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 |
|
A12 F56 I1 R1
|
165 |
53.8 |
2611523 |
96.4% |
2517508 |
99.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,828,936 |
T→C |
intergenic (‑271/‑9) |
gltS ← / → xanP |
glutamate transporter/xanthine permease |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,828,936 | 0 | T | C | 93.1%
| 175.6
/ 2.4
| 58 | intergenic (‑271/‑9) | gltS/xanP | glutamate transporter/xanthine permease |
| Reads supporting (aligned to +/- strand): ref base T (2/2); new base C (29/25); total (31/27) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.38e-01 |
TGCATTTATCTCATTTAAATATTTAGATGAGGATGTGGCAAACGTTTGCTTTTCTCTTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGATTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATGCGCAACCGGTTGCGCAGACTCAAAACAGCGAACTGATTTACCGTCTTGAAGATCG > NC_000913/3828842‑3829030
|
tGCATTTATCTCATTTAAATATTTAGATGAGGATGTGGCAAACGTTTGCTTTTCTCTTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACTGttt < 2:79122/100‑1 (MQ=255)
cATTTATCTCATTTAAATATTTAGATGAGGATGTGGCAAACGTTTGCTTTTCTCTTTCGGTCAGCTAAACTGCCCGCTTTGCTACCACGGGATTGTTTTc > 1:902845/1‑100 (MQ=255)
cATTTATCTCATTTAAATATTTAGATGAGGATGTGGCAAACGTTTGCTTTTCTCTTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTc < 2:535116/100‑1 (MQ=255)
cATTTATCTCATTTAAATATTTAGATGAGGATGTGGCAAACGTTTGCTTTTCTCTTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTc < 2:317048/100‑1 (MQ=255)
atctctcATTTAAATATTTAGATGAGGATGTGGCAAACGTTTGCTTTTCTCTTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTCGAt < 2:1205132/97‑1 (MQ=255)
tATCTCATTTAAATATTTAGATGAGGATGTGGCAAACGTTTGCTTTTCTCTTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTCGATg > 2:200395/1‑100 (MQ=255)
ctcATTTAAATATTTAGATGAGGATGTGGCAAACGTTTGCTTTTCTCTTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTCGAtagat > 1:1205143/1‑96 (MQ=255)
ctcATTTAAATATTTAGATGAGGATGTGGCAAACGTTTGCTTTTCTCTTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTCGATGTCt < 1:1098798/100‑1 (MQ=255)
cATTTAAATATTTAGATGAGGATGTGGCAAACGTTTGCTTTTCTCTTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTCGATGTCTGt > 2:836430/1‑100 (MQ=255)
tttAAATATTTAGATGAGGATGTGGCAAACGTTTGCTTTTCTCTTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGTGACTGTTTTCGATGTCTGttt > 2:711696/1‑100 (MQ=255)
tttAAATATTTAGATGAGGATGTGGCAAACGTTTGCTTTTCTCTTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTCGATGTCTGttt < 1:1187070/100‑1 (MQ=255)
tttAAATATTTAGATGAGGATGTGGCAAACGTTTGCTTTTCTCTTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTCGATGTCTGttt < 1:1187825/100‑1 (MQ=255)
aaTATTTAGATGAGGATGTGGCAAACGTTTGCTTTTCTCTTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTCGATGTCTGTTTCCAc < 1:1190079/100‑1 (MQ=255)
aGATGAGGATGTGGCAAACGTTTGCTTTTCTCTTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTCGATGTCTGTTTCCACCCTCGAg > 1:1039560/1‑100 (MQ=255)
gATGAGGATGTGGCAAACGTTTGCTTTTCTCTTTCGGTCAGCTAAAATGCCCGCTCTGCTACCACGGGACTGTTTTCGATGTCTGTTTCCACCCTCGAGt > 1:853586/1‑100 (MQ=255)
tGAGGATGTGGCAAACGTTTGCTTTTCTCTTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTCGATGTCTGTTTCCACCCTCGAGTCa > 1:605803/1‑100 (MQ=255)
tGAGGATGTGGCAAACGTTTGCTTTTCTCTTTCGGTCAGCTAAAATGCACGCTTTGCTACCACGGGACTGTTTTCGATGTCTGTTTCCACCCCCGAGTCa > 2:1213694/1‑100 (MQ=255)
gAGGATGTGGCAAACGTTTGCTTTTCTCTTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAg > 2:773878/1‑100 (MQ=255)
tgtgGCAAACGTTTGCTTTTCTCTTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAAt < 2:380372/100‑1 (MQ=255)
gtgGCAAACGTTTGCTTTTCTCTTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATg < 2:2873/100‑1 (MQ=255)
ggCAAACGTTTGCTTTTCTCTTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATgcg > 2:1178303/1‑100 (MQ=255)
ggCAAACGTTTGCTTTTCTCTTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATgcg > 2:633885/1‑100 (MQ=255)
gCAAACGTTTGCTTTTCTCTTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATgcg < 1:711701/99‑1 (MQ=255)
cAAACGTTTGCTTTTCTCTTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATgcgc > 2:727340/1‑99 (MQ=255)
cAAACGTTTGCTTTTCTCTTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATgcgc < 2:248632/99‑1 (MQ=255)
cAAACGTTTGCTTTTCTCTTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACAGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATGCGCa > 2:852249/1‑100 (MQ=255)
cGTTTGCTTTTCTCTTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTCGATGTCTGTTTCCACCCCCGAGTCAGAAAATGCGCAACCg > 2:1191492/1‑100 (MQ=255)
cGTTTGCTTTTCTCTTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTCGATGTCTGTTTCCACCCCCGAGTCAGAAAATGCGCAACCg > 2:1191607/1‑100 (MQ=255)
gCTTTTCTCTTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATGCGCAACCGGTTgc < 1:995331/100‑1 (MQ=255)
gCTTTTCTCTTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATGCGCAACCGGTTgc > 1:1233976/1‑100 (MQ=255)
cTTTTCTCTTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGATTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATGCGCAACCGGTTgcg > 2:125775/1‑100 (MQ=255)
tttCTCTTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGATTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATGCGCAACCGGTTGCGCa < 1:621604/100‑1 (MQ=255)
tctcCTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATGCGCAACCGGTTGCGCAGa > 2:642683/1‑100 (MQ=255)
ctctTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATGCGCAACCGGTTGCGCAGAc < 2:44146/100‑1 (MQ=255)
ctctTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATGCGCAACCGGTTGCGCAGAc < 1:1077370/100‑1 (MQ=255)
tctTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATGCGCAACCGGTTGCGCAGACt < 2:1003270/100‑1 (MQ=255)
ctTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATGCGCAACCGGTTGCGCAGACTc < 2:256650/100‑1 (MQ=255)
tttCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATGCGCAACCGGTTGCGCAGACTCa > 2:909026/1‑100 (MQ=255)
tttCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATGCGCAACCGGTTGCGCAGACTCa > 2:500584/1‑100 (MQ=255)
tttCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTCGATGTCTGTTTCCACCCCCGAGTCAGAAAATGCGCAACCGGTTGCGCAGACTCa < 1:1191503/100‑1 (MQ=255)
tttCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTCGATGTCTGTTTCCACCCCCGAGTCAGAAAATGCGCAACCGGTTGCGCAGACTCa < 1:1191618/100‑1 (MQ=255)
tCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATGCGCAACCGGTTGCGCAGACTCaaa > 2:18455/1‑100 (MQ=255)
ggTCAGCTAAAATGCCCGCTTTGCTACCACGGGATTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATGCGCAACCGGTTGCGCAGACTCAAAAc < 2:902838/100‑1 (MQ=255)
cAGCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATGCGCAACCGGTTGCGCAGACTCAAAACAGc > 2:851789/1‑100 (MQ=255)
gCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATGCGCAACCGGTTGCGCAGACTCAAAACAGCGa > 2:17872/1‑100 (MQ=255)
gCTAAAATGCCCGCTTTGCTACCACGGGACTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATGCGCAACCGGTTGCGCAGACTCAAAACAGCGa > 1:89788/1‑100 (MQ=255)
aaaTGCCCGCTTTGCTACCACGGGACTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATGCGCAACCGGTTGCGCAGACTCAACAAAGCGAACTg > 2:929219/1‑100 (MQ=255)
gCCCGCTTTGCTACCACGGGACTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATGCGCAACCGGTTGCGCAGACTCAAAACAGCGAACTGAttt < 1:610711/100‑1 (MQ=255)
cccGCTTTGCTACCACGGGACTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATGCGCAACCGGTTGCGCAGACTCAAAACAGCGAACTGATTTa > 1:310180/1‑100 (MQ=255)
ccGCTTTGCTACCACGGGACTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATGCGCAACCGGTTGCGCAGACTCAAAACAGCGAACTGATTTAc > 1:213656/1‑100 (MQ=255)
ccGCTTTGCTACCACGGGACTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATGCGCAACCGGTTGCGCAGACTCAAAACAGCGAACTGATTTAc < 1:200397/100‑1 (MQ=255)
gCTAGCACGGGACTGTTGTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATGCGCAACCGGTTGCGCAGACTCAAAACAGCGAACTGATTTACCGTCt < 2:287373/98‑1 (MQ=255)
tACCACGGGACTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATGCGCAACCGGTTGCGCAGACTCAAAACAGCGAACTGATTTACCGTCTTGaa > 1:253029/1‑100 (MQ=255)
tACCACGGGACTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATGCGCAACCGGTTGCGCAGACTCAAAACAGCGAACTGATTTACCGTCTTGaa < 1:263678/100‑1 (MQ=255)
tACCACGGGACTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATGCGCAACCGGTTGCGCAGACTCAAAACAGCGAACTGATTTACCGTCTTGaa > 2:531529/1‑100 (MQ=255)
tACCACGGGACTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATGCGCAACCGGTTGCGCAGACTCAAAACAGCGAACTGATTTACCGTCTTGa > 2:515684/1‑99 (MQ=255)
aCCACGGGACGGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATGCGCAACCGGTTGCGCAGTCTTAAAACAGCGAACTGATTTACCGTCTTGAAg < 2:856154/100‑1 (MQ=255)
cGGGACTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATGCGCAACCGGTTGCGCAGACTCAAAACAGCGAACTGATTTACCGTCTTGAAGATCg < 2:350742/100‑1 (MQ=255)
|
TGCATTTATCTCATTTAAATATTTAGATGAGGATGTGGCAAACGTTTGCTTTTCTCTTTCGGTCAGCTAAAATGCCCGCTTTGCTACCACGGGATTGTTTTCGATGTCTGTTTCCACCCTCGAGTCAGAAAATGCGCAACCGGTTGCGCAGACTCAAAACAGCGAACTGATTTACCGTCTTGAAGATCG > NC_000913/3828842‑3829030
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
