Cluster no. 113

Go back to cluster table

Cluster is part of supercluster: 57

Cluster characteristics:

size	698
size_real	698
ecount	2702
supercluster	57
annotations_summary	32.38% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RT 9.31% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-GAG 3.30% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-PROT 2.87% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RH 2.15% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RT 0.57% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-RT 0.57% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-GAG 0.43% Class_I/LTR/Ty3_gypsy/chromovirus/Chlamyvir:Ty3-RT 0.29% Class_I/LTR/Ty3_gypsy/chromovirus/Tcn1:Ty3-RT 0.14% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-INT 0.14% Class_I/pararetrovirus:PARA-RT
pair_completeness	0.558035714285714
pbs_score	None
TR_score	None
TR_monomer_length	None
loop_index	0.00143266475644699
satellite_probability	1.29477276776204e-21
consensus	None
TAREAN_annotation	Other
orientation_score	1

comparative analysis:

Comparative analysis - species read counts:

Species	Read count
S2	237
S1	270
S3	191

comparative analysis - number of edges between species:

	S2	S1	S3
S2	310	350	265
S1	350	359	282
S3	265	282	239

comparative analysis - observed/expected number of edges between species

	S2	S1	S3
S2	0.980	1.030	0.985
S1	1.030	0.988	0.979
S3	0.985	0.979	1.040

protein domains:

Reads annotation summary

cl_string domain Freq proportion

pararetrovirus PARA-RT pararetrovirus PARA-RT 1 0.0014

CRM Ty3-GAG CRM Ty3-GAG 4 0.0057

Tekay Ty3-GAG Tekay Ty3-GAG 65 0.0931

Tekay Ty3-INT Tekay Ty3-INT 1 0.0014

Tekay Ty3-PROT Tekay Ty3-PROT 23 0.0330

Tekay Ty3-RH Tekay Ty3-RH 20 0.0287

CRM Ty3-RT CRM Ty3-RT 4 0.0057

Chlamyvir Ty3-RT Chlamyvir Ty3-RT 3 0.0043

Reina Ty3-RT Reina Ty3-RT 15 0.0215

Tcn1 Ty3-RT Tcn1 Ty3-RT 2 0.0029

Tekay Ty3-RT Tekay Ty3-RT 226 0.3238

clusters with similarity:

Cluster	Number of similarity hits

13	3
40	2

clusters connected through mates:

Cluster	Number of shared read pairs	k

40	29	0.0404
13	18	0.0119
894	6	0.0569
1840	4	0.039
575	3	0.0279
2160	3	0.0291
3500	3	0.0297
13200	3	0.0299
25	2	0.00207
830	2	0.0192
4930	2	0.0199
32900	2	0.02
49600	2	0.02
4	1	0.000424
12	1	0.000556
37	1	0.000821
38	1	0.000967
50	1	0.00145
3380	1	0.0099
4030	1	0.00985
6920	1	0.0099
7090	1	0.0099
7630	1	0.01
8780	1	0.00995
9920	1	0.00995
14300	1	0.00995
21600	1	0.01
24400	1	0.01
37400	1	0.01
40100	1	0.01
44500	1	0.01

CL113 ----> CL40

No. of shared pairs: :29

CL113 ----> CL13

No. of shared pairs: :18