Cluster no. 71

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Cluster is part of supercluster: 4

Cluster characteristics:

size	2834
size_real	2834
ecount	80927
supercluster	4
annotations_summary	9.63% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RH 5.96% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RT 2.54% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-CHDII 0.28% Class_I/LTR/Ty3_gypsy/chromovirus/Tcn1:Ty3-RT 0.25% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RT 0.14% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RH 0.11% Class_I/LTR/Ty3_gypsy/chromovirus/Galadriel:Ty3-RT 0.11% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-PROT 0.04% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-RH 0.04% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RH 0.04% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-RT
pair_completeness	0.687909469922573
pbs_score	None
TR_score	None
TR_monomer_length	None
loop_index	0.1287932251235
satellite_probability	6.09639396561918e-16
consensus	None
TAREAN_annotation	Other
orientation_score	1

comparative analysis:

Comparative analysis - species read counts:

Species	Read count
S2	913
S1	969
S3	952

comparative analysis - number of edges between species:

	S2	S1	S3
S2	8840	8690	9100
S1	8690	8620	9020
S3	9100	9020	9840

comparative analysis - observed/expected number of edges between species

	S2	S1	S3
S2	1.010	1.000	0.989
S1	1.000	1.010	0.992
S3	0.989	0.992	1.020

protein domains:

Reads annotation summary

cl_string domain Freq proportion

Tekay Ty3-CHDII Tekay Ty3-CHDII 72 0.02541

Tekay Ty3-PROT Tekay Ty3-PROT 3 0.00106

CRM Ty3-RH CRM Ty3-RH 1 0.00035

Reina Ty3-RH Reina Ty3-RH 4 0.00141

TatV Ty3-RH TatV Ty3-RH 1 0.00035

Tekay Ty3-RH Tekay Ty3-RH 273 0.09633

CRM Ty3-RT CRM Ty3-RT 1 0.00035

Galadriel Ty3-RT Galadriel Ty3-RT 3 0.00106

Reina Ty3-RT Reina Ty3-RT 7 0.00247

Tcn1 Ty3-RT Tcn1 Ty3-RT 8 0.00282

Tekay Ty3-RT Tekay Ty3-RT 169 0.05963

clusters with similarity:

Cluster	Number of similarity hits

42	300
9	219
43	195
55	66
29	52
78	28
54	7

clusters connected through mates:

Cluster	Number of shared read pairs	k

9	100	0.0672
42	95	0.0744
43	65	0.102
29	42	0.0361
55	35	0.0611
54	27	0.0556
78	13	0.0297
4440	4	0.0151
627	3	0.0111
1170	3	0.0112
12	2	0.00102
37	2	0.00145
44	2	0.00185
46	2	0.00237
11500	2	0.00759
20500	2	0.0076
4	1	0.000397
7	1	0.000415
8	1	0.0012
13	1	0.000596
20	1	0.00186
32	1	0.000717
47	1	0.00183
52	1	0.00227
66	1	0.00201
68	1	0.00113
74	1	0.000822
77	1	0.00236
80	1	0.000994
214	1	0.00361
323	1	0.00368
974	1	0.00374
2860	1	0.00377
2910	1	0.00378
4550	1	0.0038
8030	1	0.0038
15300	1	0.0038
24300	1	0.0038
46900	1	0.0038
47000	1	0.0038
48500	1	0.0038