Cluster no. 45

Go back to cluster table

Cluster is part of supercluster: 5

Cluster characteristics:

size	4039
size_real	4039
ecount	114252
supercluster	5
annotations_summary	44.57% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-INT 21.24% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RH 7.80% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-CHDII 0.89% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RH 0.37% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-RH 0.20% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RT 0.02% Class_I/LTR/Ty3_gypsy/chromovirus/Galadriel:Ty3-RH 0.02% Class_I/LTR/Ty3_gypsy/chromovirus/chromo-unclass:Ty3-INT 0.02% Class_I/LTR/Ty3_gypsy/chromovirus/chromo-unclass:Ty3-RH
pair_completeness	0.76298559580969
pbs_score	None
TR_score	None
TR_monomer_length	None
loop_index	0.000742758108442684
satellite_probability	5.68788576307886e-23
consensus	None
TAREAN_annotation	Other
orientation_score	1

comparative analysis:

Comparative analysis - species read counts:

Species	Read count
S8	1360
S9	1320
S7	1360

comparative analysis - number of edges between species:

	S8	S9	S7
S8	12500	12500	12800
S9	12500	12800	12700
S7	12800	12700	12900

comparative analysis - observed/expected number of edges between species

	S8	S9	S7
S8	1.000	0.994	1.010
S9	0.994	1.010	0.994
S7	1.010	0.994	1.000

protein domains:

Reads annotation summary

cl_string domain Freq proportion

Tekay Ty3-CHDII Tekay Ty3-CHDII 315 0.07799

Tekay Ty3-INT Tekay Ty3-INT 1800 0.44565

chromo-unclass Ty3-INT chromo-unclass Ty3-INT 1 0.00025

CRM Ty3-RH CRM Ty3-RH 15 0.00371

Galadriel Ty3-RH Galadriel Ty3-RH 1 0.00025

Reina Ty3-RH Reina Ty3-RH 36 0.00891

Tekay Ty3-RH Tekay Ty3-RH 858 0.21243

chromo-unclass Ty3-RH chromo-unclass Ty3-RH 1 0.00025

Tekay Ty3-RT Tekay Ty3-RT 8 0.00198

clusters with similarity:

Cluster	Number of similarity hits

1	1370
42	886
62	49
46	46
34	44
10	26
66	2

clusters connected through mates:

Cluster	Number of shared read pairs	k

1	212	0.0714
42	202	0.339
62	16	0.0291
16	6	0.00263
12	4	0.00337
46	4	0.006
13	3	0.00118
22	3	0.00179
24	3	0.00207
2	2	0.000894
10	2	0.00178
18	2	0.0016
34	2	0.00362
92	2	0.00549
4	1	0.000366
8	1	0.000573
21	1	0.00108
23	1	0.000823
41	1	0.000808
53	1	0.00175
90	1	0.00241
129	1	0.00308
633	1	0.00362
1670	1	0.00365
9650	1	0.00367
23800	1	0.00367

CL45 ----> CL1

No. of shared pairs: :212

CL45 ----> CL42

No. of shared pairs: :202

CL45 ----> CL62

No. of shared pairs: :16