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 |
1,665,195 |
(T)7→8 |
intergenic (+75/‑120) |
dmsD → / → clcB |
twin‑argninine leader‑binding protein for DmsA and TorA/H(+)/Cl(‑) exchange transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,665,188 | 1 | . | T | 93.3%
| 95.5
/ 0.7
| 31 | intergenic (+68/‑127) | dmsD/clcB | twin‑argninine leader‑binding protein for DmsA and TorA/H(+)/Cl(‑) exchange transporter |
| Reads supporting (aligned to +/- strand): ref base . (0/2); new base T (12/16); total (12/19) |
| Fisher's exact test for biased strand distribution p-value = 5.03e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.88e-01 |
CCTGTCGCGGTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACG‑TTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTGCTCATG > NC_000913/1665091‑1665281
|
ccTGTCGCGGTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACG‑tt > 1:662408/1‑100 (MQ=255)
cTGTCGCGGTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACG‑ttt < 1:949592/100‑1 (MQ=255)
cgcgGTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACG‑ttttttt > 2:154731/1‑100 (MQ=255)
gcgGTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACG‑tttttttt > 2:246772/1‑99 (MQ=255)
ggTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACG‑tttttttta < 2:974560/99‑3 (MQ=255)
ggTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACG‑tttttttta > 1:1019750/1‑97 (MQ=255)
aCCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTa < 2:514939/100‑1 (MQ=255)
gCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAg < 1:290098/100‑1 (MQ=255)
cTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAgc < 2:1264199/100‑1 (MQ=255)
cTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACG‑TTTTTTTATCTCTTAAAgca < 2:723876/100‑1 (MQ=255)
ttCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAgcacgc < 2:720408/100‑1 (MQ=255)
cGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAgcacgcac < 2:40975/100‑1 (MQ=255)
gATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACt > 1:1184613/1‑100 (MQ=255)
ggATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCt > 1:1211862/1‑99 (MQ=255)
gATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCttt > 1:683433/1‑100 (MQ=255)
gATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCttt > 1:910492/1‑100 (MQ=255)
aTCACCGTAATATTGCCGGATGGTGACGACTACGCGCACTCCGGCAATAATAGGTTACCGTGTCACGCTTTCTTTATCTCTTAAAGCACGCCCCGCttt < 2:58733/99‑1 (MQ=255)
aCCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCg < 2:395986/100‑1 (MQ=255)
ccGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCgg < 2:347439/100‑1 (MQ=255)
ccGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCgg > 2:613919/1‑100 (MQ=255)
cGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGc < 1:736811/100‑1 (MQ=255)
gTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCt > 2:451836/1‑100 (MQ=255)
ttGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCctc < 1:769173/100‑1 (MQ=255)
gCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCtt > 1:347059/1‑100 (MQ=255)
ggATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTg < 1:219906/100‑1 (MQ=255)
gATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGc < 2:925582/100‑1 (MQ=255)
gTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCa < 2:260856/100‑1 (MQ=255)
aCGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACG‑TTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAAt < 1:537052/100‑1 (MQ=255)
cgcgCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGc > 2:361200/1‑100 (MQ=255)
aTCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCgtgt < 2:282281/100‑1 (MQ=255)
tCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAATCACGCACTGCTTTTGCGGCTGTCCTCTTTTGCCTCAAGATGGTCGCCCGTCtt > 2:714675/1‑100 (MQ=255)
tCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGtt > 1:849866/1‑100 (MQ=255)
aGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCAtt < 1:1045206/100‑1 (MQ=255)
ggTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCAttt > 2:817041/1‑100 (MQ=255)
aCAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTGc < 1:204634/100‑1 (MQ=255)
aCAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTGc > 1:419965/1‑100 (MQ=255)
gtCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTGCTCATg < 1:154733/100‑1 (MQ=255)
|
CCTGTCGCGGTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACG‑TTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTGCTCATG > NC_000913/1665091‑1665281
|
| 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
