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 |
|
A2 F3 I0 R2
|
232 |
76.3 |
4135488 |
90.9% |
3759158 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
880,753 |
G→A |
51.1% |
intergenic (+72/‑122) |
yciM → / → pyrF |
conserved hypothetical protein/orotidine‑5'‑phosphate decarboxylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 880,753 | 0 | G | A | 51.1%
| ‑6.2
/ 66.4
| 45 | intergenic (+72/‑122) | yciM/pyrF | conserved hypothetical protein/orotidine‑5'‑phosphate decarboxylase |
| Reads supporting (aligned to +/- strand): ref base G (15/7); new base A (11/12); total (26/19) |
| Fisher's exact test for biased strand distribution p-value = 2.31e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.44e-01 |
TTTAAAAAAAATCCGACTTTAGTTACAACATACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCACGGGTAGAATGCTCGC > minE/880684‑880822
|
tttAAAAAAAATCCGACTTTAGTTACAACATACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGgc > 1:6679/1‑71 (MQ=255)
tttAAAAAAAATCCGACTTTAGTTACAACATACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGgc > 1:720363/1‑71 (MQ=255)
tttAAAAAAAATCCGACTTTAGTTACAACATACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGgc > 1:2532717/1‑71 (MQ=255)
tttAAAAAAAATCCGACTTTAGTTACAACATACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGgc > 1:3992169/1‑71 (MQ=255)
aaaTCCGACTTTAGTTACAACATACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGGCGCAGaaaa < 1:2650354/71‑1 (MQ=255)
tCCGACTTTAGTTACAACATACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGGCGCAGAAAAAGc < 1:686069/71‑1 (MQ=255)
tCCGACTTTAGTTACAACATACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGACGCAGAAAAAGc < 1:891489/71‑1 (MQ=255)
cTTTAGTTACAACATACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGGCGCAGAAAAAGCCTGcc < 1:915358/71‑1 (MQ=255)
cTTTAGTTACAACATACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGACGCAGAAAAAGCCTGcc < 1:137728/71‑1 (MQ=255)
tAGTTACAACATACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAg < 1:1181153/70‑1 (MQ=255)
caacaTACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGACGCAGAAAAAGCCTGCCAGGGgaga < 1:1864385/70‑1 (MQ=255)
caacaTACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGACGCAGAAAAAGCCTGCCAGGGgaga < 1:408269/70‑1 (MQ=255)
aacaTACTAATTATTAATGTTCCGTTGTGCTCCGGCAACGACGACGCAGAAAAAGCCTGCCAGGGGAGaaa > 1:4045672/1‑71 (MQ=255)
tACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGc < 1:2730455/71‑1 (MQ=255)
cTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCaa > 1:3902355/1‑71 (MQ=255)
cTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCaa > 1:193302/1‑71 (MQ=255)
cTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCaa > 1:1636740/1‑71 (MQ=255)
ttattaATGTTCCATTGTGCTCCGGCAACGACGACGCAGaa < 1:547236/41‑1 (MQ=255)
ttattaATGTTCCATTGTGCTCCGGCAACGACGACGCAGaa < 1:3135587/41‑1 (MQ=255)
ttattaATGTTCCATTGTGCTCCGGCAACGACGACGCAGAAAAAGCCTGCCAGGGgaga < 1:2655695/59‑1 (MQ=255)
ttattaATGTTCCATTGTGCTCCGGCAACGACGACGCAGAAAAAGCCTGCCAGGGgaga < 1:3866670/59‑1 (MQ=255)
ttattaATGTTCCATTGTGCTCCGGCAACGACGACGCAGAAAAAGCCTGCCAGGGGAGAAATCGc < 1:3344099/65‑1 (MQ=255)
attaATGTTCCATTGTGCTCCGGCAACGACGACGCAGaaaa > 1:914953/1‑41 (MQ=255)
attaATGTTCCATTGTGCTCCGGCAACGACGACGCAGaaaa > 1:3653553/1‑41 (MQ=255)
attaATGTTCCATTGTGCTCCGGCAACGACGACGCAGaaaa > 1:1929480/1‑41 (MQ=255)
attaATGTTCCATTGTGCTCCGGCAACGACGACGCAGaaaa > 1:2060598/1‑41 (MQ=255)
taATGTTCCATTGTGCTCCGGCAACGACGACGCAGAAAAAGCCTGCCAGGGGAGAAATCGc < 1:431435/61‑1 (MQ=255)
aTGTTCCATTGTGCTCCGGCAACGACGACGCAGAAAAAGCCTGCCAGGGGAGAAATCGCaa > 1:685277/1‑61 (MQ=255)
aTGTTCCATTGTGCTCCGGCAACGACGACGCAGAAAAAGCCTGCCAGGGGAGAAATCGCaa > 1:1090347/1‑61 (MQ=255)
aTGTTCCATTGTGCTCCGGCAACGACGACGCAGAAAAAGCCTGCCAGGGGAGAAATCGCaa > 1:752537/1‑61 (MQ=255)
aTGTTCCATTGTGCTCCGGCAACGACGACGCAGAAAAAGCCTGCCAGGGGAGAAATCGCaa > 1:542723/1‑61 (MQ=255)
tGTTCCATTGTGCTCCGGCAACGACGACGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAAtttt > 1:1178124/1‑71 (MQ=255)
tGTTCCATTGTGCTCCGGCAACGACGACGCAGAAAAAGCCTGCCA‑GGGAGAAATCGCAACTGTTAAttttt > 1:50430/1‑71 (MQ=255)
ttCCATTGTGCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCaa > 1:2101127/1‑58 (MQ=255)
ttCCATTGTGCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCaa > 1:3008136/1‑58 (MQ=255)
ccATTGTGCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTAt > 1:2194931/1‑71 (MQ=255)
aTTGTGCTCCGGCAACGACGACGCAGAAAAAGCCTGcc < 1:746297/38‑1 (MQ=255)
ttGTGCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGc < 1:430226/51‑1 (MQ=255)
ttGTGCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGt < 1:1969786/57‑1 (MQ=255)
tgtgCTCCGGCAACGACGACGCAGAAAAAGCCTGcc < 1:3320028/36‑1 (MQ=255)
gtgCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCa > 1:924570/1‑71 (MQ=255)
gtgCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCa > 1:925021/1‑71 (MQ=255)
gtgCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCa > 1:4080046/1‑71 (MQ=255)
gtgCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCa > 1:3122385/1‑71 (MQ=255)
gtgCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCa > 1:1221110/1‑71 (MQ=255)
gacgGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCaa > 1:2281718/1‑38 (MQ=255)
gacgGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCACg > 1:3263852/1‑60 (MQ=255)
gacgGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCACg > 1:2522280/1‑60 (MQ=255)
gacgGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCACGGGTAGAATGCt > 1:3520444/1‑71 (MQ=255)
ggCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCACGGGTAGAATGCTCGc < 1:619196/71‑1 (MQ=255)
|
TTTAAAAAAAATCCGACTTTAGTTACAACATACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCACGGGTAGAATGCTCGC > minE/880684‑880822
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
