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 F17 I0 R1
|
87 |
56.5 |
4283937 |
98.6% |
4223961 |
62.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,332,615 |
T→A |
10.2% |
intergenic (‑25/+102) |
yhbE ← / ← rpmA |
conserved inner membrane protein/50S ribosomal subunit protein L27 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,332,615 | 0 | T | A | 10.2%
| 155.8
/ 10.2
| 59 | intergenic (‑25/+102) | yhbE/rpmA | conserved inner membrane protein/50S ribosomal subunit protein L27 |
| Reads supporting (aligned to +/- strand): ref base T (27/26); new base A (2/4); total (29/30) |
| Fisher's exact test for biased strand distribution p-value = 6.71e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.95e-01 |
TGGTGAGCGCCAAAAGAATGCCAATGCCTGCCTGCTGCTTCATACCGTATTCCCTGCAAAGCGCATTTGCGGATTAACGTCGCACCATGCGCATTTTTACCGGTTATCGAATGTAAAAAGCCCCGCAACGTGTTGCG > W3110S.gb/3332548‑3332684
|
tggtgAGCGCCAAAAGAATGCCAATGCCTGCCTGCTGCTTCATACCGTATTCCCTGCAAAGCGTATTTg < 1:1256846/69‑1 (MQ=255)
tggtgAGCGCCAAAAGAATGCCAATGCCTGCCTGCTGCTTCATACCGTATTCCCTGCAAAGCGCATTTGCg > 1:3113756/1‑71 (MQ=255)
tggtgAGCGCCAAAAGAATGCCAATGCCTGCCTGCTGCTTCATACCGTATTCCCTGCAAAGCGCATTTGCg < 1:2345907/71‑1 (MQ=255)
tggtgAGCGCCAAAAGAATGCCAATGCCTGCCTGCTGCTTCATACCGTATTCCCTGCAAAGCGCATTAGCg < 1:3096505/71‑1 (MQ=255)
aGCGCCAAAAGAATGCCAATGCCTGCCTGCTGCTTCATACCGTATTCCCTGCAAAGCGCATTTGCGGAtt < 1:486623/70‑1 (MQ=255)
aGCGCCAAAAGAATGCCAATGCCTGCCTGCTGCTTCATACCGTATTCCCTGCAAAGCGCATTTGCGGATTa < 1:2940664/71‑1 (MQ=255)
aGCGCCAAAAGAATGCCAATGCCTGCCTGCTGCTTCATACCGTATTCCCTGCAAAGCGCATTTGCGGATTa < 1:2377492/71‑1 (MQ=255)
aGCGCCAAAAGAATGCCAATGCCTGCCTGCAGCTTCATACCGTATTCCCTGCAAAGCGCATTTGCGGAtt > 1:181026/1‑70 (MQ=255)
gcgcCAAAAGAATGCCAATGCCTGCCTGCTGCTTCATACCGTATTCCCTGCAAAGCGCATTTGCg > 1:1096682/1‑65 (MQ=255)
cgcCAAAAGAATGCCAATGCCTGCCTGCTGCTTCATACCGTATTCCCTGCAAAGCGCATTTGCGGATTAAc > 1:4239466/1‑71 (MQ=255)
cAAAAGAATGCCAATGCCTGCCTGCTGCTTCATACCGTATTCCCTGCAAAGCGCATTTGCg < 1:535730/61‑1 (MQ=255)
cAAAAGAATGCCAATGCCTGCCTGCTGCTTCATACCGTATTCCCTGCAAAGCGCATTTGCg < 1:2993129/61‑1 (MQ=255)
cAAAAGAATGCCAATGCCTGCCTGCTGCTTCATACCGTATTCCCTGCAAAGCGCATTTGCGGATTAACGTc > 1:909873/1‑71 (MQ=255)
cAAAAGAATGCCAATGCCTGCCTGCTGCTTCATACCGTATTCCCTGCAAAGCGCATTTGCGGATTAACGTc > 1:368075/1‑71 (MQ=255)
cAAAAGAATGCCAATGCCTGCCTGCTGCTTCATACCGTATTCCCTGCAAAGCGCATTTGCGGATTAACGTc < 1:2280380/71‑1 (MQ=255)
cAAAAGAATGCCAATGCCTGCCTGCTGCTTCATACCGTATTCCCTGCAAAGCGCATTAGCGGATTAACGt < 1:3935389/70‑1 (MQ=255)
aaaaGAATGCCAATGCCTGCCTGCTGCTTCATACCGTATTCCCTGCAAAGCGCATTTGCg > 1:3440685/1‑60 (MQ=255)
aaaGAATGCCAATGCCTGCCTTCTGCTTCATACCGTATTCCCTGCAAAGCGCATTTGCg < 1:610092/59‑1 (MQ=255)
aaaGAATGCCAATGCCTGCCTGCTGCTTCATACCGTATTCCCTGCAAAGCGCATTTGCGGa < 1:2895123/61‑1 (MQ=255)
aaaGAATGCCAATGCCTGCCTGCTGCTTCATACCGTATTCCCTGCAAAGCGCATTTGCGGATTAACGTCg > 1:3661858/1‑70 (MQ=255)
aaaGAATGCCAATGCCTGCCTGCTGCTTCATACCGTATTCCCTGCAAAGCGCATTAGCGGATTAACGTCg > 1:1685255/1‑70 (MQ=255)
aaGAATGCCAATGCCTGCCTGCTGCTTCATACCGTATTCCCTGCAAAGCGCATTTGCGGATTAACGTCGc > 1:3337297/1‑70 (MQ=255)
aatgccaatgccTGCCTGCTGCTTCATACCGTATTCCCTGCAAAGCGCATTTGCGGATTAACGTCGCACCa > 1:1712114/1‑71 (MQ=255)
aatgccTGCCTGCTGCTTCATACCGTATTCCCTGCAAAGCGCATTTGCGGATTAACGTCGCACCATGCGCa > 1:2660691/1‑71 (MQ=255)
aatgccTGCCTGCTGCTTCATACCGTATTCCCTGCAAAGCGCATTTGCGGATTAACGTCGCACCATGCGCa < 1:1849985/71‑1 (MQ=255)
atgccTGCCTGCTGCTTCATACCGTATTCCCTGCAAAGCGCATTTGCGGATTAACGTCGCACCATGCGCAt > 1:2031929/1‑71 (MQ=255)
tgcctgccTGCTGCTTCATACCGTATTCCCTGCAAAGCGCATTTg < 1:3211375/45‑1 (MQ=255)
gcctgcctGCTGCTTCATACCGTATTCCCTGCAAAGCGCATTTGc > 1:578543/1‑45 (MQ=255)
cctgcctgCTGCTTCATACCGTATTCCCTGCAAAGCGCATTTGc > 1:644329/1‑44 (MQ=255)
cctgcctgCTGCTTCATACCGTATTCCCTGCAAAGCGCATTTGc > 1:1209174/1‑44 (MQ=255)
cctgcctgCTGCTTCATACCGTATTCCCTGCAAAGCGCATTTGCGGATTAACGTCGCa > 1:554700/1‑58 (MQ=255)
cctgcctgCTGCTTCATACCGTATTCCCTGCAAAGCGCATTTGCGGATTAACGTCGCACCATGCGCAtttt < 1:3273870/71‑1 (MQ=255)
cctgcctgCTGCTTCATACCGTATTCCCTGCAAAGCGCATTTGCGGATTAACGTCGCACCATGCGCAtttt > 1:3019187/1‑71 (MQ=255)
cctgcTGCTTCATACCGTATTCCCTGCAAAGCGCATTTGCGGATTAACGTCGCa < 1:3805439/54‑1 (MQ=255)
cctgcTGCTTCATACCGTATTCCCTGCAAAGCGCATTTGCGGATTAACGTCGCACCATGCGCATTTTTa < 1:639239/69‑1 (MQ=255)
ctgctgCTTCATACCGTATTCCCTGCAAAGCGCATTTGCGGATTAACGTCGCACCATGCGCATTTTTACCg < 1:4094786/71‑1 (MQ=255)
tgctgcTTCATACCGTATTCCCTGCAAAGCGCATTTGCGGATTAACGTCGCACCAt < 1:3828803/56‑1 (MQ=255)
tgctTCATACCGTATTCCCTGCAAAGCGCATTTGCg < 1:2784629/36‑1 (MQ=255)
tgctTCATACCGTATTCCCTGCAAAGCGCATTTGCGGATTAACGTCGCACCATgcgc < 1:335849/57‑1 (MQ=255)
gctTCATACCGTATTCCCTGCAAAGCGCATTTGCGGATTAACGTCGCACCATGCGCAttttt > 1:3686004/1‑62 (MQ=255)
gctTCATACCGTATTCCCTGCAAAGCGCATTTGCGGATTAACGTCGCACCATGCGCAttttt > 1:3817654/1‑62 (MQ=255)
gctTCATACCGTATTCCCTGCAAAGCGCATTTGCGGATTAACGTCGCACCATGCGCATTTTTa < 1:644553/63‑1 (MQ=255)
ctTCATACCGTATTCCCTGCAAAGCGCATTTGCGGATTAACGTCGCAcc < 1:1987655/49‑1 (MQ=255)
cATACCGTATTCCCTGCAAAGCGCATTTGCGGATTAACGTCGCACCa > 1:1232480/1‑47 (MQ=255)
cATACCGTATTCCCTGCAAAGCGCATTTGCGGATTAACGTCGCACCATGCGCATTTTTACCGGTTATCGaa > 1:162433/1‑71 (MQ=255)
aTACCGTATTCCCTGCAAAGCGCATTTGCGGATTAACGTCGCACCATGCGCATTTTTACCGGTTATCGaa < 1:1208901/70‑1 (MQ=255)
tACCGTATTCCCTGCAAAGCGCATTTGCGGATTAACGTCGCACCATGCGCAttttt < 1:1465627/56‑1 (MQ=255)
tACCGTATTCCCTGCAAAGCGCATTTGCGGATTAACGTCGCACCATGCGCATTTTTAc > 1:3491998/1‑58 (MQ=255)
cGTATTCCCTGCAAAGCGCATTAGCGGATTAACGTCGCACCATGCGCATTTTTACCGGTTATCGAATGTaa < 1:2383746/71‑1 (MQ=255)
gTATTCCCTGCAAAGCGCATTTGCGGATTAACGTCGCACCATGCGCATTTTTACCGGTTATCGAATGTaa > 1:1486006/1‑70 (MQ=255)
tCCCTGCAAAGCGCATTTGCGGATTAACGTCGCACCATGCGCATTTTTACCGGt > 1:2229597/1‑54 (MQ=255)
cTGCAAAGCGCATTTGCGGATTAACGTCGCACCATGCGCATTTTTACCGGTTATCGAATGTaa < 1:3121940/63‑1 (MQ=255)
gCAAAGCGCATTTGCGGATTAACGTCGCACCATgcgc > 1:872783/1‑37 (MQ=255)
cAAAGCGCATTAGCGGATTAACGTCGCACCATGCGCA‑TTTTACCGGTTATCGAATGTAAAAAGCCCCGc < 1:1325304/69‑1 (MQ=255)
aaGCGCATTTGCGGATTAACGTCGCACCATGCGCATTTTTACCGGTTATCGAATGTAAAAAGCCCCGCAAc < 1:1929903/71‑1 (MQ=255)
aGCGCATTTGCGGATTAACGTCGCACCATTCGCATTTTTACCGGTTATCGAATGTAAAAAGCCCCGCAACg < 1:4216414/71‑1 (MQ=255)
aGCGCATTTGCGGATTAACGTCGCACCATGCGCATTTTTACCGGTTATCGAATGt > 1:829581/1‑55 (MQ=255)
cgcATTAGCGGATTAACGTCGCACCATGCGCATTTTTACCGGTTATCGAATGTAAAAAGcc > 1:3669599/1‑61 (MQ=255)
gcATTTGCGGATTAACGTCGCACCATGCGCATTATTACCGGTTATCGAATGTAAAAAGCCCCGCAACgtgt > 1:3678928/1‑71 (MQ=255)
tGCGGATTAACGTCGCACCATGCGCATTTTTACCGGTTATCGAATGTAAAAAGCCCCGCAACGTGTTGCg < 1:3197283/70‑1 (MQ=255)
tGCGGATTAACGTCGCACCATGCGCATTTTTACCGGTTATCGAATGTAAAAAGCCCCGCAACGTGTTGCg < 1:2782429/70‑1 (MQ=255)
tGCGGATTAACGTCGCACCATGCGCATTTTTACCGGTTATCGAATGTAAAAAGCCCCGCAACGTGTTGCg < 1:1910826/70‑1 (MQ=255)
|
TGGTGAGCGCCAAAAGAATGCCAATGCCTGCCTGCTGCTTCATACCGTATTCCCTGCAAAGCGCATTTGCGGATTAACGTCGCACCATGCGCATTTTTACCGGTTATCGAATGTAAAAAGCCCCGCAACGTGTTGCG > W3110S.gb/3332548‑3332684
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
