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 |
3,982,684 |
(C)8→9 |
noncoding (79/87 nt) |
leuT → |
tRNA‑Leu |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,982,676 | 1 | . | C | 83.7%
| 125.4
/ 21.2
| 44 | noncoding (71/87 nt) | leuT | tRNA‑Leu |
| Reads supporting (aligned to +/- strand): ref base . (3/4); new base C (21/15); total (25/19) |
| Fisher's exact test for biased strand distribution p-value = 6.80e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CACCCCATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGT‑CCCC‑CCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGTTTGGG > NC_000913/3982579‑3982772
|
cACCCCATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGT‑cc > 2:806215/1‑100 (MQ=255)
ccccATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGT‑ccc < 2:226140/99‑1 (MQ=255)
cccATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGT‑cccc‑c > 1:665733/1‑100 (MQ=255)
cccATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGT‑cccc‑c > 1:639655/1‑100 (MQ=255)
cccATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCATTACGGACGTGGGGGTTCAAGT‑gcc > 2:120633/1‑98 (MQ=255)
ccATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGT‑cccc‑cc > 2:197861/1‑100 (MQ=255)
ccATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAACT‑cccc‑cc < 1:687758/100‑1 (MQ=255)
attattAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGT‑cccc‑cccc > 2:1060278/1‑100 (MQ=255)
ttaGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGT‑cccc‑ccccctcg > 2:949299/1‑96 (MQ=255)
aGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCC‑CCCCTCGca < 2:738780/100‑1 (MQ=255)
aGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCC‑CCCCTCGcacca > 1:1275482/1‑100 (MQ=255)
ttGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCC‑CCCCTCGCACCACg > 1:280359/1‑100 (MQ=255)
gtgACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCC‑CCCCTCGCACCACGAc > 1:207907/1‑100 (MQ=255)
tgACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCC‑CCCCTCGCACCACGACt < 1:741107/100‑1 (MQ=255)
gACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGT‑CCCC‑CCCCTCGCACCACGACttt > 1:137925/1‑100 (MQ=255)
aaTGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGATAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCC‑CCCCTCGCACCACGACTTTaa < 2:832505/100‑1 (MQ=255)
aTGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCC‑CCCCTCGCACCACGACTTTaaa > 2:131006/1‑100 (MQ=255)
tGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCC‑CCCCTCGCACCACGACTTTAAAGAATTGAAc < 2:1180728/100‑1 (MQ=255)
tGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGT‑CCCC‑CCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCa < 1:476452/100‑1 (MQ=255)
ggTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCC‑CCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCa > 2:380866/1‑100 (MQ=255)
tAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCC‑CCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCaaa > 2:1298777/1‑100 (MQ=255)
tAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCC‑CCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCaaa > 2:1185198/1‑100 (MQ=255)
tAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGT‑CCCC‑CCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCaaaa > 2:705567/1‑100 (MQ=255)
aGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGCGTTCAAGTCCCCC‑CCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCaaaa < 2:917924/100‑1 (MQ=255)
gACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCC‑CCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCaaaaa > 2:1214447/1‑100 (MQ=255)
cgcTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCC‑CCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAg < 2:207905/100‑1 (MQ=255)
gcTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGTGGGTTCAATT‑CCCCACTCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTTAAAAAGc < 2:183879/97‑1 (MQ=21)
gcTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCC‑CCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGt > 2:1252490/1‑100 (MQ=255)
cTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCC‑CCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTa > 1:733053/1‑100 (MQ=255)
cTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCC‑CCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTc < 2:639651/100‑1 (MQ=255)
ttCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCC‑CCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCg < 2:308069/100‑1 (MQ=255)
ttCAGGTGTTAGTGTCCTTACGGACGTGGGGGGTCAAGTCCCCC‑CCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCg > 1:808362/1‑100 (MQ=255)
aGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGT‑CCCC‑CCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGa > 2:551008/1‑100 (MQ=255)
ggTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCC‑CCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGa < 1:1298788/100‑1 (MQ=255)
ggTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCC‑CCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGa > 2:117887/1‑100 (MQ=255)
gtTAGTGTCCTTACGGACGTGGGGGTTCAAGTGCCAC‑CCGCTCGCACCACTGCGTTCAAGAATTGCACTAAAACTTCAAAAAGCAGTATTTAGGctcgt > 2:1302671/1‑95 (MQ=16)
aGTGTCCTTACGGACGTGGGGGTTCAAGTCCCCC‑CCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAgcg > 1:559914/1‑100 (MQ=255)
cTTACGGACGTGGGGGTTCAAGTCCCCC‑CCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCtt > 2:283590/1‑100 (MQ=255)
cTTACGGACGTGGGGGTTCAAGTCCCCC‑CCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCtt > 2:653344/1‑100 (MQ=255)
tACGGACGTGGGGGTTCAAGTCCCCC‑CCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTgg > 2:134995/1‑100 (MQ=255)
tACGGACGTGGGGGTTCAAGTCCCCC‑CCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTgg < 1:1060288/100‑1 (MQ=255)
ggACGTGGGGGTTCAAGTCCCCC‑CCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAg < 1:380869/100‑1 (MQ=255)
ggACGTGGGGGTTCAAGTCCCCC‑CCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAg < 1:1252501/100‑1 (MQ=255)
gACGTGGGGGTTCAAGTCCCCC‑CCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAgc > 2:127338/1‑100 (MQ=255)
cGTGGGGGTTCAAGTCCCCC‑CCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAgcgc < 2:192630/100‑1 (MQ=255)
gTGGGGGTCCAAGC‑CCCCACCCATCGCACCACGACTTTAAAGAATTGAAAAAAAAAAAAAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAgcgc < 2:192582/99‑1 (MQ=255)
gggggTTCAAGTCCCCC‑CCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAAc > 2:744030/1‑100 (MQ=255)
ggggTTCAAGTCCCCC‑CCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACt < 1:382087/100‑1 (MQ=255)
ttCAAGTCCCCC‑CCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTGTTTCGCCGAGTAGCCCAGCTTGGTAGCGCAACTGGtt > 2:879444/1‑100 (MQ=255)
ttCAAGTCCCCC‑CCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGtt < 2:280356/100‑1 (MQ=255)
tCAAGTCCCCC‑CCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGttt > 1:288980/1‑100 (MQ=255)
cAAGTCCCCC‑CCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGTTTg > 2:645016/1‑100 (MQ=255)
aaGT‑CCCC‑CCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGTTTggg < 2:137923/100‑1 (MQ=255)
|
CACCCCATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAGT‑CCCC‑CCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGTTTGGG > NC_000913/3982579‑3982772
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
