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 F21 I0 R1
|
476 |
35.3 |
2812105 |
96.7% |
2719305 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,587,844 |
T→C |
68.2% |
P624P (CCA→CCG) |
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 | 3,587,844 | 0 | T | C | 68.2%
| 58.5
/ 34.9
| 44 | P624P (CCA→CCG) | polA | fused DNA polymerase I 5'‑>3' exonuclease, 3'‑>5' polymerase and 3'‑>5' exonuclease |
| Reads supporting (aligned to +/- strand): ref base T (3/11); new base C (14/16); total (17/27) |
| Fisher's exact test for biased strand distribution p-value = 1.84e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.06e-01 |
AGCGGCAGCTTGTCGGTGTAGGTCGATTTCAGCTTCGCCAGACCACGATACTCCAGAATCACTTTTGGCAACGGATAGTCCAGCGCCAGTTCTTCCAGTACCTCTTCCGACGTTGACGGCGCGCCACCC > W3110S.gb/3587779‑3587907
|
aGCGGCAGCTTGTCGGTGTAGGTCGATTTCAGCTTCGCCAGACCACGATACTCCAGAATCACTTTCGGCaa > 1:520185/1‑71 (MQ=255)
cGGCAGCTTGTCGGTGTAGGTCGATTTCAGCTTCGCCAGACCACGATACTCCAGAATCACTTTCGGCAACg < 1:193437/71‑1 (MQ=255)
gCAGCTTGTCGGTGTAGGTCGATTTCAGCTTCGCCAGACCACGATACTCCAGAATCACTTTTGGCAACGGa < 1:1421795/71‑1 (MQ=255)
gCAGCTTGTCGGTGTAGGTCGATTTCAGCTTCGCCAGACCACGATACTCCAGAATCACTTTCGGCAACGGa < 1:114500/71‑1 (MQ=255)
gCAGCTTGTCGGTGTAGGTCGATTTCAGCTTCGCCAGACCACGATACTCCAGAATCACTTTCGGCAACGGa < 1:2170662/71‑1 (MQ=255)
aGCTTGTCGGTGTAGGTCGATTTCAGCTTCGCCAGACCACGATACTCCAGAATCACTTTCGGCAACGGa > 1:683873/1‑69 (MQ=255)
gCTTGTCGGTGTAGGTCGATTTCAGCTTCGCCAGACCACGATACTCCAGAATCACTTTCGGCAACGGATAg < 1:1349635/71‑1 (MQ=255)
ttGTCGGTGTAGGTCGATTTCAGCTTCGCCAGACCACGATACTCCAGAATCACTTTCGGCAACGGATAGTc > 1:340237/1‑71 (MQ=255)
tGTCGGTGTAGGTCGATTTCAGCTTCGCCAGACCACGATACTCCAGAATCACTTTCGGCAACGGATAGt > 1:2373899/1‑69 (MQ=255)
tGTCGGTGTAGGTCGATTTCAGCTTCGCCAGACCACGATACTCCAGAATCACTTTCGGCAACGGATAGTc > 1:942946/1‑70 (MQ=255)
tGTCGGTGTAGGTCGATTTCAGCTTCGCCAGACCACGATACTCCAGAATCACTTTCGGCAACGGATAGTc > 1:2344059/1‑70 (MQ=255)
tgtAGGTCGATTTCAGCTTCGCCAGACCACGATACTCCAGAATCACTTTCGGCAACGGATAGTCCAGCGcc < 1:2609674/71‑1 (MQ=255)
tgtAGGTCGATTTCAGCTTCGCCAGACCACGATACTCCAGAATCACTTTCGGCAACGGATAGTCCAGCGcc < 1:919607/71‑1 (MQ=255)
tAGGTCGATTTCAGCTTCGCCAGACCACGATACTCCAGAATCACTTTCGGCAACGGATAGTcc < 1:704331/63‑1 (MQ=255)
ggTCGATTTCAGCTTCGCCAGACCACGATACTCCAGAATCACTTTTGGCAACGGATAGTCCAGCGCCAGt < 1:591778/70‑1 (MQ=255)
ggTCGATTTCAGCTTCGCCAGACCACGATACTCCAGAATCACTTTCGGCAACGGATAGTCCAGCGCCAGt < 1:2365508/70‑1 (MQ=255)
tCGATTTCAGCTTCGCCAGACCACGATACTCCAGAATCACTTTCGGCAACGGATAGTCCAGCGCCAGttct < 1:1970447/71‑1 (MQ=255)
cGATTTCAGCTTCGCCAGACCACGATACTCCAGAATCACTTTCGGCAACGGATAGTCCAGCGCCAGttctt > 1:860053/1‑71 (MQ=255)
aTTTCAGCTTCGCCAGACCACGATACTCCAGAATCACTTTTGGCAACGGa < 1:1934938/50‑1 (MQ=255)
tttCAGCTTCGCCAGACCACGATACTCCAGAATCACTTTTGGCAACGGATAg < 1:434826/52‑1 (MQ=255)
tttCAGCTTCGCCAGACCACGATACTCCAGAATCACTTTCGGCAACGGa < 1:2096140/49‑1 (MQ=255)
ttCAGCTTCGCCAGACCACGATACTCCAGAATCACTTTCGGCAACGGATAGTCCAGCGCCAGTTCTTCCAg > 1:1176360/1‑71 (MQ=255)
tCAGCTTCGCCAGACCACGATACTCCAGAATCACTTTTGGCAACGGATAGTCCAGCGCCAGTTCTTCCAg > 1:1589482/1‑70 (MQ=255)
tCAGCTTCGCCAGACCACGATACTCCAGAATCACTTTTGGCAACGGATAGTCCAGCGCCAGTTCTTCCAg < 1:296899/70‑1 (MQ=255)
tCAGCTTCGCCAGACCACGATACTCCAGAATCACTTTCGGCAACGGATa > 1:1066302/1‑49 (MQ=255)
cAGCTTCGCCAGACCACGATACTCCAGAATCACTTTCGGCAACGGATAGTCCAGCGCCAGTTCTTCCAGt < 1:2260121/70‑1 (MQ=255)
gCTTCGCCAGACCACGATACTCCAGAATCACTTTTGGCAACGGATAGTCCAGCGCCAGTTCTTCCAGTAcc < 1:1973404/71‑1 (MQ=255)
cTTCGCCAGACCACGATACTCCAGAATCACTTTCGGCAACGGATAGTCCAGCGCCAGTTCTTCCAGt < 1:2713793/67‑1 (MQ=255)
ttCGCCAGACCACGATACTCCAGAATCACTTTTGGCAACGGa < 1:2416231/42‑1 (MQ=255)
ttCGCCAGACCACGATACTCCAGAATCACTTTTGGCAACGGa < 1:431636/42‑1 (MQ=255)
tCGCCAGACCACGATACTCCAGAATCACTTTCGGCAACGGATa > 1:1059863/1‑43 (MQ=255)
tCGCCAGACCACGATACTCCAGAATCACTTTCGGCAACGGATa > 1:901999/1‑43 (MQ=255)
tCGCCAGACCACGATACTCCAGAATCACTTTCGGCAACGGATa > 1:2798258/1‑43 (MQ=255)
cACGATACTCCAGAATCACTTTCGGCAACGGATAGTCCAGCGCCAGTTCTTCCAGTACCTCTTCCGACGtt < 1:2547103/71‑1 (MQ=255)
aCTCCAGAATCACTTTTGGCAACGGATAGTCCATCGCCAGTTCTTCCa > 1:1654097/1‑48 (MQ=255)
aCTCCAGAATCACTTTTGGCAACGGATAGTCCAGCGCCAGTTCTTCCa > 1:2175614/1‑48 (MQ=255)
cTCCAGAATCACTTTTGGCAACGGATAGTCCAGCGCCAGTTCTTCCAGTACCTCTTCCGACGTTGACGgc < 1:841334/70‑1 (MQ=255)
tCCAGAATCACTTTTGGCAACGGATAGTCCAGCGCCAGt < 1:471895/39‑1 (MQ=255)
ccAGAATCACTTTCGGCAACGGATAGTCCAGCGCCAGttcttc > 1:1228804/1‑43 (MQ=255)
cAGAATCACTTTCGGCAACGGATAGTCCAGCGCCAGTTCTTCCAGTACCTCTTCCGACGTTGACGgcgcgc < 1:728146/71‑1 (MQ=255)
cAGAATCACTTTCGGCAACGGATAGTCCAGCGCCAGTTCTTCCAGTACCTCTTCCGACGTTGACGgcgcgc < 1:1625034/71‑1 (MQ=255)
gAATCACTTTTGGCAACGGATAGTCCAGCGCCAGTTCTTCCAGTAcc < 1:682944/47‑1 (MQ=255)
gAATCACTTTCGGCAACGGATAGTCCAGCGCCAGTTCTTCCAGTACCTCTTCCGACGTTGACGGCGCGCCa < 1:2736430/71‑1 (MQ=255)
tCACTTTCGGCAACGGATAGTCCAGCGCCAGTTCTTCCAGTACCTCTTCCGACGTTGACGGCGCGCCAccc > 1:2145487/1‑71 (MQ=255)
|
AGCGGCAGCTTGTCGGTGTAGGTCGATTTCAGCTTCGCCAGACCACGATACTCCAGAATCACTTTTGGCAACGGATAGTCCAGCGCCAGTTCTTCCAGTACCTCTTCCGACGTTGACGGCGCGCCACCC > W3110S.gb/3587779‑3587907
|
| 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
