Table 5

Analysis of proteins belonging to the Urea Transporter (UT) family

Protein

Tandem repeats found by


ID

Acc #

Length

PTRStalker

HHRep

HHRepID

TRUST

RADAR


dvUT

ABM28909

337aa

[14-165]

[11-91]

[2-138 ]

[11-139]

5-x-44

[177-323]

[174-254]

[141-286]

[140-303]

[23-269]

apUT

YP_001969475

300aa

[17-136]

[2-140]

[2-138]

[21-128]

[45-129]

[153-284]

[156-288]

[156-286]

[175-278]

[199-277]

mUT-A1

AAM00357

930aa

[4-452]

[63-337]

[65-493]

[41-421]

5-x-52

[467-918]

[532-800]

[533-916]

[422-866]

[117-775]

hsUT-A1

AAL08485

920aa

[4-320]

[50-338]

[87-490]

[102-564]

6-x-24

[403-763]

[519-800]

[548-906]

[565-916]

[189-721]


dvUT = [D. vulgaris DP4], apUT =[A. pleuropneumoniae AP76], mUT-A1 = [Mus musculus], and hsUT-A1 = [Homo sapiens]. For each protein (row) and for each algorithm that returned at least a result (column) we report the longest fuzzy repeated subsequence detected by each algorithm by giving start and end position of homologous segments. Note that XSTREAM and T-REKS are not listed here because they are unsuitable for detecting long fuzzy dimeric structures.

Pellegrini et al. BMC Bioinformatics 2012 13(Suppl 3):S8   doi:10.1186/1471-2105-13-S3-S8

Open Data