Cluster no. 99

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Cluster is part of supercluster: 44

Cluster characteristics:

size 1255
size_real 1255
ecount 13440
supercluster 44
annotations_summary 7.33% Class_I/LTR/Ty1_copia/SIRE:Ty1-GAG
0.08% Class_I/LTR/Ty3_gypsy/chromovirus/Tcn1:Ty3-RT
pair_completeness 0.765119549929677
pbs_score None
TR_score None
TR_monomer_length None
loop_index 0.000796812749003984
satellite_probability 4.71413703996316e-23
consensus None
TAREAN_annotation Other
orientation_score 1

comparative analysis:


Comparative analysis - species read counts:
Species Read count
S2 398
S1 428
S3 429
comparative analysis - number of edges between species:
S2 S1 S3
S2 1300 1480 1380
S1 1480 1600 1650
S3 1380 1650 1520
comparative analysis - observed/expected number of edges between species
S2 S1 S3
S2 1.010 1.010 0.979
S1 1.010 0.961 1.030
S3 0.979 1.030 0.988

protein domains:

protein domains:


Reads annotation summary

  cl_string domain Freq proportion
SIRE Ty1-GAG SIRE Ty1-GAG 92 0.0733
Tcn1 Ty3-RT Tcn1 Ty3-RT 1 0.0008

clusters with similarity:

Cluster Number of similarity hits
51 3
111 1

clusters connected through mates:

Cluster Number of shared
read pairs		 k
51 26 0.0622
93 10 0.0313
2260 5 0.0578
2790 5 0.0575
222 3 0.0287
7030 3 0.0351
12 2 0.00112
13 2 0.00133
21 2 0.00228
50 2 0.00296
1410 2 0.023
2240 2 0.0234
2410 2 0.0231
3540 2 0.0231
21700 2 0.0237
25100 2 0.0237
46100 2 0.0237
2 1 0.00044
3 1 0.000613
5 1 0.000447
7 1 0.000449
9 1 0.000764
11 1 0.000759
14 1 0.000554
17 1 0.000767
25 1 0.00105
28 1 0.00074
29 1 0.00101
65 1 0.00385
73 1 0.00195
83 1 0.00334
84 1 0.00262
106 1 0.00446
193 1 0.00702
282 1 0.0114
1100 1 0.0116
4420 1 0.0116
9240 1 0.0118
13000 1 0.0118
18100 1 0.0118
43400 1 0.0118
46800 1 0.0118
51200 1 0.0118

CL99 ----> CL51

image

No. of shared pairs: :26

CL99 ----> CL93

image

No. of shared pairs: :10