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 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
910,937 |
C→T |
25.1% |
G59G (GGC→GGT) |
ycjV → |
predicted sugar transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 910,937 | 0 | C | T | 25.1%
| 118.2
/ 32.8
| 95 | G59G (GGC→GGT) | ycjV | predicted sugar transporter subunit |
| Reads supporting (aligned to +/- strand): ref base C (37/34); new base T (18/6); total (55/40) |
| Fisher's exact test for biased strand distribution p-value = 5.86e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.70e-01 |
TCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCAA > minE/910890‑910990
|
tCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCaa > 1:815931/1‑68 (MQ=255)
tCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCaa > 1:2076118/1‑68 (MQ=255)
tCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCaa > 1:2588544/1‑68 (MQ=255)
tCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCaa > 1:3096705/1‑68 (MQ=255)
gACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACg < 1:1244326/69‑1 (MQ=255)
gACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACg < 1:1286227/69‑1 (MQ=255)
gACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACg < 1:3428678/69‑1 (MQ=255)
gACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACg < 1:424757/69‑1 (MQ=255)
gACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACg < 1:347193/69‑1 (MQ=255)
gACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACg < 1:424207/69‑1 (MQ=255)
gACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACg < 1:422827/69‑1 (MQ=255)
caccCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACgaa > 1:2126451/1‑68 (MQ=255)
caccCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACgaa > 1:216658/1‑68 (MQ=255)
caccCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACgaa > 1:3317872/1‑68 (MQ=255)
caccCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACgaa > 1:3415156/1‑68 (MQ=255)
caccCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACgaa > 1:1559758/1‑68 (MQ=255)
caccCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACgaa > 1:139455/1‑68 (MQ=255)
caccCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACgaa > 1:1121471/1‑68 (MQ=255)
caccATGCGCATGATTGACGGGATTGAGGAGATCAGAGGCGGCGATCTGTTGATCGACGGCAAACgaa > 1:3037827/1‑68 (MQ=255)
accCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACgaatg < 1:3013393/69‑1 (MQ=255)
cccTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACgaatg < 1:1430811/68‑1 (MQ=255)
cccTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACgaatg < 1:2397327/68‑1 (MQ=255)
cgtaTGATTGCCGGGCTTGAGGAGATCAGCGGCGGTGATCTGTTGATCGACGGCAAACgaatgaat > 1:2941780/4‑66 (MQ=255)
cgtaTGATTGCCGGGCTTGAGGAGATCAGCGGCGGTGATCTGTTGATCGACGGCAAACgaatgaat > 1:2347645/4‑66 (MQ=255)
cgtaTGATTGCCGGGCTTGAGGAGATCAGCGGCGGTGATCTGTTGATCGACGGCAAACGAATGAATGAc > 1:325250/4‑69 (MQ=255)
cgtaTGATTGCCGGGCTTGAGGAGATCAGCGGCGGTGATCTGTTGATCGACGGCAAACGAATGAATGAc > 1:611504/4‑69 (MQ=255)
cgtaTGATTGCCGGGCTTGAGGAGATCAGCGGCGGTGATCTGTTGATCGACGGCAAACGAATGAATGAc > 1:3421893/4‑69 (MQ=255)
cgtaTGATTGCCGGGCTTGAGGAGATCAGCGGCGGTGATCTGTTGATCGACGGCAAACGAATGAATGAc > 1:2975418/4‑69 (MQ=255)
cgtaTGATTGCCGGGCTTGAGGAGATCAGCGGCGGTGATCTGTTGATCGACGGCAAACGAATGAATGAc > 1:2784923/4‑69 (MQ=255)
cgtaTGATTGCCGGGCTTGAGGAGATCAGCGGCGGTGATCTGTTGATCGACGGCAAACGAATGAATGAc > 1:71076/4‑69 (MQ=255)
cgtaTGATTGCCGGGCTTGAGGAGATCAGCGGCGGTGATCTGTTGATCGACGGCAAACGAATGAATGAc > 1:596707/4‑69 (MQ=255)
cgtaTGATTGCCGGGCTTGAGGAGATCAGCGGCGGTGATCTGTTGATCGACGGCAAACGAATGAATGAc > 1:724218/4‑69 (MQ=255)
cgtaTGATTGCCGGGCTTGAGGAGATCAGCGGCGGTGATCTGTTGATCGACGGCAAACGAATGAATGAc > 1:976347/4‑69 (MQ=255)
cgtaTGATTGCCGGGCTTGAGGAGATCAGCGGCGGTGATCTGTTGATCGACGGCAAACGAATGAATGAc > 1:2662114/4‑69 (MQ=255)
cgtaTGATTGCCGGGCTTGAGGAGATCAGCGGCGGTGATCTGTTGATCGACGGCAAACGAATGAATGAc > 1:1031854/4‑69 (MQ=255)
cgtaTGATTGCCGGGCTTGAGGAGATCAGCGGCGGTGATCTGTTGATCGACGGCAAACGAATGAATGAc > 1:1071633/4‑69 (MQ=255)
cgtaTGATTGCCGGGCTTGAGGAGATCAGCGGCGGTGATCTGTTGATCGACGGCAAACGAATGAATGAc > 1:1193557/4‑69 (MQ=255)
cgtaTGATTGCCGGGCTTGAGGAGATCAGCGGCGGTGATCTGTTGATCGACGGCAAACGAATGAATGAc > 1:1720163/4‑69 (MQ=255)
cgtaTGATTGCCGGGCTTGAGGAGATCAGCGGCGGTGATCTGTTGATCGACGGCAAACGAATGAATGAc > 1:1947525/4‑69 (MQ=255)
cgtaTGATTGCCGGGCTTGAGGAGATCAGCGGCGGTGATCTGTTGATCGACGGCAAACGAATGAATGAc > 1:195305/4‑69 (MQ=255)
aTTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAatgaatga > 1:3325030/1‑62 (MQ=255)
aTTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAatgaatga > 1:581033/1‑62 (MQ=255)
aTTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAatgaatga > 1:484350/1‑62 (MQ=255)
aTTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAatgaatga > 1:412698/1‑62 (MQ=255)
aTTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAatgaatga > 1:2119095/1‑62 (MQ=255)
aTTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAatgaatga > 1:3113340/1‑62 (MQ=255)
aTTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAatgaatga > 1:3089588/1‑62 (MQ=255)
aTTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAatgaatga > 1:3049715/1‑62 (MQ=255)
aTTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAatgaatga > 1:1976214/1‑62 (MQ=255)
aTTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAatgaatga > 1:2087138/1‑62 (MQ=255)
aTTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAatgaatga > 1:2274300/1‑62 (MQ=255)
aTTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAatgaatga > 1:2554427/1‑62 (MQ=255)
aTTGACGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAatgaatga > 1:2676724/1‑62 (MQ=255)
tGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACTAATGAATGACGTTCCAg > 1:2729791/1‑68 (MQ=255)
tGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAg > 1:1942916/1‑68 (MQ=255)
tGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAg > 1:429281/1‑68 (MQ=255)
tGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAg > 1:591024/1‑68 (MQ=255)
tGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAg > 1:2933323/1‑68 (MQ=255)
tGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAg > 1:707937/1‑68 (MQ=255)
tGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAg > 1:724063/1‑68 (MQ=255)
tGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAg > 1:734456/1‑68 (MQ=255)
tGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAg > 1:741906/1‑68 (MQ=255)
tGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAg > 1:2008045/1‑68 (MQ=255)
tGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAg > 1:832555/1‑68 (MQ=255)
tGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAg > 1:891415/1‑68 (MQ=255)
ggCTTGAGGAGATCAGCGGCGGTGATCTGTTGATCGACGGCAAACGAATGAATGACGTTc < 1:1042202/60‑1 (MQ=255)
ggCTTGAGGAGATCAGCGGCGGTGATCTGTTGATCGACGGCAAACGAATGAATGACGTTc < 1:181498/60‑1 (MQ=255)
ggCTTGAGGAGATCAGCGGCGGTGATCTGTTGATCGACGGCAAACGAATGAATGACGTTc < 1:1660416/60‑1 (MQ=255)
ggCTTGAGGAGATCAGCGGCGGTGATCTGTTGATCGACGGCAAACGAATGAATGACGTTc < 1:2637312/60‑1 (MQ=255)
ggCTTGAGGAGATCAGCGGCGGTGATCTGTTGATCGACGGCAAACGAATGAATGACGTTc < 1:1905120/60‑1 (MQ=255)
ggCTTGAGGAGATCAGCGGCGGTGATCTGTTGATCGACGGCAAACGAATGAATGACGTTc < 1:2041495/60‑1 (MQ=255)
ggagATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCa < 1:1092183/68‑1 (MQ=255)
ggagATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCa < 1:1396786/68‑1 (MQ=255)
ggagATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCa < 1:470618/68‑1 (MQ=255)
ggagATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCa < 1:545725/68‑1 (MQ=255)
ggagATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCa < 1:1416224/68‑1 (MQ=255)
ggagATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCa < 1:158094/68‑1 (MQ=255)
ggagATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCa < 1:2009396/68‑1 (MQ=255)
ggagATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCa < 1:1778652/68‑1 (MQ=255)
ggagATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCa < 1:2609838/68‑1 (MQ=255)
ggagATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCa < 1:3288268/68‑1 (MQ=255)
gagaTCAGCGGCGGCGATCTGTTGATCGACGGCAAACgaatg < 1:1719764/42‑1 (MQ=255)
gagaTCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAgcaagcaa < 1:1850527/68‑1 (MQ=255)
gagaTCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCaa < 1:1000973/68‑1 (MQ=255)
gagaTCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCaa < 1:2722484/68‑1 (MQ=255)
gagaTCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCaa < 1:956672/68‑1 (MQ=255)
gagaTCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCaa < 1:949488/68‑1 (MQ=255)
gagaTCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCaa < 1:923968/68‑1 (MQ=255)
gagaTCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCaa < 1:880012/68‑1 (MQ=255)
gagaTCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCaa < 1:1833798/68‑1 (MQ=255)
gagaTCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCaa < 1:237873/68‑1 (MQ=255)
gagaTCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCaa < 1:218094/68‑1 (MQ=255)
gagaTCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCaa < 1:2479101/68‑1 (MQ=255)
gagaTCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCaa < 1:1458191/68‑1 (MQ=255)
gagaTCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCaa < 1:2637975/68‑1 (MQ=255)
|
TCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCAA > minE/910890‑910990
|
| 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
