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 |
1,224,919 |
G→A |
9.4% |
intergenic (‑423/‑123) |
ymgG ← / → ymgH |
hypothetical protein/hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,224,919 | 0 | G | A | 9.4%
| 196.7
/ 8.3
| 64 | intergenic (‑423/‑123) | ymgG/ymgH | hypothetical protein/hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (26/32); new base A (2/4); total (28/36) |
| Fisher's exact test for biased strand distribution p-value = 6.88e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AAGATATTCATCAGCAACGATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTGCGTGTAAAAAAT > W3110S.gb/1224849‑1224988
|
aagaTATTCATCAGCAACGATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCg < 1:4193253/71‑1 (MQ=255)
ttCATCAGCAACGATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGt < 1:1195126/66‑1 (MQ=255)
atcaGCAACGATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAg < 1:2715590/70‑1 (MQ=255)
caGCAACGATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGtat > 1:3326857/1‑71 (MQ=255)
cAACGATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGtattat < 1:2889325/71‑1 (MQ=255)
aaCGATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGa > 1:636498/1‑61 (MQ=255)
cGATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGtattat > 1:1867182/1‑68 (MQ=255)
gATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAg > 1:1950491/1‑70 (MQ=255)
gATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGa < 1:3875083/71‑1 (MQ=255)
gATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCATACGACAGtatt < 1:2407246/65‑1 (MQ=255)
aTTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGaa < 1:3020634/71‑1 (MQ=255)
aTTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGaa < 1:2266099/71‑1 (MQ=255)
aTTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGaa < 1:1514348/71‑1 (MQ=255)
ttAAATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGaa < 1:1389863/70‑1 (MQ=255)
tAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGt > 1:2622092/1‑70 (MQ=255)
gTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGa < 1:1819186/70‑1 (MQ=255)
attttattttGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGAtttt > 1:228672/1‑71 (MQ=255)
ttttattttGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGaaaa < 1:3350491/60‑1 (MQ=255)
ttttattttGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGAttttt < 1:1361883/71‑1 (MQ=255)
tttattttGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGtatt > 1:3488671/1‑50 (MQ=255)
tttattttGCCGACGGCCTCATTGTCGAAAGATAAGCATACGACAGTATTATCAGAAAAGAGTGAttttt > 1:3939445/1‑70 (MQ=255)
ttattttGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGa < 1:1910260/42‑1 (MQ=255)
ttattttGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAg < 1:2610677/54‑1 (MQ=255)
ttattttGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTa > 1:3958890/1‑71 (MQ=255)
tattttGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTAt > 1:369820/1‑71 (MQ=255)
tattttGCCGACGGCCTCATTGTCGAAAGATAAGCATACGa < 1:1389929/41‑1 (MQ=255)
tattttGCCGACGGCCTCATTGTCGAAAGATAAGCATACGACAGTATTATCAGAAAAGAGTGATTTTTTa > 1:1184805/1‑70 (MQ=255)
tattttGCCGACGGCCTCATTGTCGAAAGATAAGAGTACGACAGTATTATCAGAAAAGAGTGATTTTTTa < 1:504135/70‑1 (MQ=255)
ttttGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTAt < 1:1970971/69‑1 (MQ=255)
ttttGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATcc < 1:351213/71‑1 (MQ=255)
ttGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCaa > 1:2753859/1‑71 (MQ=255)
tGCCGACGGCCTCATTGTCGAAAGATAAGCATACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCaa < 1:3065364/70‑1 (MQ=255)
gCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCaa > 1:2747785/1‑69 (MQ=255)
gCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAAc < 1:1494131/70‑1 (MQ=255)
ccGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGAttt > 1:858048/1‑59 (MQ=255)
ccGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACt < 1:409483/70‑1 (MQ=255)
ccGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACt < 1:1288317/70‑1 (MQ=255)
gACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGa < 1:4019215/45‑1 (MQ=255)
aCGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTacac > 1:1354689/1‑71 (MQ=255)
cTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAg > 1:683197/1‑71 (MQ=255)
tCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAgc > 1:4122432/1‑71 (MQ=255)
cATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGAtttttt < 1:1433490/52‑1 (MQ=255)
cATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAgcg > 1:3872060/1‑71 (MQ=255)
aTTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAgc < 1:1304911/69‑1 (MQ=255)
ttGTCGAAAGATAGGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCa < 1:1567011/71‑1 (MQ=255)
ttGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAgcg < 1:4239281/69‑1 (MQ=255)
ttGTAGAAAGATAAGCGTACGACAGTATTATCAGAAAaga > 1:3973402/1‑40 (MQ=255)
tGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTAt > 1:3371047/1‑51 (MQ=255)
gTCGAAAGATAAGCGTACGACAGTATTATCAGaaaa < 1:2735038/36‑1 (MQ=255)
gTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTAt > 1:454554/1‑50 (MQ=255)
gTCGAAAGATAAGCGTACGACAGTAATATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACt > 1:3548524/1‑71 (MQ=255)
tCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGAtttt > 1:447054/1‑45 (MQ=255)
tCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGAtttt > 1:442031/1‑45 (MQ=255)
tCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACt < 1:2625372/70‑1 (MQ=255)
gAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTGCg > 1:1549496/1‑71 (MQ=255)
gAAAGATAAGCATACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTGc < 1:3139405/70‑1 (MQ=255)
aaaGATAAGCGTACGACAGTATTATCAGAAAagag < 1:873254/35‑1 (MQ=255)
aaaGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTa > 1:928424/1‑53 (MQ=255)
aaaGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTGc < 1:1086395/69‑1 (MQ=255)
aaaGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTGCgt > 1:42584/1‑71 (MQ=255)
aGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTGCgtg > 1:1611207/1‑70 (MQ=255)
aGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTGCGTGTaaaaa < 1:2637257/71‑1 (MQ=255)
aGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTGCGTGTaaaa < 1:2322968/70‑1 (MQ=255)
aGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTGCGTGTaaaa < 1:2693601/70‑1 (MQ=255)
gCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTGCGTGTaa < 1:2543319/67‑1 (MQ=255)
gTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCa > 1:1512232/1‑55 (MQ=255)
gTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCa > 1:1232463/1‑55 (MQ=255)
gTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTGCGTGTAAAAAAt < 1:1186153/70‑1 (MQ=255)
|
AAGATATTCATCAGCAACGATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTGCGTGTAAAAAAT > W3110S.gb/1224849‑1224988
|
| 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
