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 I1 R1
|
99 |
64.8 |
3148104 |
96.3% |
3031624 |
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 | 95.3%
| 142.1
/ ‑0.1
| 43 | 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 . (1/1); new base T (22/19); total (23/20) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGTCGCGGTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑G‑TTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTGCTCATGCATC > NC_000913/1665093‑1665285
|
tGTCGCGGTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑G‑tttt < 2:920741/100‑1 (MQ=255)
cgcgGTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATATGTTACAGTGTCAC‑G‑ttttttt < 2:1209978/100‑1 (MQ=255)
cgcgGTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑G‑ttttttt > 2:215701/1‑100 (MQ=255)
cgcgGTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑G‑ttttttt < 2:327479/100‑1 (MQ=255)
cgcgGTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑G‑ttttttt < 2:104920/100‑1 (MQ=255)
ggTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑G‑ttttttttat > 1:1121984/1‑97 (MQ=255)
gTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑G‑ttttttttatc > 1:1081556/1‑96 (MQ=255)
gTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑G‑ttttttttatc > 1:297322/1‑96 (MQ=255)
gTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑G‑ttttttttatc < 2:734773/100‑5 (MQ=255)
tAAACCGCTGTTTCGTTAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GTTTTTTTTAtctc < 1:1250282/100‑1 (MQ=255)
tAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GTTTTTTTTAtctc < 1:1111697/100‑1 (MQ=255)
tAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑G‑tttttttttatct > 2:849878/1‑94 (MQ=255)
aaaCCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GTTTTTTTTATctct < 1:1111875/100‑1 (MQ=255)
ccGCTGTTTCGATAGGATCACCGTATTATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GTTTTTTTTATCTCtt < 2:553688/98‑1 (MQ=255)
cGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GTTTTTTTTATCTCTTaaa > 2:435768/1‑100 (MQ=255)
tGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GTTTTTTTTATCTCTTAAAgca < 1:1086646/100‑1 (MQ=255)
gTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GTTTTTTTTATCTCTTAAAgcac > 1:883227/1‑100 (MQ=255)
tttCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GTTTTTTTTATCTCTTAAAgcacg > 2:1396535/1‑100 (MQ=255)
ggATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GTTTTTTTTATCTCTTAAAGCACGCACTGCtt > 1:329255/1‑100 (MQ=255)
aCCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCg < 1:1185331/100‑1 (MQ=255)
tAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTg > 1:1428968/1‑100 (MQ=255)
tatTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGcc < 2:1183265/100‑1 (MQ=255)
atTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCct > 2:91552/1‑100 (MQ=255)
atTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCct > 2:1465126/1‑100 (MQ=255)
ttGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCctc < 1:435770/100‑1 (MQ=255)
cGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCtttt > 2:1519591/1‑100 (MQ=255)
cGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCttt < 2:607461/99‑1 (MQ=255)
ggATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTg > 2:470131/1‑100 (MQ=255)
ggTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGc < 1:1314829/100‑1 (MQ=255)
cGATTACACGCAATCCGGCAATAATAGGTTACAGTGTCAC‑GTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAAt > 1:827947/1‑100 (MQ=255)
aCGCGCAATCCGGCAATAATAGGTTACAGTGTCACGG‑TTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCg < 2:1249602/100‑1 (MQ=255)
cgcgCAATCCGGCAATAATAGGTTACAGTGTCAC‑GTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGc > 2:596972/1‑100 (MQ=255)
gcgcAATCCGGCAATAATAGGTTACAGTGTCAC‑GTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGcc > 1:204833/1‑100 (MQ=255)
aTCCGGCAATAATAGGTTACAGTGTCAC‑GTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCgtgt < 1:560722/100‑1 (MQ=255)
gCAATAATAGGTTACAGTGTCAC‑GTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCAt > 2:1444489/1‑100 (MQ=255)
cAATAATAGGTTACAGTGTCAC‑GTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCAtt > 2:236489/1‑100 (MQ=255)
cAATAATAGGTTACAGTGTCAC‑GTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCAtt > 2:836496/1‑100 (MQ=255)
ataataGGTTACAGTGTCAC‑GTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGc > 1:1093134/1‑100 (MQ=255)
ataataGGTTACAGTGTCAC‑GTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGc > 1:908461/1‑100 (MQ=255)
aataGGTTACAGTGTCAC‑GTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGccc < 2:1011896/100‑1 (MQ=255)
aataGGTTACAGTGTCAC‑GTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGccc > 2:220580/1‑100 (MQ=255)
ataGGTTACAGTGTCAC‑GTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCa < 1:1396545/100‑1 (MQ=255)
taGGTTACAGTGTCAC‑GTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTTTTTCATTGCCCAt < 2:307436/100‑1 (MQ=255)
ggTTACAGTGTCAC‑GTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCAttt > 2:690883/1‑100 (MQ=255)
ggTTACAGTGTCAC‑GTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCAttt > 2:762188/1‑100 (MQ=255)
gTTACAGTGTCAC‑GTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTc < 2:888358/100‑1 (MQ=255)
aCAGTGTCAC‑GTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTg < 1:470134/99‑1 (MQ=255)
aCAGTGTCAC‑GTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTGc < 1:91552/100‑1 (MQ=255)
aCAGTGTCAC‑GTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTGc < 2:1495453/100‑1 (MQ=255)
cAGTGTCAC‑GTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTGCt > 2:1225020/1‑100 (MQ=255)
aGTGTCAC‑GTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTGCTc < 2:329253/100‑1 (MQ=255)
gtCAC‑GTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTGCTCATg > 2:538447/1‑100 (MQ=255)
aC‑G‑TTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTGCTCATGcttc > 2:923346/1‑100 (MQ=255)
|
TGTCGCGGTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCAC‑G‑TTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTGCTCATGCATC > NC_000913/1665093‑1665285
|
| 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
