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 |
|
A11 F142 I0 R1
|
175 |
91.2 |
4812830 |
94.5% |
4548124 |
99.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
1,665,195:1 |
(T)7→8 |
100% |
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 | 89.4%
| 139.1
/ 11.8
| 47 | 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 . (3/2); new base T (19/23); total (22/25) |
| Fisher's exact test for biased strand distribution p-value = 6.54e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TTCCTGTCGCGGTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑G‑‑‑T‑TTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTGCTCATG > NC_000913/1665089‑1665281
|
ttCCTGTCGCGGTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGGTTACGCGCAATACGGCAATAATAGGTTAAAGTGTCAC‑g > 1:2366344/1‑100 (MQ=255)
ccTGTCGCGGTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑G‑‑‑t‑t > 2:264880/1‑100 (MQ=255)
gTCGCGGTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑G‑‑‑t‑tttt > 1:1330021/1‑100 (MQ=255)
tCGCGGTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑G‑‑‑t‑ttttt < 2:1500892/100‑1 (MQ=255)
cgcgGTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑G‑‑‑t‑tttttt < 1:1036426/100‑1 (MQ=255)
cgcgGTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑G‑‑‑t‑tttttt > 1:462145/1‑100 (MQ=255)
cgcgGTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑G‑‑‑t‑tttttt < 2:338569/100‑1 (MQ=255)
gcgGTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑G‑‑‑t‑tttttt < 1:1974232/99‑1 (MQ=255)
cgGTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑G‑‑‑t‑ttttttta < 2:748621/100‑3 (MQ=255)
ggTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑G‑‑‑t‑tttttttat < 1:141041/100‑4 (MQ=255)
ttAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑G‑‑‑t‑tttttttatct < 2:1127938/100‑6 (MQ=255)
ccGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑G‑‑‑T‑TTTTTTATCTCTTaaa < 2:2065755/100‑1 (MQ=255)
tGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCTCAATCCGGCAATAATAGGTTACAGTGTCAC‑GT‑‑T‑TTTTTTATCTCTTAAAgca < 2:1168198/100‑1 (MQ=255)
tGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GT‑‑T‑TTTTTTATCTCTTAAAgca < 2:33704/100‑1 (MQ=255)
ntttCGATAGGATCACCGTAATATTGCCGGAAGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGAGCCAC‑GT‑‑T‑TTTTTTATCTCTTAAAgca > 2:2208132/2‑99 (MQ=255)
gTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GT‑‑T‑TTTTTTATCTCTTAAAgcac > 1:394868/1‑100 (MQ=255)
tttCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GT‑‑T‑TTTTTTATCTCTTAAAgcacg < 1:1246962/100‑1 (MQ=255)
tttCGATAGGATCACCGTAATATTGCCGGAGGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GT‑‑T‑TTTTTTATCTCTTAAAgcacg < 2:1333412/100‑1 (MQ=255)
ttCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GT‑‑T‑TTTTTTATCTCTTAAAgcacgc > 1:288755/1‑100 (MQ=255)
gATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GTTTT‑TTTTTTATCTCTTAAAgcacgc > 1:821895/1‑99 (MQ=255)
ggATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GT‑‑T‑TTTTTTATCTCTTAAAGCACGCACTGCtt > 1:1697237/1‑100 (MQ=255)
gcaTCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GT‑‑T‑TTTTTTATCTCTTAAAGCACGCACTGCtt > 1:1624358/3‑100 (MQ=255)
aTCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GT‑‑T‑TTTTTTATCTCTTAAAGCACTCACTGCtttt > 1:865884/1‑100 (MQ=255)
tCACCGTAATTTTGCCGGATGGTTACGATTTCGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GT‑‑T‑TTTTTTATCTCTTAAAGCACGCACTGCttt < 1:163375/98‑1 (MQ=255)
aCCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GT‑‑T‑TTTTTTATCTCTTAAAGCACGCACTGCTTTTGCg < 1:2382925/100‑1 (MQ=255)
ccGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GT‑‑T‑TTTTTTATCTCTTAAAGCACGCACTGCTTTTGCgg > 2:762420/1‑100 (MQ=255)
cGTAATATTGCCGGAGGGTGTTGATTACGCGCACTCTTTCAATAATAGGTTACATTGTCTCTT‑‑‑T‑TTTTTTATCTCTTTAATCACGCAGTGCTTTTg < 2:1036092/96‑1 (MQ=255)
tcttGCCTGCTGTTTACGATTACGCGCAATCCTTCAATAATAGGTTACAGTGTCAC‑GT‑‑T‑TTTTTTATCTCTTAAAGCACTTACTTCTTTTGCGGCTGGcc < 2:884786/98‑1 (MQ=255)
tatTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GT‑‑T‑TTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGcc < 2:621358/100‑1 (MQ=255)
tatTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GT‑‑T‑TTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGc < 1:400636/99‑1 (MQ=255)
ttGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GT‑‑T‑TTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCctc < 2:311680/100‑1 (MQ=255)
tGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GT‑‑T‑TTTTTTATCTCTTAAAGAACGCACTGCTTTTGCGGCTGGCctct > 1:1838646/1‑100 (MQ=255)
gCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GT‑‑T‑TTTTTTTTTTCTTTTATCACGCACTGCTTTTGCGGCt > 2:1437973/1‑92 (MQ=255)
cGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GT‑‑T‑TTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCttt < 2:1236185/99‑1 (MQ=255)
aTGGTGACGACTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GT‑‑T‑TTTTTTATCTCTTAAATCACGCACTGCTTTTGCGGCTGGCCTCTTTTGcc < 2:1573989/100‑1 (MQ=255)
gTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GT‑‑T‑TTTTTTATCTCTTAAAGCACGCACTGCTTTTACGGCTGGCCTCTTTTGACGCa > 1:370572/1‑100 (MQ=255)
gTGACGATTACGCGCAATCCGGCAATAATAGGATACAGTGGCACGG‑‑‑T‑TTTTGTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCa > 1:2281700/1‑100 (MQ=255)
gTGACGATTACGCGCAATCAGGCAATAATAGGTTACAGTGTCAC‑GT‑‑T‑TTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCa < 2:650361/100‑1 (MQ=255)
cGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GT‑‑T‑TTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCaaaa > 1:1213753/1‑99 (MQ=255)
aTTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GT‑‑T‑TTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAAt < 1:1143039/98‑1 (MQ=255)
tACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GT‑‑T‑TTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTc < 1:264883/100‑1 (MQ=255)
aCGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GT‑‑T‑TTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCg < 1:1555146/100‑1 (MQ=255)
aaTCCGGCAATAATAGGTTACAGTGTCAC‑GT‑‑T‑TTTTTTATATCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTAGCCCgtg > 2:224061/1‑100 (MQ=255)
aTCCGGCAATAATAGGTTACAGTGTCAC‑GT‑‑T‑TTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCgtgt > 2:1724079/1‑100 (MQ=255)
aTCCGCCAATAATAGGTTACAGTCCCAC‑G‑‑‑TCTATCTTAACTCTTAAAGCACCCACTCCTCATGCGGCTAGCCTCTTTTGCCGCCACATatccgc > 2:2223249/1‑89 (MQ=255)
tCCGGCAATAATAGGTTACAGTGTCAC‑GT‑‑T‑TTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGtt < 1:413462/100‑1 (MQ=255)
cGGCAATAATAGGTTACAGTGTCAC‑GT‑‑T‑TTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTc > 1:1246367/1‑100 (MQ=255)
ataataGGTTACAGTGTCAC‑GT‑‑T‑TTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCa < 1:221997/96‑1 (MQ=255)
taataGGTTACAGTGTCAC‑GT‑‑T‑TTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGcc < 2:288752/100‑1 (MQ=255)
aataGGTTACAGTGTCAC‑G‑‑‑T‑TTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCa > 2:401270/1‑100 (MQ=255)
aGGTTACAGTGTCAC‑GT‑‑T‑TTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGTCTCTTTTGCTGCAAAATAGTCGCCCGTGTTTCATTGCCCAtt > 2:1686521/1‑100 (MQ=255)
ggTTACAGTGTCAC‑GT‑‑T‑TTTTTTATCTTTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCAttt > 2:1890481/1‑100 (MQ=255)
gTTACAGTGTCAC‑GT‑‑T‑TTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTc > 2:806650/1‑100 (MQ=255)
ttACTGTGTCAC‑GT‑‑T‑TTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTGTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCt < 1:35568/100‑1 (MQ=255)
ttACAGTGTCAC‑GT‑‑T‑TTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCt > 1:1909645/1‑100 (MQ=255)
aCAGTGTCAC‑GT‑‑T‑TTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTGc < 1:289537/100‑1 (MQ=255)
gtCAC‑GT‑‑T‑TTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTGCTCATg < 1:1681953/100‑1 (MQ=255)
tCAC‑GT‑‑T‑TTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTGCTCATg < 1:617683/99‑1 (MQ=255)
|
TTCCTGTCGCGGTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑G‑‑‑T‑TTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTGCTCATG > NC_000913/1665089‑1665281
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
