTAAAGACCGTATATTAATTCCTAAAAATAACTTGGATTATGTGCC‑AAAAAAAATAAAGTATTACATTCATTCGAACAACAAAAAATCGAATTTGAACAAAGACAAAACACagag < 1:336676/140‑1 (MQ=255)
gagtgggAGCAAAATACAAGAAGCATTTAAAGCCCGTATATTAATTCCTAAAAATAACTTGGATTATGTGCC‑AAAAAAAATAAAGTATTACATTCATTCGAACAACAAAAAATCGAATTTGAACAAAGACAAAACACagag < 1:176696/135‑1 (MQ=255)
tgtgAGCAAAATACAAGAAGCATTTAAAGACCGTATATTAATTCCTAAAAATAACTTGGATTATGTGCC‑AAAAAAAATAAAGTATTACATTCATTCGAACAACAAAAAATCGAATTTGAACAAAGACAAAAcacaaaaaaa > 2:36967/1‑135 (MQ=255)
aGCAAAATACAAGAAGCATTTAAAGACCGTATATTAATTCCTAAAAATAACTTGGATTATGTGCC‑AAAAAAAATAAAGTATTACATTCATTCGAACAACAAAAAATCGAATTTGAACAAAGACAAAACACAGAGACTAAcc > 1:126390/1‑141 (MQ=255)
tACAATAAGCATTTAAAGACCGTATATTAATTCCTAAAAATAACTTGGATTATGTGCC‑AAAAAAAATAAAGTATTACATTCATTCGAACAACAAAAAATCGAATTTGAACAAAGACAAAACACAGAGAATAACCAAGagaa < 2:116857/141‑1 (MQ=255)
cAAGAAGCATTTAAAGACCGTATATTAATTCCTAAAAATAACTTGGATTATGTGCC‑AAAAAAAATAAAGTATTACATTCATTCGAACAACAAAAAATCGAATTTGAACAAAGACAAAACACAGAGAATAACCAAGagaaga < 1:49310/141‑1 (MQ=255)
aagaagCATTTAAAGACCGTATATTAATACCTAAAAATAACTTGGATTATGTGCC‑AAAAAAAATAAAGTATTACATTAATACGAACAACAAAAAATCGAATTTGAACAAAGACAAAACACAGAGAATAACCAAGAGAAGAc < 2:14882/141‑1 (MQ=255)
ttAAAGACCGTATATTAATTCCTAAAAATAACTTGGATTATGTGCC‑AAAAAAAATAAAGTATTACATTCATTCGAACAACAAAAAATCGAATTTGAACAAAGACAAAACACAGAGAATAACCAAGAGAAGACGTTTTCATc > 1:182884/1‑141 (MQ=255)
aaaGACCGTATATTAATTCCTAAAAATAACTTGGATTAAGTGCC‑AAAAAAAATAAAGTATTACATTCATTCGAACACCAAAAAATCGAATTTGAAAAAAGACAAAACACAGAAAAAAACAAAGGGAAGCCAttttaaaata > 2:334186/1‑135 (MQ=255)
gACCGTATATTAATACCTAAAAATAACTTGGATTATGTTCC‑AAAAAAAATAAAGGAGTACATTCATTCGAACAACAAAAAATCGAATTTGAACAAAGACAAAACACAGAGAATAACCAAGAGAAGACGTTTTCATCGgaag > 2:231017/1‑141 (MQ=255)
cTAAAAATAACTTGGATTATGTGCC‑AAAAAAAATAAAGTATTACATTCATTCGAACAACAAAAAATCGAATTTGAACAAAGACAAAACACAGAGAATAACCAAGAGAAGACGTTTTCATCTGAAGAAAGTAACAGTAAGcc < 1:261433/141‑1 (MQ=255)
aCTTGGATTATGTGCC‑AAAAAAAATAAAGTATTACATTCATTCGAACAACAAAAAATCGAATTTGAACAAAGACAAAACACAGAGAATAACCAAGAGAAGACGTTTTCATCTGAAGAAAGTAACAGTAAGCCATTGATGga > 1:109334/1‑141 (MQ=255)
aatatgtgaaaaaaaaaaTAAAGTATTACATTCATTCGAACAACAAAAAATCGAATTTGAACAAAGACAAAACACAGAGAATAACCAAGAGAAGACGTTTTCATCTGAAGAAAGTAACAGTAAGCCATTTATGGAAGaaaa < 2:21073/132‑1 (MQ=255)
gtgCC‑AAAAAAAATAAAGTATTACATTCATTCGAACAACAAAAAATCGAATTTGAACAAAGACAAAACACAGAGAATAACCAAGAGAAGACGTTTTCATCTGAAGAAAGTAACAGTAAGCCATTTATGGAAGAAAATCaaa > 1:19876/1‑141 (MQ=255)
|
TTCATCCAACAAAACTAGAAGTGCGTTTATCAAAAGAAGAGCAACTATACCAATTGATTGTGAGCAAAATACAAGAAGCATTTAAAGACCGTATATTAATTCCTAAAAATAACTTGGATTATGTGCCAAAAAAAAATAAAGTATTACATTCATTCGAACAACAAAAAATCGAATTTGAACAAAGACAAAACACAGAGAATAACCAAGAGAAGACGTTTTCATCTGAAGAAAGTAACAGTAAGCCATTTATGGAAGAAAATCAAA > CP000730/1324121‑1324384
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
