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 |
|
A10 F1 I1 R1
|
77 |
35.1 |
1569012 |
96.6% |
1515665 |
112.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,001,304 |
(G)7→8 |
coding (960/2259 nt) |
xdhA → |
xanthine dehydrogenase, molybdenum binding subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,001,297 | 1 | . | G | 95.2%
| 145.2
/ ‑0.1
| 42 | coding (953/2259 nt) | xdhA | xanthine dehydrogenase, molybdenum binding subunit |
| Reads supporting (aligned to +/- strand): ref base . (0/2); new base G (24/16); total (24/18) |
| Fisher's exact test for biased strand distribution p-value = 1.78e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACCCGTACCCGCCACGCTTTTACCATTGACGGGCAAATGGGCGTGAACCGCGACGGAACATTGAAAGGTTATAGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGC‑GGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTCGGCTGGTGCGATGCGTGGTTATGGCGCGCCACAAGTCGTATTTGCCGTT > NC_000913/3001164‑3001427
|
aCCCGTACCCGCCACGCTTTTACCATTGACGGGCAAATGGGCGTGAACCGCGACGGAACATTGAAAGGTTATAGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGC‑ggggg < 1:683524/139‑1 (MQ=255)
cACGCTTTTACCATTGACGGGCAAATGGGCGTGAACCGCGACGGAACATTGAAAGGTTATAGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCGGGGGG‑GGAATAAAGTc > 1:546357/1‑139 (MQ=255)
ttGACGGGCAAATGGGCGTGAACCGCGACGGAACATTGAAAGGTTATAGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATc > 1:692338/1‑139 (MQ=255)
cGGGCAAATGGGCGTGAACCGCGACGGAACATTGAAAGGTTATAGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCGGGGGG‑GGAATaa > 2:534654/1‑118 (MQ=255)
cGGGCAAATGGGCGTGAACCGCGACGGAACATTGAAAGGTTATAGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCGGGGGG‑GGAATaa < 1:534654/118‑1 (MQ=255)
tataGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAAc > 2:320324/1‑139 (MQ=255)
tataGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAAc > 2:308708/1‑139 (MQ=255)
ataGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAAcc > 2:380904/1‑139 (MQ=255)
ataGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAAcc > 2:317546/1‑139 (MQ=255)
tCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTccc < 2:692338/139‑1 (MQ=255)
tGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGAc < 1:86509/119‑1 (MQ=255)
tGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGAc > 2:86509/1‑119 (MQ=255)
tGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCt > 2:400997/1‑139 (MQ=255)
ggATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTc > 2:425140/1‑139 (MQ=255)
gATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCGGGGGG‑GGAATAAAGTCGCt > 1:475826/1‑76 (MQ=255)
gATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTCg > 2:277557/1‑139 (MQ=255)
gATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGC‑GGGGGAGGAATAAAGTCGCt < 2:475826/76‑1 (MQ=255)
tCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTCGGCTgg > 2:121251/1‑139 (MQ=255)
cTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTCGGCTGGt > 2:584493/1‑139 (MQ=255)
cTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTa > 1:724992/1‑95 (MQ=255)
cTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTa < 2:724992/95‑1 (MQ=255)
aaCACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTCGGCTGGTGCGATg < 1:320324/139‑1 (MQ=255)
aaCACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGC‑GGGGGAGGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTCGGCTGGTGCGATg < 1:415184/139‑1 (MQ=255)
gcgcTTCTGCATCTCACGGGCACTCCATCGCTTCTGC‑gg < 2:466481/39‑1 (MQ=255)
gcgcTTATGCATCTCACGGGCACTCCATCGCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATAcc > 1:587454/1‑108 (MQ=255)
gcgcTTATGCATCTCACGGGCACTCCATCGCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATAcc < 2:587454/108‑1 (MQ=255)
gcgcTTATGCATCTCACGGGCACTCCATCGCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTCGGCTGGTGCGATGCGTGGtt > 1:713747/1‑139 (MQ=255)
gcgcTTATGCATCTCACGGGCACTCCATCGCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTCGGCTGGTGCGATGCGTGGtt > 1:42105/1‑139 (MQ=255)
gcgcTTATGCATCTCACGGGCACTCCATCGCTTCTGC‑gg > 1:466481/1‑39 (MQ=255)
aTCTCACGGGCACTCCATCGCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTCGGCTGGTGCGATGCGTGGTTATGGCGCGcc < 1:425140/139‑1 (MQ=255)
ggCACTCCATCGCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTCGGCTGGTGCGATg > 1:415994/1‑114 (MQ=255)
ggCACTCCATCGCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTCGGCTGGTGCGATg < 2:415994/114‑1 (MQ=255)
cTCCATCGCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTtgtg > 2:770330/1‑54 (MQ=255)
cTCCATCGCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTtgtg < 1:770330/54‑1 (MQ=255)
cTCCATCGCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGTCCTg < 1:355793/79‑1 (MQ=255)
cTCCATCGCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGTCCTg > 2:355793/1‑79 (MQ=255)
cTCCATCGCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTCGGCTGGTGCGATg < 2:36279/110‑1 (MQ=255)
cTCCATCGCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTCGGCTGGTGCGATg > 1:36279/1‑110 (MQ=255)
cTCCATCGCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTCGGCTGGTGCGATGCg > 2:208972/1‑112 (MQ=255)
cTCCATCGCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTCGGCTGGTGCGATGCg < 1:208972/112‑1 (MQ=255)
tCCATCGCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTCGGCTGGTGCGATGCGTGGTTATGGCGCGCCACAAGTCGTAttt < 1:277557/139‑1 (MQ=255)
ccATCGCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTCGGCTGGTGCGATGCGTGGTTATGGCGCGCCACAAGTCGTATTTg < 1:380904/139‑1 (MQ=255)
cATCGCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTCGGCTGGTGCGATGCGTGGTTATGGCGCGCCACAAGTCGTATTTGc > 2:557122/1‑139 (MQ=255)
gCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTCGGCTGGTGCGATGCGTGGTTATGGCGCGCCACAAGTCGTATTTGCCGtt < 1:308708/139‑1 (MQ=255)
gCTTCTGCGGGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTCGGCTGGTGCGATGCGTGGTTATGGCGCGCCACAAGTCGTATTTGCCGtt < 1:121251/139‑1 (MQ=255)
|
ACCCGTACCCGCCACGCTTTTACCATTGACGGGCAAATGGGCGTGAACCGCGACGGAACATTGAAAGGTTATAGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGC‑GGGGG‑GGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTCGGCTGGTGCGATGCGTGGTTATGGCGCGCCACAAGTCGTATTTGCCGTT > NC_000913/3001164‑3001427
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
