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 F28 I1 R1
|
354 |
41.7 |
3110465 |
93.1% |
2895842 |
61.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,068,568 |
T→A |
G22G (GGT→GGA) |
ymdF → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,068,568 | 0 | T | A | 98.3%
| 200.8
/ ‑3.9
| 60 | G22G (GGT→GGA) | ymdF | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (1/0); new base A (21/38); total (22/38) |
| Fisher's exact test for biased strand distribution p-value = 3.67e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.80e-01 |
CAAACCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGTAAAAAAGGTGGACAGCACAGCGGGGGTAATTTCAAGAATGACCCGCAGCGCGCAT > W3110S.gb/1068507‑1068623
|
cAAACCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGaaa > 1:1599311/1‑64 (MQ=255)
aaCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGaaaaaa > 1:965190/1‑65 (MQ=255)
aaCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGaaaaaa > 1:2067517/1‑65 (MQ=255)
aaCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGaaaaaa > 1:2167428/1‑65 (MQ=255)
aaCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGaaaaaa > 1:1615419/1‑65 (MQ=255)
aaCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGaaaaaa > 1:2909688/1‑65 (MQ=255)
aaCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGaaaaaa > 1:1189929/1‑65 (MQ=255)
aCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGaaaaaa > 1:2732636/1‑64 (MQ=255)
aCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGaaaaaa > 1:989421/1‑64 (MQ=255)
aCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAaaaaaa > 1:3007761/1‑65 (MQ=255)
aCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAaaaaaa > 1:2955536/1‑65 (MQ=255)
aCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAaaaaaa > 1:3059638/1‑65 (MQ=255)
aCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAaaaaaa > 1:717965/1‑65 (MQ=255)
aCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAaaaaaa > 1:82197/1‑65 (MQ=255)
aCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAaaaaaa > 1:2715966/1‑65 (MQ=255)
aCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAaaaaaa > 1:2675068/1‑65 (MQ=255)
aCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAaaaaaa > 1:517857/1‑65 (MQ=255)
aCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAaaaaaa > 1:651913/1‑65 (MQ=255)
aCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAaaaaaa > 1:2643753/1‑65 (MQ=255)
aCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAaaaaaa > 1:264031/1‑65 (MQ=255)
aCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAaaaaaa > 1:2288200/1‑65 (MQ=255)
aCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAaaaaaa > 1:702719/1‑65 (MQ=255)
aCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAaaaaaa > 1:2087057/1‑65 (MQ=255)
aCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAaaaaaa > 1:1954610/1‑65 (MQ=255)
aCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAaaaaaa > 1:962330/1‑65 (MQ=255)
aCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAaaaaaa > 1:1935276/1‑65 (MQ=255)
aCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAaaaaaa > 1:1076453/1‑65 (MQ=255)
aCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAaaaaaa > 1:1142661/1‑65 (MQ=255)
aCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAaaaaaa > 1:97930/1‑65 (MQ=255)
aCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAaaaaaa > 1:1528169/1‑65 (MQ=255)
aCCATCGAGGCGCTTCCCGCAATATTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGCaaaaaa > 1:1662653/1‑64 (MQ=255)
ggCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAAAAAAAGGTGGA‑AGCACAGCgg < 1:1386517/64‑1 (MQ=255)
gCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAAAAAAAGGTGGACAGCACAGCggg < 1:575567/65‑1 (MQ=255)
gCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAAAAAAAGGTGGACAGCACAGCggg < 1:784856/65‑1 (MQ=255)
gCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAAAAAAAGGTGGACAGCACAGCggg < 1:817118/65‑1 (MQ=255)
gCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAAAAAAAGGTGGACAGCACAGCgg < 1:1744709/64‑1 (MQ=255)
gCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAAAAAAAGGTGGACAGCACAGCgg < 1:1085436/64‑1 (MQ=255)
gCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAAAAAAAGGTGGACAGCACAGCgg < 1:1097019/64‑1 (MQ=255)
gCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAAAAAAAGGTGGACAGCACAGCgg < 1:222330/64‑1 (MQ=255)
gCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAAAAAAAGGTGGACAGCACAGCgg < 1:3005422/64‑1 (MQ=255)
gCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAAAAAAAGGTGGACAGCACAGCgg < 1:1218988/64‑1 (MQ=255)
gCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAAAAAAAGGTGGACAGCACAGCgg < 1:2835163/64‑1 (MQ=255)
gCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAAAAAAAGGTGGACAGCACAGCgg < 1:2493647/64‑1 (MQ=255)
gCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAAAAAAAGGTGGACAGCACAGCgg < 1:2656027/64‑1 (MQ=255)
gCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAAAAAAAGGTGGACAGCACAGCgg < 1:878996/64‑1 (MQ=255)
gCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAAAAAAAGGTGGACAGCACAGCgg < 1:269864/64‑1 (MQ=255)
cAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAAAAAAAGGTGGACAGCACAGCggg < 1:2923667/64‑1 (MQ=255)
cAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAAAAAAAGGTGGACAGCACAGCggg < 1:3109072/64‑1 (MQ=255)
cAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAAAAAAAGGTGGACAGCACAGCgg < 1:793783/63‑1 (MQ=255)
tttGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGTAAAAAAGGTGGACAGCACAGCGGGGGTaa > 1:955224/1‑65 (MQ=255)
aaaGAGCATCAGAAGCAGGAAAAAAAGGTGGACAGCACAGCgg < 1:1267423/43‑1 (MQ=255)
agCATCAGAAGCAGGAAAAAAAGGTGGACAGCACAGCGGGGGTAATTTCAAGAATGACCCGCAgc < 1:2208104/65‑1 (MQ=255)
agCATCAGAAGCAGGAAAAAAAGGTGGACAGCACAGCGGGGGTAATTTCAAGAATGACCCGCAgc < 1:1582944/65‑1 (MQ=255)
agCATCAGAAGCAGGAAAAAAAGGTGGACAGCACAGCGGGGGTAATTTCAAGAATGACCCGCAgc < 1:479749/65‑1 (MQ=255)
agCATCAGAAGCAGGAAAAAAAGGTGGACAGCACAGCGGGGGTAATTTCAAGAATGACCCGCAgc < 1:963730/65‑1 (MQ=255)
agCATCAGAAGCAGGAAAAAAAGGTGGACAGCACAGCGGGGGTAATTTCAAGAATGACCCGCAgc < 1:1792341/65‑1 (MQ=255)
agCATCAGAAGCAGGAAAAAAAGGTGGACAGCACAGCGGGGGTAATTTCAAGAATGACCCGCAgc < 1:2173899/65‑1 (MQ=255)
cAGAAGCAGGAAAAAAAGGTGGACAGCACAGCGGGGGTAATTTCAAGAATGACCCGCAGCGCGCa < 1:1075101/65‑1 (MQ=255)
cAGAAGCAGGAAAAAAAGGTGGACAGCACAGCGGGGGTAATTTCAAGAATGACCCGCAGCGCGCa < 1:2723499/65‑1 (MQ=255)
cAGAAGCAGGAAAAAAAGGTGGACAGCACAGCGGGGGTAATTTCAAGAATGACCCGCAGCGCGCa < 1:1424451/65‑1 (MQ=255)
aGAAGCAGGAAAAAAAGGTGGACAGCACAGCGGGGGTAATTTCAAGAATGACCCGCAGCGCGCAt < 1:336255/65‑1 (MQ=255)
aGAAGCAGGAAAAAAAGGTGGACAGCACAGCGGGGGTAATTTCAAGAATGACCCGCAGCGCGCAt < 1:3077844/65‑1 (MQ=255)
aGAAGCAGGAAAAAAAGGTGGACAGCACAGCGGGGGTAATTTCAAGAATGACCCGCAGCGCGCAt < 1:2846281/65‑1 (MQ=255)
aGAAGCAGGAAAAAAAGGTGGACAGCACAGCGGGGGTAATTTCAAGAATGACCCGCAGCGCGCAt < 1:2242086/65‑1 (MQ=255)
aGAAGCAGGAAAAAAAGGTGGACAGCACAGCGGGGGTAATTTCAAGAATGACCCGCAGCGCGCAt < 1:1941799/65‑1 (MQ=255)
aGAAGCAGGAAAAAAAGGTGGACAGCACAGCGGGGGTAATTTCAAGAATGACCCGCAGCGCGCAt < 1:1172589/65‑1 (MQ=255)
aGAAGCAGGAAAAAAAGGTGGACAGCACAGCGGGGGTAATTTCAAGAATGACCCGCAGCGCGCAt < 1:1003930/65‑1 (MQ=255)
aGAAGCAGGAAAAAAAGGTGGACAGCACAGCGGGGGTAATTTCAAGAATGACCCGCAGCGCGCAt < 1:994108/65‑1 (MQ=255)
aGAAGCAGGAAAAAAACGTGGACAGCACAGCGGGGGTAATTTCAAGAATGACCCGCAGCGCGCAt < 1:1404101/65‑1 (MQ=255)
gAAGCAGGAAAAAAAGGTGGACAGCACAGCGGGGGTAATTTCAAGAATGACCCGCAGCGCGCAt < 1:1996349/64‑1 (MQ=255)
|
CAAACCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGTAAAAAAGGTGGACAGCACAGCGGGGGTAATTTCAAGAATGACCCGCAGCGCGCAT > W3110S.gb/1068507‑1068623
|
| 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
