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 |
|
A1 F1 I2 R1
|
730 |
35.1 |
2107516 |
91.4% |
1926269 |
80.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,187,697 |
(A)6→7 |
pseudogene (266/2434 nt) |
yqiG → |
putative outer membrane usher protein YqiG |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,187,691 | 1 | . | A | 100.0%
| 68.9
/ NA
| 20 | pseudogene (260/2434 nt) | yqiG | putative outer membrane usher protein YqiG |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base A (7/13); total (7/13) |
GGTATTAATTGATAACCAAACTGCAGTTTGCGTGACACCAGAGCAATTAACATTATTAGGATTTACTGATGAATTTATTG‑AAAAAACTCAGCAAAACCTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCG > NC_000913/3187612‑3187763
|
ggTATTAATTGATAACCAAACTGCAGTTTGCGTGACACCAGAGCAATTAACATTATTAGGATTTACTGATGAATTTATTG‑a < 1:592106/81‑1 (MQ=255)
aTTGATAACCAAACTGCAGTTTGCGTGACACCAGAGCAATTAACATTATTAGGATTTACTGATGAATTTATTG‑aaaaaaac > 1:592151/1‑79 (MQ=255)
tGATAACCAAACTGCAGTTTGCGTGACACCAGAGCAATTAACATTATTAGGATTTACTGATGAATTTATTG‑aaaaaaact > 1:592136/1‑77 (MQ=255)
tAACCAAACTGCAGTTTGCGTGACACCAGAGCAATTAACATTATTAGGATTTACTGATGAATTTATTGAAAAAAACTCAGc < 1:592107/81‑1 (MQ=255)
ccAAACTGCAGTTTGCGTGACACCAGAGCAATTAACATTATTAGGATTTACTGATGAATTTATTGAAAAAAACTCAGCaaa < 1:592108/81‑1 (MQ=255)
cAGTTTGCGTGACACCAGAGCAATTAACATTATTAGGATTTACTGATGAATTTATTGAAAAAAACTCAGCAAAACCTGATc < 1:592109/81‑1 (MQ=255)
aGTTTGCGTGACACCAGAGCAATTAACATTATTAGGATTTACTGATGAATTTATTGAAAAAAACTCAGCAAAACCTGATc > 1:592140/1‑80 (MQ=255)
aGTTTGCGTGACACCAGAGCAATTAACATTATTAGGATTTACTGATGAATTTATTGAAAAAAACTCAGCAAAACCTGATCg < 1:592110/81‑1 (MQ=255)
ttGCGTGACACCAGAGCAATTAACATTATTAGGATTTACTGATGAATTTATTGAAAAAAACTCAGCAAAACCTGATCGATg > 2:592142/1‑81 (MQ=255)
tGCGTGACACCAGAGCAATTAACATTATTAGGATTTACTGATGAATTTATTGAAAAAAACTCAGCAAAACCTGATCGATgg > 2:592137/1‑81 (MQ=255)
tGCGTGACACCAGAGCAATTAACATTATTAGGATTTACTGATGAATTTATTGAAAAAAACTCAGCAAAACCTGATCGATg < 1:592111/80‑1 (MQ=255)
cGTGACACCAGAGCAATTAACATTATTAGGATTTACTGATGAATTTATTGAAAAAAACTCAGCAAAACCTGATCGATGgtt < 1:592112/81‑1 (MQ=255)
gTGACACCAGAGCAATTAACATTATTAGGATTTACTGATGAATTTATTGAAAAAAACTCAGCAAAACCTGATCGATGgttg > 2:592133/1‑81 (MQ=255)
gACACCAGAGCAATTAACATTATTAGGATTTACTGATGAATTTATTGAAAAAAACTCAGCAAAACCTGATCGATGgttgt > 2:592139/1‑80 (MQ=255)
acacCAGAGCAATTAACATTATTAGGATTTACTGATGAATTTATTGAAAAAAACTCAGCAAAACCTGATCGATGgttgtt < 1:592113/80‑1 (MQ=255)
cAGAGCAATTAACATTATTAGGATTTACTGATGAATTTATTGAAAAAAACTCAGCAAAACCTGATCGATGGTTGTTACCCt < 2:592114/81‑1 (MQ=255)
cAATTAACATTATTAGGATTTACTGATGAATTTATTGAAAAAAACTCAGCAAAACCTGATCGATGGTTGTTACCCTATCga < 2:592115/81‑1 (MQ=255)
aTTAACATTATTAGGATTTACTGATGAATTTATTGAAAAAAACTCAGCAAAACCTGATCGATGGTTGTTACCCTATCgaaa < 2:592116/81‑1 (MQ=255)
tAACATTATTAGGATTTACTGATGAATTTATTGAAAAAAACTCAGCAAAACCTGATCGATGGTTGTTACCCTATCgaaa > 2:592171/1‑79 (MQ=255)
ttattaGGATTTACTGATGAATTTATTGAAAAAAACTCAGCAAAACCTGATCGATGGTTGTTACCCTATCgaaaaagaaaa < 1:592117/81‑1 (MQ=255)
aGGATTTACTGATGAATTTATTGAAAAAAACTCAGCAAAACCTGATCGATAGTTGTTACCCTATCGAAAAAGAAAAACaaa > 1:592141/1‑81 (MQ=255)
ggATTTACTGATGAATTTATTGAAAAAAACTCAGCAAAACCTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAAt < 2:592118/81‑1 (MQ=255)
aTTTATTGAAAAAAACTCAGCAAAACCTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCg < 1:592119/81‑1 (MQ=255)
|
GGTATTAATTGATAACCAAACTGCAGTTTGCGTGACACCAGAGCAATTAACATTATTAGGATTTACTGATGAATTTATTG‑AAAAAACTCAGCAAAACCTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCG > NC_000913/3187612‑3187763
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
