Cluster no. 81

Go back to cluster table

Cluster is part of supercluster: 33

Cluster characteristics:

size 2246
size_real 2246
ecount 28087
supercluster 33
annotations_summary 17.72% Class_I/LTR/Ty1_copia/TAR:Ty1-RT
11.26% Class_I/LTR/Ty1_copia/TAR:Ty1-INT
9.44% Class_I/LTR/Ty1_copia/TAR:Ty1-RH
3.87% Class_I/LTR/Ty1_copia/TAR:Ty1-PROT
2.58% Class_I/LTR/Ty1_copia/TAR:Ty1-GAG
0.09% Class_I/LTR/Ty1_copia/Ale:Ty1-RT
0.04% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatII:Ty3-GAG
0.04% Class_I/LTR/Ty1_copia/Ale:Ty1-PROT
0.04% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-INT
pair_completeness 0.808373590982287
pbs_score None
TR_score None
TR_monomer_length None
loop_index 0.000445235975066785
satellite_probability 2.15940292115794e-23
consensus None
TAREAN_annotation Other
orientation_score 1

comparative analysis:


Comparative analysis - species read counts:
Species Read count
S2 776
S1 672
S3 798
comparative analysis - number of edges between species:
S2 S1 S3
S2 3450 2890 3450
S1 2890 2500 2950
S3 3450 2950 3550
comparative analysis - observed/expected number of edges between species
S2 S1 S3
S2 1.010 0.994 0.995
S1 0.994 1.010 0.999
S3 0.995 0.999 1.010

protein domains:

protein domains:


Reads annotation summary

  cl_string domain Freq proportion
TAR Ty1-GAG TAR Ty1-GAG 58 0.02582
TAR Ty1-INT TAR Ty1-INT 253 0.11264
Ale Ty1-PROT Ale Ty1-PROT 1 0.00045
TAR Ty1-PROT TAR Ty1-PROT 87 0.03874
TAR Ty1-RH TAR Ty1-RH 212 0.09439
Ale Ty1-RT Ale Ty1-RT 2 0.00089
TAR Ty1-RT TAR Ty1-RT 398 0.17720
TatII Ty3-GAG TatII Ty3-GAG 1 0.00045
TatV Ty3-INT TatV Ty3-INT 1 0.00045

clusters with similarity:

Cluster Number of similarity hits
24 1

clusters connected through mates:

Cluster Number of shared
read pairs		 k
1420 5 0.0402
2360 4 0.0325
11 3 0.00222
4 2 0.000841
37 2 0.00162
2080 2 0.0164
5160 2 0.0167
10900 2 0.0166
14400 2 0.0166
51700 2 0.0167
1 1 0.000472
9 1 0.000744
13 1 0.000652
17 1 0.000747
18 1 0.000505
24 1 0.000818
41 1 0.00347
59 1 0.00188
62 1 0.0059
65 1 0.00338
66 1 0.00282
74 1 0.000931
83 1 0.00299
93 1 0.00282
96 1 0.00241
172 1 0.00578
215 1 0.0073
748 1 0.00794
1390 1 0.00803
1400 1 0.0081
6760 1 0.00826
9920 1 0.0083
10000 1 0.00837
11300 1 0.0083
12500 1 0.0083
12800 1 0.0083
20700 1 0.00833
39800 1 0.00833