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 |
|
A12 F56 I1 R1
|
165 |
53.8 |
2611523 |
96.4% |
2517508 |
99.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,703,693 |
C→T |
A206T (GCG→ACG) |
ydgJ ← |
putative oxidoreductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,703,693 | 0 | C | T | 97.1%
| 104.7
/ NA
| 34 | A206T (GCG→ACG) | ydgJ | putative oxidoreductase |
| Reads supporting (aligned to +/- strand): ref base C (0/1); new base T (16/17); total (16/18) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01 |
TACCGTGCTGACTCAGCGGCTGCCAGCATGGTACCGTGTAAAATGACTCGCCGCTGTGGATAGGACAAGATGGCGTGGAAATAATCGGTCGACTGCGCTCCGGGCCGTAACTGTGCCAAATCTACCGTCATGCTGACCGGTAAACCAAAAAGCGTAATGGCCTGATCAAGAAGATGTGGTGCTAAATCGTACCA > NC_000913/1703596‑1703789
|
taCCGTGCTGACTCAGCGGCTGCCAGCATGGTACCGTGTAAAATGACTCGCCGCTGTGGATAGGACAAGATGGCGTGGAAATAATCGGTCGACTGCGTTc < 2:317434/100‑1 (MQ=255)
cGTGCTGACTCAGCGGCTGCCAGCATGGTACCGTGTAAAATGACTCGCCGCTGTGGATAGGACAAGATGGCGTGGAAATAATCGGTCGACTGCGTTCCgg < 2:1295646/100‑1 (MQ=255)
gCTGACTCAGCGGCTGCCAGCATGGTACCGTGTAAAATGACTCGCCGCTGTGGATAGGACAAGATGGCGTGGAAATAATCGGTCGACTGCGTTCCGGGcc < 1:387359/100‑1 (MQ=255)
cTCAGCGGCTGCCAGCATGGTACCGTGTAAAATGACTCGCCGCTGTGGATAGGACAAGATGGCGTGGAAATAATCGGTCGACTGCGTTCCGGGCCGTAAc > 1:584501/1‑100 (MQ=255)
cTCAGCGGCTGCCAGCATGGTACCGTGTAAAATGACTCGCCGCTGTGGATAGGACAAGATGGCGTGGAAATAATCGGTCGACTGCGTTCCGGGCCGTAAc > 2:661649/1‑100 (MQ=255)
ccAGCATGGTACCGTGTAAAATGACTCGCCGCTGTGGATAGGACAAGATGGCGTGGAAATAATCGGTCGACTGCGTTCCGGGCCGTAACTGTGCCAAATc > 2:338122/1‑100 (MQ=255)
gtgtAAAATGACTCGCCGCTGTGGATAGGACAAGATGGCGTGGAAATAATCGGTCGACTGCGTTCCGGGCCGTAACTGTGCCAAATCTACCGTCATGCTg > 2:1102199/1‑100 (MQ=255)
tAAAATGACTCGCCGCTGTGGATAGGACAAGATGGCGTGGAAATAATCGGTCGACTGCGTTCCGGGCCGTAACTGTGCCAAATCTACCGTCATGCTGAcc > 2:52684/1‑100 (MQ=255)
tAAAATGACTCGCCGCTGTGGATAGGACAAGATGGCGTGGAAATAATCGGTCGACTGCGTTCCGGGCCGTAACTGTGCCAAATCTACCGTCATGCTGAcc < 1:734358/100‑1 (MQ=255)
tAAAATGACTCGCCGCTGTGGATAGGACAAGATGGCGTGGAAATAATCGGTCGACTGCGTTCCGGGCCGTAACTGTGCCAAATCTACCGTCATGCTGAcc < 1:918240/100‑1 (MQ=255)
aaTGACTCGCCGCTGTGGATAGGACAAGATGGCGTGGAAATAATCGGTCGACTGCGTTCCGGGCCGTAACTGTGCCAAATCTACCGTCATGCTGACCGGt > 1:833855/1‑100 (MQ=255)
aCTCGCCGCTGTGGATAGGACAAGATGGCGTGGAAATAATCGGTCGACTGCGTTCCGGGCCGTAACTGTGCCAAATCTACCGTCATGCTGACCGGTAAAc > 2:1078115/1‑100 (MQ=255)
aCTCGCCGCTGTGGATAGGACAAGATGGCGTGGAAATAATCGGTCGACTGCGTTCCGGGCCGTAACTGTGCCAAATCTACCGTCATGCTGACCGGTAAAc < 2:833849/100‑1 (MQ=255)
tCGCCGCTGTGGATAGGACAAGATGGCGTGGAAATAATCGGTCGACTGCGTTCCGGGCCGTAACTGTGCCAAATCTACCGTCATGCTGACCGGTAAACCa > 2:618084/1‑100 (MQ=255)
cgccgcTGTGGATAGGACAAGATGGCGTGGAAATAATCGGTCGACTGCGTTCCGGGCCGTAACTGTGCCAAATCTACCGTCATGCTGACCGGTAAACCaa < 1:669438/100‑1 (MQ=255)
cgccgcTGTGGATAGGACAAGATGGCGTGGAAATAATCGGTCGACTGCGTTCCGGGCCGTAACTGTGCCAAATCTACCGTCATGCTGACCGGTAAACCaa > 2:175736/1‑100 (MQ=255)
cgccgcTGTGGATAGGACAAGATGGCGTGGAAATAATCGGTCGACTGCGTTCCGGGCCGTAACTGTGCCAAATCTACCGACATGCTGACCGGTAAACCaa < 2:799455/100‑1 (MQ=255)
ggATAGGACAAGATGGCGTGGAAATAATCGGTCGACTGCGTTCCGGGCCGTAACTGTGCCAAATCTACCGTCATGCTGACCGGTAAACCAAAAAGCGTaa > 2:436811/1‑100 (MQ=255)
ggATAGGACAAGATGGCGTGGAAATAATCGGTCGACTGCGTTCCGGGCCGTAACTGTGCCAAATCTACCGTCATGCTGACCGGTAAACCAAAAAGCGTa > 2:284897/1‑99 (MQ=255)
ggACAAGATGGCGTGGAAATAATCGGTCGACTGCGTTCCGGGCCGTAACTGTGCCAAATCTACCGTCATGCTGACCGGTAAACCAAAAAGCGTAATGGcc > 1:382879/1‑100 (MQ=255)
ggACAAGATGGCGTGGAAATAATCGGTCGACTGCGTTCCGGGCCGTAACTGTGCCAAATCTACCGTCATGCTGACCGGTAAACCAAAAAGCGTAATGGcc > 2:939136/1‑100 (MQ=255)
ggACAAGATGGCGTGGAAATAATCGGTCGACTGCGTTCCGGGCCGTAACTGTGCCAAATCTACCGCCATGCTGACCGGTAAACCAAAAAGCGTAATGGcc < 2:682840/100‑1 (MQ=255)
aCAAGATGGCGGGGAAATAAACGGTCGACTGCGCTCCGAACCGTAACTTTGCCAAATCTACCGTCATGCTAAAAAAAAAAAAAAAAAGCGTAATGGcc < 2:1278041/98‑1 (MQ=255)
aGATGGCGTGGAAATAATCGGTCGACTGCGTTCCGGGCCGTAACTGTGCCAAATCTACCGTCATGCTGACCGGTAAACCAAAAAGCGTAATGGCCTGATc < 1:338125/100‑1 (MQ=255)
aGATGGCGTGGAAATAATCGGTCGACTGCGTTCCGGGCCGTAACTGTGCCAAATCTACCGTCATGCTGACCGGTAAACCAAAAAGCGTAATGGCCTGATc < 1:357915/100‑1 (MQ=255)
ggCGTGGAAATAATCGGTCGACTGCGTTCCGGGCCGTAACTGTGCCAAATCTACCGTCATGCTGACCGGTAAACCAAAAAGCGTAATGGCCTGATCaaga < 2:1196285/100‑1 (MQ=255)
aataatCGGTCGACTGCGTTCCGGGCCGTAACTGTGCCAAATCTACCGTCATGCTAAAAAAAAAAAAAAAAAGCGTAATGGCCTGATCAAGAAGATgtgg < 2:674987/100‑1 (MQ=255)
ataatCGGTCGACTGCGTTCCGGGCCGTAACTGTGCCAAATCTACCGTCATGCTGAAAAAAAAAAAAAAAAGCGTAATGGCCTGATCAAGAAGATgtggt < 2:116545/100‑1 (MQ=255)
aatCGGTCGACTGCGTTCCGGGCCGTAACTGTGCCAAATCTACCGTCATGCTGACCGGTAAACCAAAAAGCGTAATGGCCTGATCAAGAAGATGTGGTGc < 2:817156/100‑1 (MQ=255)
atCGGTCGACTGCGTTCCGGGCCGTAACTGTGCCAAATCTACCGTCATGCTGACCGGTAAACCAACAAGCGTAATGGCCTGATCAAGAAGATGTGGTGCt > 2:427934/1‑100 (MQ=255)
atCGGTCGACTGCGTTCCGGGCCGTAACTGTGCCAAATCTACCGTCATGCTGACCGGTAAACCAAAAAGCGTAATGGCCTGATCAAGAAGATGTGGTGCt < 2:185543/100‑1 (MQ=255)
tCGACTGCGTTCCGGGCCGTAACTGTGCCAAATCTACCGTCATGCTGACCGGTAAACCAAAAAGCGTAATGGCCTGATCAAGAAGATGTGGTGCTAAATc > 2:1027033/1‑100 (MQ=255)
cGACTGCGTTCCGGGCCGTAACTGTGCCAAATCTACCGTCATGCTGAAAAAAAAAAAAAAAAGCGTAATGGCCTGATCAAGAAGATGTGGTGCTAAATCg < 2:1250201/100‑1 (MQ=255)
aCTGCGTTCCGGGCCGTAACTGTGCCAAATCTACCGTCATGCTGACCGGTAAACCAAAAAGCGTAATGGCCTGATCAAGAAGATGTGGTGCTAAATCGTa > 2:1224894/1‑100 (MQ=255)
gcgtTCCGGGCCGTAACTGTGCCAAATCTACCGTCATGCTGACCGGTAAACCAAAAAGCGTAATGGCCTGATCAAGAAGATGTGGTGCTAAATCGTACCa > 1:401669/1‑100 (MQ=255)
|
TACCGTGCTGACTCAGCGGCTGCCAGCATGGTACCGTGTAAAATGACTCGCCGCTGTGGATAGGACAAGATGGCGTGGAAATAATCGGTCGACTGCGCTCCGGGCCGTAACTGTGCCAAATCTACCGTCATGCTGACCGGTAAACCAAAAAGCGTAATGGCCTGATCAAGAAGATGTGGTGCTAAATCGTACCA > NC_000913/1703596‑1703789
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
