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 |
1,800,755 |
C→T |
V606I (GTT→ATT) |
thrS ← |
threonyl‑tRNA synthetase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,800,755 | 0 | C | T | 98.0%
| 170.0
/ ‑4.1
| 51 | V606I (GTT→ATT) | thrS | threonyl‑tRNA synthetase |
| Reads supporting (aligned to +/- strand): ref base C (1/0); new base T (24/26); total (25/26) |
| Fisher's exact test for biased strand distribution p-value = 4.90e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.58e-01 |
AGACTGCGGCTGCGAATCTCTTGTTGCAGCTTCTCGATCACTTCATTTACGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAACTTTGCCTGATTCCACCTCTTTATCACCACAGACCAGCATATATGGGACGCGACGCAAAGTGTGCTCGCGGATTTTAAAGCCAATCTTCTCATTT > NC_000913/1800661‑1800849
|
aGACTGCGGCTGCGAATCTCTTGTTGCAGCTTCTCGATCACTTCATTTACGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGc < 1:149826/100‑1 (MQ=255)
cTGCGGCTGCGAATCTCTTGTTGCAGCTTCTCGATCACTTCATTTACGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTg < 1:1273579/100‑1 (MQ=255)
tGCGGCTGCGAATCTCTTGTTGCAGCTTCTCGATCACTTCATTTACGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGa > 2:691869/1‑100 (MQ=255)
gCGGCTGCGAATCTCTTGTTGCAGCTTCTCGATCACTTCATTTACGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGAt > 2:525278/1‑100 (MQ=255)
cGGCTGCGAATCTCTTGTTGCAGCTTCTCGATCACTTCATTTACGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGAtt < 1:693260/100‑1 (MQ=255)
gCGAATCTCTTGTTGCAGCTTCTCGATCACTTCATTTACGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCAcc < 1:1136261/100‑1 (MQ=255)
gCGAATCTCTTGTTGCAGCTTCTCGATCACTTCATTTACGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCAcc < 2:159627/100‑1 (MQ=255)
aTCTCTTGTTGCAGCTTCTCGATCACTTCATTTACGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCACCTCtt < 2:1255551/100‑1 (MQ=255)
tctcTTGTTGCAGCTTCTCGATCACTTCATTTACGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCACCTCttt > 2:217778/1‑100 (MQ=255)
tctcTTGTTGCAGCTTCTCGATCACTTCATTTACGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCACCTCttt < 1:449382/100‑1 (MQ=255)
ctctTGTTGCAGCTTCTCGATCACTTCATTTACGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCACCTCTTTa < 1:374203/100‑1 (MQ=255)
ctctTGTTGCAGCTTCTCGATCACTTCATTTACGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCACCTCTTTa < 1:374302/100‑1 (MQ=255)
tctTGTTGCAGCTTCTCGATCACTTCATTTACGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCACCTCTTTAt > 1:467320/1‑100 (MQ=255)
ctTGTTGCAGCTTCTCGATCACTTCATTTACGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCACCTCTTTATc > 2:445282/1‑100 (MQ=255)
ctTGTTGCAGCTTCTCGATCACTTCATTTACGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCACCTCTTTATc < 2:59916/100‑1 (MQ=255)
tgttgCAGCTTCTCGATCACTTCATTTACGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCACCTCTTTATcac > 1:414/1‑100 (MQ=255)
tgttgCAGCTTCTCGATCACTTCATTTACGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCACCTCTTTATcac < 2:1212190/100‑1 (MQ=255)
ctgCTTCTCGATCACTTCATTTACGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCACCTCTTTATCACCACAg < 2:789345/98‑1 (MQ=255)
cAGCTTCTCGATCACTTCATTTACGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAAGGGCAATTTTGCCTGATTCCACCTCTTTATCACCACAg < 2:698928/100‑1 (MQ=255)
tctcGATCACTTCATTTACGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCACCTCTTTATCACCACAGACCAg < 2:358272/100‑1 (MQ=255)
ctcGATCACTTCATTTACGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCACCTCTTTATCACCACAGACCAGc > 2:1198287/1‑100 (MQ=255)
tcGATCACTTCATTTACGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCACCTCTTTATCACCACAGACCAGCa < 2:398480/100‑1 (MQ=255)
tcGATCACTTCATTTACGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCACCTCTTTATCACCACAGACCAGCa < 1:970359/100‑1 (MQ=255)
cGATCACTTCGTTTACGTCCATGCGTCCCTGGGCTTTACCACGGCGGGTGCGAACGGCAATTTTGCATGATTCCACCTCTTTATCACCACGGTCCAGCat < 2:292183/100‑1 (MQ=255)
cGATCACTTCATTTACGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCACCTCTTTATCACCACAGACCAGCat > 2:698870/1‑100 (MQ=255)
cGATCACTTCATTTACGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCACCTCTTTATCACCACAGACCAGCat > 1:81754/1‑100 (MQ=255)
cGATCACTTCATTTACGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCACCTCTTTATCACCACAGACCAGCat > 2:427346/1‑100 (MQ=255)
gATCACTTCATTTACGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCACCTCTTTATCACCACAGACCAGCata > 1:1143664/1‑100 (MQ=255)
gATCACTTCATTTACGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCACCTCTTTATCACCACAGACCAGCata < 1:812790/100‑1 (MQ=255)
aCTTCATTTACGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCACCTCTTTATCACCACAGACCAGCATATATg > 1:818911/1‑100 (MQ=255)
cTTCATTTACGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCACCTCTTTATCACCACAGACCAGCATATATgg < 1:768403/100‑1 (MQ=255)
ttCATTTACGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCACCTCTTTATCACCACAGACCAGCATATATggg < 1:1031036/100‑1 (MQ=255)
aTTTACGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCACCTCTTTATCACCACAGACCAGCATATATGGgacg < 2:414/100‑1 (MQ=255)
tACGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCACCTCTTTATCACCACAGACCAGCATATATGGgacgcga > 2:400975/1‑100 (MQ=255)
cGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCACCTCTTTATCACCACAGACCAGCATATATGGgacgcgacg < 1:691873/100‑1 (MQ=255)
aTGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCACCTCTTTATCACCACAGACCAGCATATATGGGACGCGACGCAAAg > 1:595309/1‑100 (MQ=255)
aTGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCACCTCTTTATCACCACAGACCAGCATATATGGGACGCGACGCAAAg < 1:1198298/100‑1 (MQ=255)
cAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCACCTCTTTATCACCACAGACCAGCATATATGGGACGCGACGCAAAGTGTGCTcg > 1:96265/1‑100 (MQ=255)
cAGGTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCACCTCTTTATCACCACAGACCAGCATATATGGGACGCGACGCAAAGTGTGCAcg > 2:520162/1‑100 (MQ=255)
ggTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCACCTCTTTATCACCACAGACCAGCATATATGGGACGCGACGCAAAGTGTGCTcgcg > 2:1062695/1‑100 (MQ=255)
ggTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCACCTCTTTATCACCACAGACCAGCATATATGGGACGCGACGCAAAGTGTGCTcgcg < 1:1062705/100‑1 (MQ=255)
gTCTTTACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCACCTCTTTATCACCACAGACCAGCATATATGGGACGCGACGCAAAGTGTGCTCGCgg < 2:598376/100‑1 (MQ=255)
tttACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCACCTCTTTATCACCACAGACCAGCATATATGGGACGCGACGCAAAGTGTGCTCGCGGAtt > 2:59665/1‑100 (MQ=255)
tACCACGGCGGGTGCGAACGGCAATTTTGCCTGATTCCACCTCTTTATCACCACAGACCAGCATATATGGGACGCGACGCAAAGTGTGCTCGCGGAtttt > 1:255403/1‑100 (MQ=255)
ccACGGCGGGTGCGAACGGCAACTTTGCCTGATTCCACCTCTTTATCACCACAGACCAGCATATATGGGACGCGACGCAAAGTGTGCTCGCGGATTTTaa > 1:415113/1‑100 (MQ=255)
gcggGTGCGAACGGCAATTTTGCCTGATTCCACCTCTTTATCACCACAGACCAGCATATATGGGACGCGACGCAAAGTGTGCTCGCGGATTTTAAAGCCa > 1:461463/1‑100 (MQ=255)
cggGTGCGAACGGCAATTTTGCCTGATTCCACCTCTTTATCACCACAGACCAGCATATATGGGACGCGACGCAAAGTGTGCTCGCGGATTTTAAAGCCaa > 2:1129476/1‑100 (MQ=255)
tGCGAACGGCAATTTTGCCTGATTCCACCTCTTTATCACCACAGACCAGCATATATGGGACGCGACGCAAAGTGTGCTCGCGGATTTTAAAGCCAAtctt > 1:574575/1‑100 (MQ=255)
aaCGGCAATTTTGCCTGATTCCACCTCTTTATCACCACAGACCAGCATATATGGGACGCGACGCAAAGTGTGCTCGCGGATTTTAAAGCCAATCTTCTCa < 2:312722/100‑1 (MQ=255)
cGGCAATTTTGCCTGATTCCACCTCTTTATCACCACAGACCAGCATATATGGGACGCGACGCAAAGTGTGCTCGCGGATTTTAAAGCCAATCTTCTCAtt > 1:1191847/1‑100 (MQ=255)
ggCAATTTTGCCTGATTCCACCTCTTTATCACCACAGACCAGCATATATGGGACGCGACGCAAAGTGTGCTCGCGGATTTTAAAGCCAATCTTCTCAttt > 2:40899/1‑100 (MQ=255)
|
AGACTGCGGCTGCGAATCTCTTGTTGCAGCTTCTCGATCACTTCATTTACGTCCATGCTTCCCAGGTCTTTACCACGGCGGGTGCGAACGGCAACTTTGCCTGATTCCACCTCTTTATCACCACAGACCAGCATATATGGGACGCGACGCAAAGTGTGCTCGCGGATTTTAAAGCCAATCTTCTCATTT > NC_000913/1800661‑1800849
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
