Cluster no. 166

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Cluster is part of supercluster: 74

Cluster characteristics:

size	642
size_real	642
ecount	3530
supercluster	74
annotations_summary	8.26% Class_I/LTR/Ty1_copia/TAR:Ty1-RT 0.93% Class_I/LTR/Ty1_copia/TAR:Ty1-RH 0.78% Class_I/LTR/Ty1_copia/Ivana:Ty1-RT 0.16% Class_I/LTR/Ty1_copia/TAR:Ty1-INT 0.16% Class_I/LTR/Ty1_copia/Gymco-II:Ty1-RT
pair_completeness	0.698412698412698
pbs_score	None
TR_score	None
TR_monomer_length	None
loop_index	0.0218068535825545
satellite_probability	1.48077565543288e-20
consensus	None
TAREAN_annotation	Other
orientation_score	1

comparative analysis:

Comparative analysis - species read counts:

Species	Read count
S5	210
S4	221
S6	211

comparative analysis - number of edges between species:

	S5	S4	S6
S5	355	412	364
S4	412	399	416
S6	364	416	391

comparative analysis - observed/expected number of edges between species

	S5	S4	S6
S5	0.979	1.050	0.971
S4	1.050	0.936	1.020
S6	0.971	1.020	1.010

protein domains:

Reads annotation summary

cl_string domain Freq proportion

TAR Ty1-INT TAR Ty1-INT 1 0.0016

TAR Ty1-RH TAR Ty1-RH 6 0.0093

Gymco-II Ty1-RT Gymco-II Ty1-RT 1 0.0016

Ivana Ty1-RT Ivana Ty1-RT 5 0.0078

TAR Ty1-RT TAR Ty1-RT 53 0.0826

clusters with similarity:

Cluster	Number of similarity hits

168

clusters connected through mates:

Cluster	Number of shared read pairs	k

106	17	0.0627
1680	5	0.082
58	3	0.00241
13	1	0.000667
26	1	0.000477
40	1	0.0011
85	1	0.00298
136	1	0.00501
168	1	0.00519
178	1	0.00746
2370	1	0.0168
3680	1	0.0168
10500	1	0.0171
26100	1	0.0172
35600	1	0.0172

CL166 ----> CL106

No. of shared pairs: :17