MMERVK9C_I (DF0001945)



The hit distribution of MMERVK9C_I across the chromosomes. More...

As many TE entries match hundreds of thousands of instances in a given genome, it is difficult to provide all matches via a web interface or as a multiple sequence alignment. In order to provide access to the matches, the graphic below has been developed that presents the distribution of hits organized on a karyotype ideogram. Hits are binned in 1 Mbp regions, with counts in each bin distinguished by colour and with bin sizes specific to each model. When a region of the hit-distribution ideogram is clicked, the hits in that region will be loaded below the karyotype ideogram. Each hit can be expanded to reveal the alignment between the hit sequence and the model. A full listing of hits (but not alignments) for an entry may be retrieved from the download page. All hits can be download as a tab delimited file from here.

By default, the page represents non-redundant hits (hits for which this model is deemed to fit the sequence better than any other Dfam model), but the image and hit lists can be toggled to show redundant hit distributions (including hits that score higher against other models). The ideogram can also be toggled to reveal the canonical Giemsa stain banding of the chromosomes, providing a reference to positional context. It is important to remember TEs split by more recently mobile TEs have not been aggregated, so older fragmented TEs may be counted as multiple instances.

Non-redundant hits

Hit Count (per Mb):
: 0
: 1-3
: 4-6
: 7-9
: 10-12
: 13-15
: 16-18
: 19-21
: 22-24

All hits

Hit Count (per Mb):
: 0
: 1-17
: 18-34
: 35-51
: 52-68
: 69-85
: 86-102
: 103-119
: 120-136

Giemsa staining

or press k on your keyboard.
Hits for MMERVK9C_I
Sequence bit score E-value Model Alignment strand
start end start end

There are 1751 non-redundant hits in Mus musculus.

The total number of hits is 16619.

Please click on the image above to see detailed information about a specific chromosomal region.