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 F3 I0 R2
|
260 |
44.3 |
3360226 |
90.5% |
3041004 |
64.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,587,198 |
C→T |
29.6% |
E840K (GAA→AAA) |
polA ← |
fused DNA polymerase I 5'‑>3' exonuclease, 3'‑>5' polymerase and 3'‑>5' exonuclease |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,587,198 | 0 | C | T | 29.6%
| 76.3
/ 39.9
| 54 | E840K (GAA→AAA) | polA | fused DNA polymerase I 5'‑>3' exonuclease, 3'‑>5' polymerase and 3'‑>5' exonuclease |
| Reads supporting (aligned to +/- strand): ref base C (16/22); new base T (13/3); total (29/25) |
| Fisher's exact test for biased strand distribution p-value = 1.54e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.69e-01 |
CGTTTGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATACAGACGG > W3110S.gb/3587143‑3587253
|
cGTTTGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCacgacg < 1:2655107/71‑1 (MQ=255)
cGTTTGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCacgacg < 1:3165804/71‑1 (MQ=255)
cGTTTGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCacgacg < 1:148984/71‑1 (MQ=255)
aaTGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCAt > 1:96731/1‑71 (MQ=255)
aaTGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCAt > 1:2420021/1‑71 (MQ=255)
aaTGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCAt > 1:2388737/1‑71 (MQ=255)
aaTGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCAt > 1:2812382/1‑71 (MQ=255)
aaTGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACCTTTAGCCGCTGCACGACGAGCACCAt > 1:1878073/1‑71 (MQ=255)
tCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCt > 1:1713566/1‑71 (MQ=255)
gcggTTCCCTGCATTGGCGCGTTAATGGCTGCATGTTTAGCCGCTGCACGACGAGCACCATTGCTGGAttt < 1:3331224/71‑1 (MQ=255)
cggTTCCCTGCATTGGCGCGTTAATGGCTGCATGTTTAGCCGCTGCACGACGAGCACCATTGCTGGAttt < 1:3254718/70‑1 (MQ=255)
cggTTCCCTGCATTGGCGCGTTAATGGCTGCATGTTTAGCCGCTGCACGACGAGCACCATTGCTGGAttt < 1:3106709/70‑1 (MQ=255)
gTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGat < 1:3078920/71‑1 (MQ=255)
gTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGat < 1:1374536/71‑1 (MQ=255)
gTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGat < 1:371677/71‑1 (MQ=255)
gTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGat < 1:835900/71‑1 (MQ=255)
gCATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCgg > 1:986708/1‑70 (MQ=255)
gCATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCgg > 1:3354573/1‑70 (MQ=255)
gCATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCgg > 1:2980757/1‑70 (MQ=255)
gCATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCgg > 1:2974520/1‑70 (MQ=255)
gCATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCgg > 1:2695523/1‑70 (MQ=255)
gCATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCgg > 1:2689880/1‑70 (MQ=255)
gCATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCgg > 1:261498/1‑70 (MQ=255)
gCATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCgg > 1:389216/1‑70 (MQ=255)
gCATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCgg > 1:2493317/1‑70 (MQ=255)
gCATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCgg > 1:2449954/1‑70 (MQ=255)
gCATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCgg > 1:2283367/1‑70 (MQ=255)
gCATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCgg > 1:2159046/1‑70 (MQ=255)
gCATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCgg > 1:1353648/1‑70 (MQ=255)
gCATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCgg > 1:2139533/1‑70 (MQ=255)
gCATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCgg > 1:1475278/1‑70 (MQ=255)
ggCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGATTTGata > 1:48861/1‑60 (MQ=255)
ggCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGATTTGata > 1:512304/1‑60 (MQ=255)
ggCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGATTTGata > 1:556275/1‑60 (MQ=255)
ggCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGATTTGata > 1:827062/1‑60 (MQ=255)
ggCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGATTTGata > 1:1691730/1‑60 (MQ=255)
ggCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGATTTGata > 1:894478/1‑60 (MQ=255)
ggCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGATTTGata > 1:2114523/1‑60 (MQ=255)
ggCGCGTTAATGGCTGCACGTTTAGCCGCAGCacgacg > 1:1986342/1‑38 (MQ=37)
cgcgTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTTGATTTGATATCCGGCAGATACa < 1:1194502/71‑1 (MQ=255)
cgcgTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATACa < 1:939067/71‑1 (MQ=255)
cgcgTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATACa < 1:1111391/71‑1 (MQ=255)
cgcgTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATACa < 1:2317816/71‑1 (MQ=255)
cgcgTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATACa < 1:1424557/71‑1 (MQ=255)
cgcgTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATACa < 1:1471950/71‑1 (MQ=255)
cgcgTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATACa < 1:3063704/71‑1 (MQ=255)
cgcgTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATACa < 1:214721/71‑1 (MQ=255)
cgcgTTAATGGCGGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATACa < 1:1986372/71‑1 (MQ=255)
gcgTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATACa < 1:67593/70‑1 (MQ=255)
aaTGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATACAGACgg < 1:1350500/70‑1 (MQ=255)
aaTGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATACAGACgg < 1:539913/70‑1 (MQ=255)
aaTGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATACAGACgg < 1:1666412/70‑1 (MQ=255)
aaTGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATACAGACgg < 1:1010906/70‑1 (MQ=255)
aTGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATACAGACgg < 1:2948281/69‑1 (MQ=255)
|
CGTTTGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATACAGACGG > W3110S.gb/3587143‑3587253
|
| 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
