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 |
|
A5 F28 I2 R2
|
154 |
32.4 |
3140800 |
76.4% |
2399571 |
54.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,492,265 |
T→C |
N141S (AAC→AGC) |
pflD ← |
predicted formate acetyltransferase 2 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,492,265 | 0 | T | C | 79.0%
| 34.8
/ 4.5
| 19 | N141S (AAC→AGC) | pflD | predicted formate acetyltransferase 2 |
| Reads supporting (aligned to +/- strand): ref base T (4/0); new base C (15/0); total (19/0) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.72e-01 |
CCTTTATCCGTCTGGTTGATGCTGAAAATCTGCGTGTTGGTCGCGGCTTTTACTTCATCTGTCATCTGCCCGTTGATGAAATCTTTCATCGAACGTTT > W3110S.gb/3492229‑3492326
|
ccTTTATCCGTCTGGTTGATGCTGAAAATCTGCGTGTTGGTCGCGGCTTTTACTtcatctgt > 1:1182514/1‑62 (MQ=255)
ccTTTATCCGTCTGGTTGATGCTGAAAATCTGCGTGTTGGTCGCGGCTTTTACTtcatctgt > 1:2727839/1‑62 (MQ=255)
ccTTTATCCGTCTGGTTGATGCTGAAAATCTGCGTGTTGGTCGCGGCTTTTACTtcatctgt > 1:2409100/1‑62 (MQ=255)
tttATCCGTCTGGTTGATGCTGAAAATCTGCGTGCTGGt > 1:1058747/1‑39 (MQ=255)
tttATCCGTCTGGTTGATGCTGAAAATCTGCGTGCTGGTCGCGGCTTTTACTtcatccgtca > 1:2330028/1‑62 (MQ=255)
tttATCCGTCTGGTTGATGCTGAAAATCTGCGTGCTGGTCGCGGCTTTTACTtcatccgtca > 1:677532/1‑62 (MQ=255)
tttATCCGTCTGGTTGATGCTGAAAATCTGCGTGCTGGTCGCGGCTTTTACTtcatccgtca > 1:567028/1‑62 (MQ=255)
tttATCCGTCTGGTTGATGCTGAAAATCTGCGTGCTGGTCGCGGCTTTTACTtcatccgtca > 1:2950912/1‑62 (MQ=255)
tttATCCGTCTGGTTGATGCTGAAAATCTGCGTGCTGGTCGCGGCTTTTACTtcatccgtca > 1:2571529/1‑62 (MQ=255)
tttATCCGTCTGGTTGATGCTGAAAATCTGCGTGCTGGTCGCGGCTTTTACTtcatccgtca > 1:2533071/1‑62 (MQ=255)
tttATCCGTCTGGTTGATGCTGAAAATCTGCGTGCTGGTCGCGGCTTTTACTtcatccgtca > 1:223447/1‑62 (MQ=255)
tttATCCGTCTGGTTGATGCTGAAAATCTGCGTGCTGGTCGCGGCTTTTACTtcatccgtca > 1:1892763/1‑62 (MQ=255)
tttATCCGTCTGGTTGATGCTGAAAATCTGCGTGCTGGTCGCGGCTTTTACTtcatccgtca > 1:1673396/1‑62 (MQ=255)
tttATCCGTCTGGTTGATGCTGAAAATCTGCGTGCTGGTCGCGGCTTTTACTtcatccgtca > 1:1487340/1‑62 (MQ=255)
tttATCCGTCTGGTTGATGCTGAAAATCTGCGTGCTGGTCGCGGCTTTTACTtcatccgtca > 1:1330595/1‑62 (MQ=255)
tttATCCGTCTGGTTGATGCTGAAAATCTGCGTGCTGGTCGCGGCTTTTACTtcatccgtca > 1:1293150/1‑62 (MQ=255)
tttATCCGTCTGGTTGATGCTGAAAATCTGCGTGCTGGTCGCGGCTTTTACTtcatccgtc > 1:2970772/1‑61 (MQ=255)
tttATCCGTCTGGTTGATGCTGAAAATCTGCGTGCTGGTCGCGGCTTTTACTtcatccgtc > 1:3081581/1‑61 (MQ=255)
tGCTGAAAATCTGCGTGTTGGTCGCGGCTTTTACTTCATCTGTCATCTGCCCGTTGATGaaa > 1:1420891/1‑62 (MQ=255)
tgtTGGTCGCGGCTTTTACTTCATCTGTCATCTGCCCGTTGATGAAATCTTTCATCGAACGt < 1:1052102/62‑1 (MQ=255)
tgtTGGTCGCGGCTTTTACTTCATCTGTCATCTGCCCGTTGATGAAATCTTTCATCGAACGt < 1:2036173/62‑1 (MQ=255)
gtTGGGCGCGGCTTTTACTTCATCTGTCATCTGCCCGTTGATGAAATCTTTCATCGAACGt < 1:985394/61‑1 (MQ=255)
ttGGTCGCGGCTTTTACTTCATCTGTCATCTGCCCGTTGATGAAATCTTTCATCGAACGttt < 1:2056889/62‑1 (MQ=255)
ttGGTCGCGGCTTTTACTTCATCTGTCATCTGCCCGTTGATGAAATCTTTCATCGAACGttt < 1:2424442/62‑1 (MQ=255)
ttGGTCGCGGCTTTTACTTCATCTGTCATCTGCCCGTTGATGAAATCTTTCATCGAACGttt < 1:777740/62‑1 (MQ=255)
|
CCTTTATCCGTCTGGTTGATGCTGAAAATCTGCGTGTTGGTCGCGGCTTTTACTTCATCTGTCATCTGCCCGTTGATGAAATCTTTCATCGAACGTTT > W3110S.gb/3492229‑3492326
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
