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 |
|
A2 F73 I0 R1
|
132 |
75.9 |
2634066 |
97.4% |
2565580 |
143.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
3,270,030 |
T→C |
21.9% |
intergenic (+428/+186) |
yhaC → / ← rnpB |
pentapetide repeats‑related protein/RNase P, M1 RNA component |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,270,030 | 0 | T | C | 21.9%
| 46.3
/ 13.6
| 32 | intergenic (+428/+186) | yhaC/rnpB | pentapetide repeats‑related protein/RNase P, M1 RNA component |
| Reads supporting (aligned to +/- strand): ref base T (10/15); new base C (5/2); total (15/17) |
| Fisher's exact test for biased strand distribution p-value = 2.09e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.33e-01 |
TCTTTTGGGTATAGTGTCGTGGACAGTCATTCATCTTTCTGCCCCTCCAAAAGTAAAAACCCGCCGAAGCGGGTTTTTACGTAAAACAGGTGAAACTGACCGATAAGCCGCTTTCTTTTGGGTATAGTGTCGTGGACAGTCATTCATCTTTCTGCCCCTCCAAAAGCAAAAACCCGCCGAAGCGGGTTTTTACGTAAACCAGGTGAAACTGACCGATAA > NC_000913/3269903‑3270121
|
gctttTGAGTTTTGTGTCGTCGACTGTGATTGTTCTATCTGCCCCTCAACAAGTAAAAACCCGCCGTAGCGGGTTTTTACGTAAAACAGGTGAAACTGACCGATAAGCCGCTTTCTTTTGGGTATAGTGTCGTGGACAGTCATTCATc < 3:246710/147‑1 (MQ=11)
tcattcatCTTTCTGCCCCTCCAAAAGTAAAAACCCGCCGAAGCGGGTTTTTACGTAAAACAGGTGAAACTGACCGATAAGCCGCTTTCTTTTGGGTATAGCGTCGTg > 8:258171/1‑108 (MQ=17)
tcattcatCTTTCTGCCCCTCCAAAAGTAAAAACCCGCCGAAGCGGGTTTTTACGTAAAACAGGTGAAACTGACCGATAAGCCGCTTTCTTTTGGGTATAGCGTCGTGGACAGtc > 7:296215/1‑115 (MQ=17)
tcattcatCTTTCTGCCCCTCCAAAAGTAAAAACCCGCCGAAGCGGGTTTTTACGTAAAACAGGTGAAACTGACCGATAAGCCGCTTTCTTTTGGGTATAGCGTCGTGGACAGtc < 8:296215/115‑1 (MQ=17)
ttcatCTTTCTGCCCCTCCAAAAGTAAAAACCCGCCGAAGCGGGTTTTTACGTAAAACAGGTGAAACTGACCGATAAGCCGCTTTCTTTTGGGTATAGCGTCGTGGa > 8:60029/1‑107 (MQ=17)
atCTTTCTGCCCCTCCAAAAGTAAAAACCCGCCGAAGCGGGTTTTTACGTAAAACAGGTGAAACTGACCGATAAGCCGCTTTCTTTTGGGTATAGCGTCGTGGa > 4:196819/1‑104 (MQ=17)
tCTTTCTGCCCCTCCAAAAGTAAAAACCCGCCGAAGCGGGTTTTTACGTAAAACAGGTGAAACTGACCGATAAGCCGCTTTCTTTTGGGTATAGTGTCGTGGACAGTCATTCATCTTTCTGcc > 5:255661/1‑123 (MQ=38)
tCTTTCTGCCCCTCCAAAAGTAAAAACCCGCCGAAGCGGGTTTTTACGTAAAACAGGTGAAACTGACCGATAAGCCGCTTTCTTTTGGGTATAGTGTCGTGGACAGTCATTCATCTTTCTGcc < 6:255661/123‑1 (MQ=38)
cTCCAAAAGTAAAAACCCGCCGAAGCGGGTTTTTACGTAAAACAGGTGAAACTGACCGATAAGCCGCTTTCTTGTGGGTATAGTGTCGTGGACAGTAATTCAGATTTCTGCACCTCCAAAAGCAAAAACCCGCCGAATCGGGTTTGTAc > 8:164805/1‑149 (MQ=11)
gTAAAAACCCGCCGAAGCGGGTTTTTACGTAAAACAGGTGAAACTGACCGATAAGCCGCTTTCTTTTGGGTATAGTGTCGTGGACAGTCATTCATCTTTCTGCCCCTCCAAAAGCAAAAACCCGCTTCGGCGGGtttttgcttttg > 8:154368/1‑139 (MQ=11)
gTAAAAACCCGCCGAAGCGGGTTTTTACGTAAAACAGGTGAAACTGACCGATAAGCCGCTTTCTTTTGGGTATAGCGTCGTGGACAGtc < 5:263566/89‑1 (MQ=17)
gTAAAAACCCGCCGAAGCGGGTTTTTACGTAAAACAGGTGAAACTGACCGATAAGCCGCTTTCTTTTGGGTATAGCGTCGTGGACAGtc > 6:263566/1‑89 (MQ=17)
gTAAAAACCCGCCGAAGCGGGTTTTTACGTAAAACAGGTGAAACTGACCGATAAGACGCTTTCTTTTGGGTATAGTGTCGTGGACAGTCATTCATCTTTCTGCCCCTCCaaaa > 2:219666/1‑113 (MQ=38)
tAACAACCCGCCGAAGCGGGTTTTTACGTAAAACAGGTGAAACTGACCGATAAGCCGCTTTCTTTTGGGTATAGTGTCGTGGACAGTCATTCATCTTTCTGCCCCTCCAACAGCAAAAACCCGCCGAAGCGGGTTTTTACGTAAACCAg < 7:164805/149‑1 (MQ=255)
cacaaaCCCGCCGCACCGGTTTTTTACGTAAAACAGGTTAAACTGACCGATAAGCCGCTTTCTTTTGGGTATAGTGTCGTGGACAGTCATTCATCTTTCTGCCCCTCCAAAAGCAAAAACCCGCCGAAGCGGGTTTTTACGTAAACCAg < 5:105471/146‑1 (MQ=11)
acaaaCCCGCCGCATCGGTTTATTACGTAAAACAGGTCAAACTGACCGATAAGCCGCTTTCTTTTGGGAATAGTGTCGTGGACAGTCAATCATCTATCTGCCCCTCCAAAAGCAAAAACCCGCCGAAGCGGGTTTTTACGTAAACCAg < 5:100932/146‑1 (MQ=11)
aaaaCCCGCTTCGGCGGGTTTTTACGTAAAACAGGTGAAACTGACCGATAAGCCGCTTTCTTTTGGGTATAGTGTCGTGGACAGTCATTCATCttt > 8:162939/1‑96 (MQ=11)
aaaaCCCGCTTCGGCGGGTTTTTACGTAAAACAGGTGAAACTGACCGATAAGCCGCTTTCTTTTGGGTATAGTGTCGTGGACAGTCATTCATCttt < 7:162939/96‑1 (MQ=11)
cccGCCGAAGCGGGTTTTTACGTAAAACAGGTGAAACTGACCGATAAGCCGCTTTCTTTTGGGTATAGTGTCGTGGACAGTCATTCATCTTTCTGCCCCTCCAAAAGCAAAAACCCGCCGAAGCGGGTTTTTACGTAAACCAGGTGaaa < 7:218778/149‑1 (MQ=37)
ccgccgTACCGGGTTTTTATTTAAATCAGGTTAAACTGACCGATAAGCCGCTTTCTTTTGGGTATAGTGTCGTGGACAGTCATTCATCTTTCTGCCCCTCCAAAATCAAAAACCCGCCGAAGCGGGTTTTTACGTAAACCAGGTGAAAc < 4:275452/149‑1 (MQ=11)
ccgccgTACCGGGTTTTTACGTACAACAGGTTAAACTGACCCATAAGCCGCTTTCTTTTGGGTATAGTGTCGTGGACAGTCATTCATCTTTCTGCCCCTCCAAAAGCATAAACCCGCCGAAGCGGGTTTTTACGTAAACCAGGTGAAAc < 6:87815/149‑1 (MQ=11)
gCGGTTTATTACGTACAACAGGTTTAACACACCGATAAGCCGACTGCTTTTGCGTCTCTTGTCGTGGACTGTGTTTTTTCTTTCTGCCACTCCAAAAGCATAAACCCGCCGCACCGGGTTTTTACGTAAACCAGGTTAAACTGACCGAt < 6:6883/149‑1 (MQ=255)
aCCGATAAGCCGCTTTCTTTTGGGTATAGTGTCGTGGACAGTCATTCATCTTTCTGCCCCTCCAAAAGCAAAAACCCGCCGAAGCTGGTTTTTACGTAAACCAGGTGAAACTGACCGATaa < 4:290866/121‑1 (MQ=25)
aCCGATAAGCCGCTTTCTTTTGGGTATAGTGTCGTGGACAGTCATTCATCTTTCTGCCCCTCCAAAAGCAAAAACCCGCCGAAGCGGGTTTTTACGTAAACCAGGTGAAACTGACCGATaa > 3:290866/1‑121 (MQ=35)
ttttGGGTATAGTGTCGTGGACAGTCATTCATCTTTCTGCCCCTCCAAAAGCAAAAACCCGCCGAAGCGGGTTTTTAc < 6:66693/78‑1 (MQ=34)
ttttGGGTATAGTGTCGTGGACAGTCATTCATCTTTCTGCCCCTCCAAAAGCAAAAACCCGCCGAAGCGGGTTTTTAc > 5:66693/1‑78 (MQ=34)
ttGGGTATAGTGTCGTGGACAGTCATTCATCTTTCTGCCCCTCCAAAAGCAAAAACCCGCCGAAGCgg > 2:166302/1‑68 (MQ=35)
ttGGGTATAGTGTCGTGGACAGTCATTCATCTTTCTGCCCCTCCAAAAGCAAAAACCCGCCGAAGCgg < 1:166302/68‑1 (MQ=35)
ggTATAGTGTCGTGGACAGTCATTCATCTTTCTGCCCCTCCAAAAGCAAAAAccc > 4:39730/1‑55 (MQ=35)
ggTATAGTGTCGTGGACAGTCATTCATCTTTCTGCCCCTCCAAAAGCAAAAAccc < 3:39730/55‑1 (MQ=35)
gTATAGTGTCGTGGACAGTCATTCATCTTTCTGCCCCTCCAAAAGCAAAAACCCGCCGAAGCgg > 6:209756/1‑64 (MQ=35)
gTATAGTGTCGTGGACAGTCATTCATCTTTCTGCCCCTCCAAAAGCAAAAACCCGCCGAAGCgg < 5:209756/64‑1 (MQ=35)
|
TCTTTTGGGTATAGTGTCGTGGACAGTCATTCATCTTTCTGCCCCTCCAAAAGTAAAAACCCGCCGAAGCGGGTTTTTACGTAAAACAGGTGAAACTGACCGATAAGCCGCTTTCTTTTGGGTATAGTGTCGTGGACAGTCATTCATCTTTCTGCCCCTCCAAAAGCAAAAACCCGCCGAAGCGGGTTTTTACGTAAACCAGGTGAAACTGACCGATAA > NC_000913/3269903‑3270121
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
