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ptsw
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ref_seq_viral_microsatellites

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id
string
start_pos
int64
end_pos
int64
motif_seq
string
motif_length
int64
repeats
int64
ssr_length
int64
__index_level_0__
int64
NC_029549.1
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AGT
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A
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NC_029549.1
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NC_029549.1
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NC_029549.1
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AC
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NC_029549.1
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TT
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NC_029549.1
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AG
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NC_029549.1
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NC_029549.1
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NC_029549.1
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AA
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NC_029549.1
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TGT
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6
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NC_029549.1
165
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ATC
3
2
6
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NC_029549.1
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TTC
3
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NC_029549.1
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TA
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NC_029549.1
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TT
2
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NC_029549.1
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TT
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NC_029549.1
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TG
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NC_029549.1
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AT
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NC_029549.1
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AA
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NC_029549.1
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TA
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NC_029549.1
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AA
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NC_029549.1
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T
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NC_029549.1
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ATCA
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NC_029549.1
346
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GAT
3
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NC_029549.1
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TGA
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NC_029549.1
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CT
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NC_029549.1
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TA
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NC_029549.1
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AT
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NC_029549.1
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TA
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NC_029549.1
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AA
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NC_029549.1
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TG
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NC_029549.1
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TG
2
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4
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NC_029549.1
460
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AT
2
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NC_029549.1
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AGT
3
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NC_029549.1
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TAA
3
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NC_029549.1
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CAC
3
2
6
42
NC_029549.1
546
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TC
2
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NC_029549.1
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TG
2
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NC_029549.1
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AA
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NC_029549.1
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TG
2
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NC_029549.1
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CA
2
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NC_029549.1
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CAG
3
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NC_029549.1
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AC
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NC_029549.1
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AG
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NC_029549.1
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AA
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NC_029549.1
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TG
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NC_029549.1
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TT
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NC_029549.1
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TT
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54
NC_029549.1
738
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A
1
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6
55
NC_029549.1
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CAA
3
2
6
56
NC_029549.1
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TT
2
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NC_029549.1
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TTG
3
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NC_029549.1
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AC
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NC_029549.1
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T
1
5
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NC_029549.1
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CAT
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NC_029549.1
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ATG
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NC_029549.1
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AC
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NC_029549.1
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TG
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NC_029549.1
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AG
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NC_029549.1
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TG
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NC_029549.1
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TT
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NC_029549.1
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AT
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NC_029549.1
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NC_029549.1
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AT
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NC_029549.1
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TT
2
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NC_029549.1
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AT
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NC_029549.1
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TT
2
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NC_029549.1
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CAT
3
2
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NC_029549.1
1,077
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TA
2
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NC_029549.1
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TT
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NC_029549.1
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TG
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NC_029549.1
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GA
2
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NC_029549.1
1,128
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TT
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NC_029549.1
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CA
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NC_029549.1
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CA
2
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NC_029549.1
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AA
2
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NC_029549.1
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GA
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NC_029549.1
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CAT
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NC_029549.1
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T
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NC_029549.1
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T
1
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NC_029549.1
1,232
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AT
2
2
4
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NC_029549.1
1,244
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TC
2
2
4
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NC_029549.1
1,253
1,256
CA
2
2
4
90
NC_029549.1
1,267
1,270
AT
2
2
4
91
NC_029549.1
1,275
1,278
CA
2
2
4
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NC_029549.1
1,279
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GT
2
2
4
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NC_029549.1
1,292
1,295
TC
2
2
4
94
NC_029549.1
1,323
1,326
AA
2
2
4
95
NC_029549.1
1,358
1,361
TG
2
2
4
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NC_029549.1
1,376
1,379
AA
2
2
4
97
NC_029549.1
1,385
1,388
AT
2
2
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NC_029549.1
1,393
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CTAT
4
2
8
99
End of preview.
YAML Metadata Warning: empty or missing yaml metadata in repo card (https://huggingface.co/docs/hub/datasets-cards)

Based on Hack90/ref_seq_viral, using pytrf with settings:

pytrf.STRFinder(
  seqdict['id'], seqdict['sequence'],
  mono=5, di=2, tri=2, tetra=2, penta=2, hexa=2
)

and contains columns:

['id', 'start_pos', 'end_pos', 'motif_seq', 'motif_length', 'repeats', 'ssr_length']
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