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 F212 I1 R1
|
174 |
80.0 |
3892211 |
96.7% |
3763768 |
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 | 90.7%
| 168.1
/ 11.6
| 54 | 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 . (2/3); new base T (22/27); total (24/30) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.31e-01 |
TCCTGTCGCGGTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACG‑TTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTGCTCATGCAT > NC_000913/1665090‑1665284
|
tCCTGTCGCGGTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACG‑t < 2:1805043/100‑1 (MQ=255)
cTGTCGCGGTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACG‑ttt > 1:1541034/1‑100 (MQ=255)
gTCGCGGTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACG‑ttttt > 1:542397/1‑100 (MQ=255)
gTCGCGGTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACG‑tt > 1:1715962/1‑97 (MQ=255)
gcgGTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACG‑tttttttt < 1:31884/100‑2 (MQ=255)
gcgGTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACG‑tttttttt < 1:1595373/100‑2 (MQ=255)
gTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACG‑ttttttttatc < 1:504362/100‑5 (MQ=255)
aaCCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACG‑TTTTTTTATCTCTTa < 1:491891/100‑1 (MQ=255)
ccGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTaa > 1:426431/1‑100 (MQ=255)
ccGCTCTCTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCtt < 1:1547449/98‑1 (MQ=255)
gCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAg < 1:232574/100‑1 (MQ=255)
cTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAgc < 2:1724207/100‑1 (MQ=255)
gTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAgcac < 1:195883/100‑1 (MQ=255)
gTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAgcac > 1:1508374/1‑100 (MQ=255)
gTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAgcac < 2:906415/100‑1 (MQ=255)
ttCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAgcacgc < 1:429661/100‑1 (MQ=255)
gATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACt > 1:63541/1‑100 (MQ=255)
aGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCt < 2:542399/100‑1 (MQ=255)
gATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCttt > 2:76386/1‑100 (MQ=255)
gATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCttt < 1:481722/100‑1 (MQ=255)
cACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGc > 2:1890272/1‑100 (MQ=255)
aCCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACG‑TTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCgg < 2:1939403/100‑1 (MQ=255)
ccGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCgg > 2:809748/1‑100 (MQ=255)
cGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGc < 2:1694503/100‑1 (MQ=255)
tAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACG‑TTTTTTTATTTTTTAAAGCACGCACTGCTTTTGCGGCTg > 1:453627/1‑99 (MQ=255)
aaTATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTgg < 2:1065192/100‑1 (MQ=255)
tatTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGcc < 2:1021513/100‑1 (MQ=255)
atTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCct > 1:732071/1‑100 (MQ=255)
tGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCctct < 2:879071/100‑1 (MQ=255)
tGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCctct > 1:411509/1‑100 (MQ=255)
tGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCctct < 1:1796150/100‑1 (MQ=255)
ccGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCttt < 1:1785518/100‑1 (MQ=255)
ggATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTg > 1:1021316/1‑100 (MQ=255)
ggTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGTAAGCACTGCTTTTGTGGCTTGCTTCTTTTgttg > 1:1512016/1‑96 (MQ=255)
ggTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGc > 2:15232/1‑100 (MQ=255)
tGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCaa < 2:1021317/100‑1 (MQ=255)
gACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCaaa > 1:535557/1‑100 (MQ=255)
gATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAAt < 2:1221572/99‑1 (MQ=255)
ttACGCGCAATCCGGCAATAATGGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAg < 2:1794159/99‑1 (MQ=255)
tACGCGCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTc < 2:1894195/100‑1 (MQ=255)
cgcgCAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGc > 2:70056/1‑100 (MQ=255)
gcgcAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGcc < 2:380947/100‑1 (MQ=255)
gcgcAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGcc < 2:1933795/100‑1 (MQ=255)
gcgcAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGcc > 2:1735219/1‑100 (MQ=255)
cAATCCGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCgt > 1:986941/1‑100 (MQ=255)
cGGCAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTc > 1:1231633/1‑100 (MQ=255)
cAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCAtt > 2:1909517/1‑100 (MQ=255)
cAATAATAGGTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCAtt > 1:361467/1‑100 (MQ=255)
ggTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCAttt > 2:1766380/1‑100 (MQ=255)
gTTACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTc < 1:1354438/100‑1 (MQ=255)
tACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTTCCCAttt > 1:167465/1‑97 (MQ=255)
tACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTg < 2:1763417/100‑1 (MQ=255)
tACAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTg < 1:815668/100‑1 (MQ=255)
aCAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTGc < 2:1400949/100‑1 (MQ=255)
cAGTGTCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTGCt < 1:1674031/100‑1 (MQ=255)
tgtCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTGCTCAt < 2:1133870/100‑1 (MQ=255)
tgtCACG‑TTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTGCTCATg < 2:1406695/100‑1 (MQ=255)
gtCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCTTTTTTTGCCGTAAACTAGTCTCACGTTTTTCATTTCCCATTTCTGTTCAt > 1:1587468/1‑99 (MQ=255)
gtCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTGCTCATg < 1:345348/100‑1 (MQ=255)
gtCACGTTTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTGCTCATg > 2:372385/1‑100 (MQ=255)
cACG‑TTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTGCTCATGcat > 1:555312/1‑100 (MQ=255)
|
TCCTGTCGCGGTTAAACCGCTGTTTCGATAGGATCACCGTAATATTGCCGGATGGTGACGATTACGCGCAATCCGGCAATAATAGGTTACAGTGTCACG‑TTTTTTTATCTCTTAAAGCACGCACTGCTTTTGCGGCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTGCTCATGCAT > NC_000913/1665090‑1665284
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
