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 |
1,160,787 |
C→T |
29.4% |
N223N (AAC→AAT) |
xthA → |
exonuclease III |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,160,787 | 0 | C | T | 29.4%
| 60.2
/ 24.7
| 61 | N223N (AAC→AAT) | xthA | exonuclease III |
| Reads supporting (aligned to +/- strand): ref base C (19/24); new base T (13/5); total (32/29) |
| Fisher's exact test for biased strand distribution p-value = 5.46e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.10e-01 |
CATGCGAATCCGCAAACAGCAGATCGTTTCTCATGGTTTGATTACCGCTCAAAAGGTTTTGACGATAACCGTGGTCTGCGCATCGACCTGCTGCTCGCCAGCCAACCGCTGGCAGAATGTTGCGTAG > minE/1160719‑1160845
|
cATGCGAATCCGCAAACAGCAGATCGTTTCTCATGGTTTGATTACCGCTCAAAAGGTTTTGACGATAAc < 1:2797647/69‑1 (MQ=255)
cATGCGAATCCGCAAACAGCAGATCGTTTCTCATGGTTTGATTACCGCTCAAAAGGTTTTGACGATAAc < 1:2617502/69‑1 (MQ=255)
cGAATCCGCAAACAGCAGATCGTTTCTCATGGTTTGATTACCGCTCAAAAGGTTTTGACGATAACCGTg > 1:1606014/1‑69 (MQ=255)
cGAATCCGCAAACAGCAGATCGTTTCTCATGGTTTGATTACCGCTCAAAAGGTTTTGACGATAACCGTg > 1:1767139/1‑69 (MQ=255)
tCCGCAAACAGCAGATCGTTTCTCATGGTTTGATTACCGCTCAAAAGGTTTTGACGATAACCGTGGTc > 1:2287957/1‑68 (MQ=255)
cagcagATCGTTTCTCATGGTTTGATTACCGCTCAAAAGGTTTTGACGATAACCGTGGTCTGCGCATCg < 1:947744/69‑1 (MQ=255)
cagcagATCGTTTCTCATGGTTTGATTACCGCTCAAAAGGTTTTGACGATAACCGTGGTCTGCGCATCg < 1:171081/69‑1 (MQ=255)
agcagATCGTTTCTCATGGTTTGATTACCGCTCAAAAGGTTTTGACGATAACCGTGGTCTGCGCATCg > 1:584390/1‑68 (MQ=255)
agcagATCGTTTCTCATGGTTTGATTACCGCTCAAAAGGTTTTGACGATAACCGTGGTCTGCGCATCGa > 1:865906/1‑69 (MQ=255)
agcagATCGTTTCTCATGGTTTGATTACCGCTCAAAAGGTTTTGACGATAACCGTGGTCTGCGCATCGa > 1:621126/1‑69 (MQ=255)
agcagATCGTTTCTCATGGTTTGATTACCGCTCAAAAGGTTTTGACGATAACCGTGGTCTGCGCATCGa > 1:22054/1‑69 (MQ=255)
agcagATCGTTTCTCATGGTTTGATTACCCCTCAAAAGGTTTTGACGATAACCGTGGTCTGCGCATCg > 1:2912044/1‑68 (MQ=255)
cATGGTTTGATTACCGCTCAAAAGGTTTTGACGATAATCGCGGTCTGCGCATCGACCTGCTGCTCgcc < 1:2535436/68‑1 (MQ=255)
cATGGTTTGATTACCGCTCAAAAGGTTTTGACGATAATCGCGGTCTGCGCATCGACCTGCTGCTCgcc < 1:3230892/68‑1 (MQ=255)
cATGGTTTGATTACCGCTCAAAAGGTTTTGACGATAATCGCGGTCTGCGCATCGACCTGCTGCTCgcc < 1:2948198/68‑1 (MQ=255)
cATGGTTTGATTACCGCTCAAAAGGTTTTGACGATAATCGCGGTCTGCGCATCGACCTGCTGCTCgcc < 1:1935323/68‑1 (MQ=255)
cATGGTTTGATTACCGCTCAAAAGGTTTTGACGATAATCGCGGTCTGCGCATCGACCTGCTGCTCgcc < 1:1360140/68‑1 (MQ=255)
gTTTGATTACCGCTCAAAAGGTTTTGACGATAACCGTGGTCTGCGCATCGACCTGCTGCTCgccagcca > 1:593437/1‑69 (MQ=255)
gTTTGATTACCGCTCAAAAGGTTTTGACGATAACCGTGGTCTGCGCATCGACCTGCTGCTCgccagcca < 1:1405715/69‑1 (MQ=255)
gTTTGATTACCGCTCAAAAGGTTTTGACGATAACCGTGGTCTGCGCATCGACCTGCTGCTCgccagcca < 1:3078216/69‑1 (MQ=255)
gTTTGATTACCGCTCAAAAGGTTTTGACGATAACCGTGGTCTGCGCATCGACCTGCTGCTCgccagcca > 1:517268/1‑69 (MQ=255)
gTTTGATTACCGCTCAAAAGGTTTTGACGATAACCGTGGTCTGCGCATCGACCTGCTGCTCgccagcca > 1:694320/1‑69 (MQ=255)
gTTTGATTACCGCTCAAAAGGTTTTGACGATAACCGTGGTCTGCGCATCGACCTGCTGCTCgccagcca < 1:697181/69‑1 (MQ=255)
gTTTGATTACCGCTCAAAAGGTTTTGACGATAACCGTGGTCTGCGCATCGACCTGCTGCTCgccagcca < 1:81944/69‑1 (MQ=255)
gTTTGATTACCGCTCAAAAGGTTTTGACGATAACCGTGGTCTGCGCATCGACCTGCTGCTCgccagcca > 1:1652200/1‑69 (MQ=255)
gTTTGATTACCGCTCAAAAGGTTTTGACGATAACCGTGGTCTGCGCATCGACCTGCTGCTCgccagcca > 1:1125400/1‑69 (MQ=255)
gTTTGATTACCGCTCAAAAGGTTTTGACGATAACCGTGGTCTGCGCATCGACCTGCTGCTCgccagcca < 1:1731571/69‑1 (MQ=255)
gTTTGATTACCGCTCAAAAGGTTTTGACGATAACCGTGGTCTGCGCATCGACCTGCTGCTCgccagcca > 1:927539/1‑69 (MQ=255)
gTTTGATTACCGCTCAAAAGGTTTTGACGATAACCGTGGTCTGCGCATCGACCTGCTGCTCgccagcca < 1:1832480/69‑1 (MQ=255)
gTTTGATTACCGCTCAAAAGGTTTTGACGATAACCGTGGTCTGCGCATCGACCTGCTGCTCgccagcca < 1:1826530/69‑1 (MQ=255)
gTTTGATTACCGCTCAAAAGGTTTTGACGATAACCGTGGTCTGCGCATCGACCTGCTGCTCgccagcc > 1:2672975/1‑68 (MQ=255)
ttGATTACCGCTCAAAAGGTTTTGACGATAACCGTGGTCTGCGCATCGACCTGCTGCTCGCCAGCCaa > 1:1213169/1‑68 (MQ=255)
ttGATTACCGCTCAAAAGGTTTTGACGATAACCGTGGTCTGCGCATCGACCTGCTGCTCGCCAGCCAAc > 1:2749532/1‑69 (MQ=255)
gCTCAAAAGGTTTTGACGATAACCGTGGTCTGCGCATCGACCTGCTGCTCGCCAGCCAACCGCTGGCAg < 1:2477432/69‑1 (MQ=255)
gCTCAAAAGGTTTTGACGATAACCGTGGTCTGCGCATCGACCTGCTGCTCGCCAGCCAACCGCTGGCAg < 1:1224868/69‑1 (MQ=255)
cTCAAAAGGTTTTGACGATAACCGTGGTCTGCGCATCGACCTGCTGCTCGCCAGCCAACCGCTGGCAg < 1:1562529/68‑1 (MQ=255)
cAAAAGGTTTTGACGATAACCGTGGTCTGCGCATCGACCTGCTGCTCGCCAGCCAACCGCTGGCAGAAt > 1:1056029/1‑69 (MQ=255)
cAAAAGGTTTTGACGATAACCGTGGTCTGCGCATCGACCTGCTGCTCGCCAGCCAACCGCTGGCAGAAt > 1:1390461/1‑69 (MQ=255)
aaGGTTTTGACGATAACCGTGGTCTGCGCATCGACCTGCTGCTCGCCAGCCAACCGCTGGCAGAATg < 1:2110886/67‑1 (MQ=255)
aaGGTTTTGACGATAACCGTGGTCTGCGCATCGACCTGCTGCTCGCCAGCCAACCGCTGGCAGAATg < 1:1010787/67‑1 (MQ=255)
aaGGTTTTGACGATAACCGTGGTCTGCGCATCGACCTGCTGCTCGCCAGCCAACCGCTGGCAGAATg < 1:247880/67‑1 (MQ=255)
ttttGACGATAACCGTGGTCTGCGCATCGACCTGCTGCTCGCCAGCCAACCGCTGGCAGAATg < 1:1748246/63‑1 (MQ=255)
ttGACGATAATCGCGGTCTGCGCATCGACCTGCTGCTCGCCAGCCCACCGCTGGCAGAATGTTGCGTa > 1:2382696/1‑68 (MQ=255)
ttGACGATAATCGCGGTCTGCGCATCGACCTGCTGCTCGCCAGCCAACCGCTGGCAGAATGTTGCGt > 1:1855492/1‑67 (MQ=255)
ttGACGATAATCGCGGTCTGCGCATCGACCTGCTGCTCGCCAGCCAACCGCTGGCAGAATGTTGCGt > 1:394905/1‑67 (MQ=255)
ttGACGATAATCGCGGTCTGCGCATCGACCTGCTGCTCGCCAGCCAACCGCTGGCAGAATGTTGCGTa > 1:465641/1‑68 (MQ=255)
ttGACGATAATCGCGGTCTGCGCATCGACCTGCTGCTCGCCAGCCAACCGCTGGCAGAATGTTGCGTa > 1:2300390/1‑68 (MQ=255)
ttGACGATAATCGCGGTCTGCGCATCGACCTGCTGCTCGCCAGCCAACCGCTGGCAGAATGTTGCGTa > 1:2318137/1‑68 (MQ=255)
ttGACGATAATCGCGGTCTGCGCATCGACCTGCTGCTCGCCAGCCAACCGCTGGCAGAATGTTGCGTa > 1:690622/1‑68 (MQ=255)
ttGACGATAATCGCGGTCTGCGCATCGACCTGCTGCTCGCCAGCCAACCGCTGGCAGAATGTTGCGTa > 1:2395807/1‑68 (MQ=255)
ttGACGATAATCGCGGTCTGCGCATCGACCTGCTGCTCGCCAGCCAACCGCTGGCAGAATGTTGCGTa > 1:2859020/1‑68 (MQ=255)
ttGACGATAATCGCGGTCTGCGCATCGACCTGCTGCTCGCCAGCCAACCGCTGGCAGAATGTTGCGTa > 1:2597178/1‑68 (MQ=255)
ttGACGATAATCGCGGTCTGCGCATCGACCTGCTGCTCGCCAGCCAACCGCTGGCAGAATGTTGCGTa > 1:3029244/1‑68 (MQ=255)
ttGACGATAATCGCGGTCTGCGCATCGACCTGCTGCTCGCCAGCCAACCGCTGGCAGAATGTTGCGTa > 1:1435708/1‑68 (MQ=255)
ttGACGATAATCGCGGTCTGCGCATCGACCTGCTGCTCGCCAGCCAACCGCTGGCAGAATGTTGCGTa > 1:2890856/1‑68 (MQ=255)
ttGACGATAACCGTGGTCTGCGCATCGACCTGCTGCTCGCCAGCCAACCGCTGGCAGAATGTTGCGTAg < 1:2488151/69‑1 (MQ=255)
ttGACGATAACCGTGGTCTGCGCATCGACCTGCTGCTCGCCAGCCAACCGCTGGCAGAATGTTGCGTAg < 1:430027/69‑1 (MQ=255)
ttGACGATAACCGTGGTCTGCGCATCGACCTGCTGCTCGCCAGCCAACCGCTGGCAGAATGTTGCGTAg < 1:3240155/69‑1 (MQ=255)
ttGACGATAACCGTGGTCTGCGCATCGACCTGCTGCTCGCCAGCCAACCGCTGGCAGAATGTTGCGTAg < 1:3167954/69‑1 (MQ=255)
ttGACGATAACCGTGGTCTGCGCATCGACCTGCTGCTCGCCAGCCAACCGCTGGCAGAATGTTGCGTAg < 1:2967150/69‑1 (MQ=255)
ttGACGATAACCGTGGTCTGCGCATCGACCTGCTGCTCGCCAGCCAACCGCTGGCAGAATGTTGCGTAg < 1:2720212/69‑1 (MQ=255)
ttGACGATAACCGTGGTCTGCGCATCGACCTGCTGCTCGCCAGCCAACCGCTGGCAGAATGCTGCGTAg < 1:1131223/69‑1 (MQ=255)
ttGACGATAACCGTGGTCTGCGCATCGACCTGATGCTCGCCAGCCAACCGCTGGCAGAATGTTGCGTAg < 1:920227/69‑1 (MQ=255)
|
CATGCGAATCCGCAAACAGCAGATCGTTTCTCATGGTTTGATTACCGCTCAAAAGGTTTTGACGATAACCGTGGTCTGCGCATCGACCTGCTGCTCGCCAGCCAACCGCTGGCAGAATGTTGCGTAG > minE/1160719‑1160845
|
| 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
