Cluster no. 76

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Cluster is part of supercluster: 26

Cluster characteristics:

size	1402
size_real	1402
ecount	5595
supercluster	26
annotations_summary	12.91% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-GAG 9.63% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-PROT 7.77% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RT 3.35% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-PROT 2.07% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-GAG 0.21% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-GAG 0.21% Class_I/LTR/Ty3_gypsy/chromovirus/Tcn1:Ty3-RT 0.14% Class_I/LTR/Ty3_gypsy/chromovirus/Galadriel:Ty3-RT 0.07% Class_I/LTR/Ty3_gypsy/chromovirus/Galadriel:Ty3-GAG 0.07% Class_I/LTR/Ty1_copia/Tork:Ty1-RT
pair_completeness	0.509149623250807
pbs_score	None
TR_score	None
TR_monomer_length	None
loop_index	0.000713266761768902
satellite_probability	2.33736515693784e-21
consensus	None
TAREAN_annotation	Other
orientation_score	1

comparative analysis:

Comparative analysis - species read counts:

Species	Read count
S8	488
S9	478
S7	436

comparative analysis - number of edges between species:

	S8	S9	S7
S8	740	618	618
S9	618	619	590
S7	618	590	584

comparative analysis - observed/expected number of edges between species

	S8	S9	S7
S8	1.060	0.958	0.977
S9	0.958	1.040	1.010
S7	0.977	1.010	1.020

protein domains:

Reads annotation summary

cl_string domain Freq proportion

Tork Ty1-RT Tork Ty1-RT 1 0.00071

CRM Ty3-GAG CRM Ty3-GAG 29 0.02068

Galadriel Ty3-GAG Galadriel Ty3-GAG 1 0.00071

Reina Ty3-GAG Reina Ty3-GAG 3 0.00214

Tekay Ty3-GAG Tekay Ty3-GAG 181 0.12910

Reina Ty3-PROT Reina Ty3-PROT 47 0.03352

Tekay Ty3-PROT Tekay Ty3-PROT 135 0.09629

Galadriel Ty3-RT Galadriel Ty3-RT 2 0.00143

Tcn1 Ty3-RT Tcn1 Ty3-RT 3 0.00214

Tekay Ty3-RT Tekay Ty3-RT 109 0.07775

clusters with similarity:

Cluster	Number of similarity hits

10	53
34	13
22	3

clusters connected through mates:

Cluster	Number of shared read pairs	k

10	64	0.0593
22	38	0.0232
218	10	0.0402
1	4	0.00137
2480	4	0.0174
3720	4	0.0174
13	3	0.0012
15	3	0.00233
66	3	0.00608
610	3	0.0128
4110	3	0.013
24	2	0.00142
2510	2	0.00868
3060	2	0.0087
10400	2	0.00873
12000	2	0.00873
12900	2	0.00873
15800	2	0.00873
15900	2	0.00873
22800	2	0.00873
23900	2	0.00873
2	1	0.000456
4	1	0.000372
7	1	0.000926
16	1	0.000447
21	1	0.00114
29	1	0.000676
36	1	0.00115
63	1	0.00126
70	1	0.0019
87	1	0.00274
179	1	0.00404
199	1	0.00402
1200	1	0.0043
1510	1	0.00432
2260	1	0.00434
3660	1	0.00435
5210	1	0.00436
6540	1	0.00436
6900	1	0.00436
6960	1	0.00436
9370	1	0.00437
12600	1	0.00437
15400	1	0.00437
15900	1	0.00437
16900	1	0.00437
21000	1	0.00437
21300	1	0.00437
21500	1	0.00437
21800	1	0.00437
21900	1	0.00437
23900	1	0.00437
25200	1	0.00437
26000	1	0.00437

CL76 ----> CL10

No. of shared pairs: :64

CL76 ----> CL22

No. of shared pairs: :38

CL76 ----> CL218

No. of shared pairs: :10