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 |
|
A11 F1 I2 R1
|
59 |
52.6 |
2411032 |
94.1% |
2268781 |
113.5 |
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 | 97.8%
| 162.6
/ ‑3.2
| 45 | coding (953/2259 nt) | xdhA | xanthine dehydrogenase, molybdenum binding subunit |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base G (20/24); total (20/25) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.65e-01 |
CGCAACCCGTACCCGCCACGCTTTTACCATTGACGGGCAAATGGGCGTGAACCGCGACGGAACATTGAAAGGTTATAGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGC‑‑GGGGGGGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTCGGCTGGTGCGATGCGTGGTTATGGCGCGCCACAAGTCGTATTTGCCGTT > NC_000913/3001160‑3001427
|
cGCAACCCGTACCCGCCACGCTTTTACCATTGACGGGCAAATGGGCGTGAACCGCGACGGAACATTGAAAGGTTATAGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGC‑‑g > 2:749886/1‑139 (MQ=255)
cGCAACCCGTACCCGCCACGCTTTTACCATTGACGGGCAAATGGGCGTGAACCGCGACGGAACATTGAAAGGTTATAGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGC‑‑g < 2:449778/139‑1 (MQ=255)
cGCAACCCGTACCCGCCACGCTTTTACCATTGACGGGCAAATGGGCGTGAACCGCGACGGAACATTGAAAGGTTATAGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTACATCGCTTCTGC‑‑g > 1:198305/1‑139 (MQ=255)
cAACCCGTACCCGCCACGCTTTTACCATTGACGGGCAAATGGGCGTGAACCGCGACGTAACATTGAAAGGTTATAGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGC‑‑ggg > 1:42289/1‑139 (MQ=255)
cAACCCGTACCCGCCACGCTTTTACCATTGACGGGCAAATGGGCGTGAACCGCGACGGAACATTGAAAGGTTATAGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGC‑‑ggg > 1:817208/1‑139 (MQ=255)
aCCCGTACCCGCCACGCTTTTACCATTGACGGGCAAATGGGCGTGAACCGCGACGGAACATTGAAAGGTTATAGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGC‑‑ggggg < 2:327679/139‑1 (MQ=255)
cccGCCACGCTTTTACCATTGACGGGCAAATGGGCGTGAACCGCGACGGAACATTGAAAGGTTATAGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGC‑‑ggggggggaata > 1:1192862/1‑134 (MQ=255)
cccGCCACGCTTTTACCATTGACGGGCAAATGGGCGTGAACCGCGACGGAACATTGAAAGGTTATAGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGC‑‑ggggggggaata < 2:1192862/139‑6 (MQ=255)
cccGCCACGCTTTTACCATTGACGGGCAAATGGGCGTGAACCGCGACGGAACATTGAAAGGTTATAGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGC‑‑ggggggggaata < 2:66174/139‑6 (MQ=255)
cACGCTTTTACCATTGACGGGCAAATGGGCGTGAACCGCGACGGAACATTTAAAGGTTATAGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCG‑GGGGGGGAATAAAGTc > 2:844293/1‑139 (MQ=255)
gCTTTTACCATTGACGGGCAAATGGGCGTGAACCGCGACGGAACATGGAAAGGTTATAGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCG‑GGGGGGGAATAAAGTCGCt < 2:882264/139‑1 (MQ=255)
cTTTTGCCATTGACGGGCAAATGGGCGTGAACCGCGACGGAACATTGAAAGGTTATAGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCTCTTCTGCGGGGGGGGGAATAAAGTCGCt < 1:749886/139‑1 (MQ=255)
tGACGGGCAAATGGGCGTGAACCGCGACGGAACATTGAAAGGTTATAGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCG‑GGGGGGGAATAAAGTCGCTTACCTTTATcc > 1:1055683/1‑139 (MQ=255)
gACGGGCAAATGGGCGTGAACCGCGACGGAACATTGAAAGGTTATAGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCG‑GGGGGGGAATAAAGTCGCTTACCTTTATCCt > 1:44949/1‑139 (MQ=255)
gACGGGCAAATGGGCGTGAACCGCGACGGAACATTGAAAGGTTATAGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCG‑GGGGGGGAATAAAGTCGCTTACCTTTATCCt > 1:577865/1‑139 (MQ=255)
cGGGCAAATGGGCGTGAACCGCGACGGAACATTGAAAGGTTATAGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCG‑GGGGGGGAATAAAGTCGCTTACCTTTATCCTCg < 2:577865/139‑1 (MQ=255)
cAAATGGGCGTGAACCGCGACGGAACATTGAAAGGTTATAGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGC‑‑GGGGGGGAATAAAGTCGCTTACCTTTATCCTCGTtgtg < 2:220077/139‑1 (MQ=255)
aTGGGCGTGAACCGCGACGGAACAGTGAAAGGTTATAGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCG‑GGGGGGGAATAAAGTCGCTTACCTTTATCCTCGTTGTGcc < 1:676152/139‑1 (MQ=255)
tGAACCGCGACGGAACATTGAAAGGTTATAGTCTGGATTTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCG‑GGGGGGGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCtt < 1:622933/139‑1 (MQ=255)
gAACATTGAAAGGTTATAGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCG‑GGGGGGGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGa < 2:979946/139‑1 (MQ=255)
cATTGAAAGGTTATAGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCG‑GGGGGGGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCt < 1:337644/139‑1 (MQ=255)
tGAAAGGTTATAGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCG‑GGGGGGGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCt < 1:497449/139‑1 (MQ=255)
ttATAGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCG‑GGGGGGGAATAAAGTCGCTTa < 2:300741/88‑1 (MQ=255)
ttATAGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCG‑GGGGGGGAATAAAGTCGCTTa > 1:300741/1‑88 (MQ=255)
ggATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCG‑GGGGGGGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTc > 1:419350/1‑139 (MQ=255)
gATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCG‑GGGGGGGAATAAAGTCGCt > 2:1122502/1‑76 (MQ=255)
gATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCG‑GGGGGGGAATAAAGTCGCt < 1:1122502/76‑1 (MQ=255)
gATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCG‑GGGGGGGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCaaa > 1:173364/1‑114 (MQ=255)
gATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCG‑GGGGGGGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCaaa < 2:173364/114‑1 (MQ=255)
ttCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCG‑GGGGGGGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTCGGCTg < 1:506306/139‑1 (MQ=255)
cTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCG‑GGGGGGGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTCGGCTGGt > 1:299486/1‑139 (MQ=255)
cTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGC‑‑gg < 1:791191/52‑1 (MQ=255)
cTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGC‑‑gg > 2:791191/1‑52 (MQ=255)
tAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGCG‑GGGGGGGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTCGGCTGGTGCGAt > 1:671589/1‑139 (MQ=255)
aaCACCGGCGCTTACGCATCTCACGGGCACTCCATCGCTTCTGCG‑GGGGGGGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTCGGCTGGTGCGATg < 1:844293/139‑1 (MQ=255)
gcgcTTATGCATCTCACGGGCACTCCATCGCTTCTGCGGGGGGGGGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTCGCCTGGTGCGATGCGTGGt > 1:77925/1‑139 (MQ=255)
gcgcTTATGCATCTCACGGGCACTCCATCGCTTCTGCG‑GGGGGGGAATAAAGTCGCTTAc > 2:399078/1‑60 (MQ=255)
gcgcTTATGCATCTCACGGGCACTCCATCGCTTCTGCG‑GGGGGGGAATAAAGTCGCTTAc < 1:399078/60‑1 (MQ=255)
gcgcTTATGCATCTCACGGGCACTCCATCGCTTCTGCG‑GGGGGGGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGa > 1:723582/1‑97 (MQ=255)
gcgcTTATGCATCTCACGGGCACTCCATCGCTTCTGCG‑GGGGGGGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGa < 2:723582/97‑1 (MQ=255)
ctcACGGGCACTCCATCGCTTCTGCG‑GGGGGGGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTa > 1:744400/1‑74 (MQ=255)
ctcACGGGCACTCCATCGCTTCTGCG‑GGGGGGGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTa < 2:744400/74‑1 (MQ=255)
cACGGGCACTCCATCGCTTCTGCG‑GGGGGGGAATAAAg < 1:781644/38‑1 (MQ=255)
cACGGGCACTCCATCGCTTCTGCG‑GGGGGGGAATAAAg > 2:781644/1‑38 (MQ=255)
cTCCATCGCTTCTGCG‑GGGGGGGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCa < 2:613991/71‑1 (MQ=255)
cTCCATCGCTTCTGCG‑GGGGGGGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCa > 1:613991/1‑71 (MQ=255)
cTCCATCGCTTCTGCG‑GGGGGGGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTg < 1:90312/79‑1 (MQ=255)
cTCCATCGCTTCTGCG‑GGGGGGGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTg > 2:90312/1‑79 (MQ=255)
cTCCATCGCTTCTGCG‑GGGGGGGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTCGGCTGGTGCGATg > 1:450072/1‑110 (MQ=255)
cTCCATCGCTTCTGCG‑GGGGGGGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTCGGCTGGTGCGATg < 2:450072/110‑1 (MQ=255)
cATCGCTTCTGCG‑GGGGGGGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTCGGCTGGTGCGATGCGTGGTTATGGCGCGCCACAAGTCGTATTTGc > 1:200245/1‑139 (MQ=255)
tCGCTTCTGCG‑GGGGGGGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGA‑CTGCTATACCAACCTCCCCTCGGCTGGTGCGATGCGTGGTTATGGCGCGCca < 1:369508/122‑1 (MQ=255)
tCGCTTCTGCG‑GGGGGGGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGA‑CTGCTATACCAACCTCCCCTCGGCTGGTGCGATGCGTGGTTATGGCGCGCca > 2:369508/1‑122 (MQ=255)
cGCTTCTGCG‑GGGGGGGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTCGGCTGGTGCGATGCGTGGTTATGGCGCGCCACAAGTCGTATTTGCCGt < 2:419350/139‑1 (MQ=255)
gCTTCTGCG‑GGGGGGGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTTCGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTCGGCTGGTGCGATGCGTGGTTATGGCGCGCCACAAGTCGTATTTGCCGtt < 1:659573/139‑1 (MQ=255)
gCTTCTGCG‑GGGGGGGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTCGGCTGGTGCGATGCGTGGTTATGGCGCGCCACAAGTCGTATTTGCCGtt < 2:1173741/139‑1 (MQ=255)
|
CGCAACCCGTACCCGCCACGCTTTTACCATTGACGGGCAAATGGGCGTGAACCGCGACGGAACATTGAAAGGTTATAGTCTGGATGTTCTGTCTAACACCGGCGCTTATGCATCTCACGGGCACTCCATCGCTTCTGC‑‑GGGGGGGAATAAAGTCGCTTACCTTTATCCTCGTTGTGCCTACGCTTACAGTTCAAAGACCTGCTATACCAACCTCCCCTCGGCTGGTGCGATGCGTGGTTATGGCGCGCCACAAGTCGTATTTGCCGTT > NC_000913/3001160‑3001427
|
| 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
