Cluster no. 86

Cluster no. 86

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Cluster is part of supercluster: 30

Cluster characteristics:

size	3885
size_real	3885
ecount	15850
supercluster	30
annotations_summary	36.55% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-INT 15.91% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RH 10.22% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RT 6.23% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-CHDII 1.60% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-PROT 1.03% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-GAG 0.57% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RH 0.54% Class_I/LTR/Ty3_gypsy/chromovirus/Chlamyvir:Ty3-RT 0.39% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RH 0.10% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-INT 0.05% Class_I/LTR/Ty3_gypsy/chromovirus/chromo-unclass:Ty3-INT 0.05% Class_I/LINE:LINE-RT 0.03% Class_I/LTR/Ty3_gypsy/chromovirus/chromo-unclass:Ty3-RT 0.03% Class_I/LTR/Ty3_gypsy/chromovirus/Chlamyvir:Ty3-RH 0.03% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-RH 0.03% Class_I/LTR/Ty1_copia/Ale:Ty1-RT 0.03% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RT 0.03% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-PROT 0.03% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-GAG 0.03% Class_I/LTR/Ty3_gypsy/chromovirus/Galadriel:Ty3-PROT 0.03% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-INT
pair_completeness	0.526522593320236
pbs_score	None
TR_score	None
TR_monomer_length	None
loop_index	0.000257400257400257
satellite_probability	1.86264069827155e-21
consensus	None
TAREAN_annotation	Other
orientation_score	1

comparative analysis:

Comparative analysis - species read counts:

Species	Read count
S5	1260
S4	1300
S6	1320

comparative analysis - number of edges between species:

	S5	S4	S6
S5	1630	1660	1690
S4	1660	1900	1890
S6	1690	1890	1860

comparative analysis - observed/expected number of edges between species

	S5	S4	S6
S5	1.040	0.969	0.990
S4	0.969	1.020	1.010
S6	0.990	1.010	0.997

protein domains:

protein domains:

Reads annotation summary

cl_string domain Freq proportion

LINE LINE-RT LINE LINE-RT 2 0.00051

Ale Ty1-RT Ale Ty1-RT 1 0.00026

Tekay Ty3-CHDII Tekay Ty3-CHDII 242 0.06229

Reina Ty3-GAG Reina Ty3-GAG 1 0.00026

Tekay Ty3-GAG Tekay Ty3-GAG 40 0.01030

CRM Ty3-INT CRM Ty3-INT 1 0.00026

Reina Ty3-INT Reina Ty3-INT 4 0.00103

Tekay Ty3-INT Tekay Ty3-INT 1420 0.36551

chromo-unclass Ty3-INT chromo-unclass Ty3-INT 2 0.00051

Galadriel Ty3-PROT Galadriel Ty3-PROT 1 0.00026

Reina Ty3-PROT Reina Ty3-PROT 1 0.00026

Tekay Ty3-PROT Tekay Ty3-PROT 62 0.01596

CRM Ty3-RH CRM Ty3-RH 1 0.00026

Chlamyvir Ty3-RH Chlamyvir Ty3-RH 1 0.00026

Reina Ty3-RH Reina Ty3-RH 15 0.00386

TatV Ty3-RH TatV Ty3-RH 22 0.00566

Tekay Ty3-RH Tekay Ty3-RH 618 0.15907

Chlamyvir Ty3-RT Chlamyvir Ty3-RT 21 0.00541

Reina Ty3-RT Reina Ty3-RT 1 0.00026

Tekay Ty3-RT Tekay Ty3-RT 397 0.10219

chromo-unclass Ty3-RT chromo-unclass Ty3-RT 1 0.00026

clusters with similarity:

Cluster	Number of similarity hits

15	38
88	6
83	2

clusters connected through mates:

Cluster	Number of shared read pairs	k

15	65	0.0414
83	43	0.0254
229	18	0.0284
595	11	0.0179
624	10	0.0163
10	9	0.00318
307	8	0.0127
1	7	0.00178
1010	6	0.00988
56	5	0.00286
90	5	0.00459
777	4	0.00654
1610	4	0.0066
2380	4	0.00661
16	3	0.0018
30	3	0.00135
35	3	0.00183
62	3	0.00272
142	3	0.00308
687	3	0.00492
1580	3	0.00494
10600	3	0.00497
12500	3	0.00497
7	2	0.000727
13	2	0.000978
19	2	0.000947
32	2	0.00104
49	2	0.00115
88	2	0.00223
127	2	0.0026
4190	2	0.00331
4730	2	0.00331
7000	2	0.00331
8650	2	0.00331
9750	2	0.00331
10200	2	0.00331
11400	2	0.00331
13300	2	0.00331
19300	2	0.00331
22900	2	0.00331
27700	2	0.00331
28300	2	0.00331
29300	2	0.00331
31800	2	0.00331
32300	2	0.00331
33400	2	0.00331
38000	2	0.00331
42300	2	0.00331
2	1	0.000271
5	1	0.000355
9	1	0.000576
24	1	0.000582
28	1	0.000444
40	1	0.000687
41	1	0.000592
45	1	0.00062
54	1	0.000622
57	1	0.000581
58	1	0.000558
59	1	0.000658
61	1	0.000558
63	1	0.000574
72	1	0.000628
73	1	0.000673
74	1	0.00113
84	1	0.000766
87	1	0.000838
94	1	0.000709
128	1	0.00132
132	1	0.00132
148	1	0.00161
150	1	0.00116
168	1	0.00136
234	1	0.00156
339	1	0.0016
800	1	0.00164
2140	1	0.00165
3460	1	0.00166
4420	1	0.00166
4550	1	0.00165
4970	1	0.00166
6000	1	0.00165
6620	1	0.00165
7630	1	0.00166
7670	1	0.00166
8580	1	0.00166
9290	1	0.00166
9830	1	0.00166
9960	1	0.00166
11300	1	0.00166
11300	1	0.00166
11500	1	0.00166
11600	1	0.00166
12000	1	0.00166
13300	1	0.00166
13400	1	0.00166
13900	1	0.00166
14000	1	0.00166
15400	1	0.00166
17900	1	0.00166
18600	1	0.00166
18800	1	0.00166
20000	1	0.00166
22100	1	0.00166
23200	1	0.00166
23500	1	0.00166
23900	1	0.00166
24500	1	0.00166
25700	1	0.00166
28800	1	0.00166
29900	1	0.00166
32300	1	0.00166
33500	1	0.00166
34700	1	0.00166
34700	1	0.00166
36600	1	0.00166
37400	1	0.00166
40300	1	0.00166
42800	1	0.00166
45800	1	0.00166

CL86 ----> CL15

No. of shared pairs: :65

CL86 ----> CL83

No. of shared pairs: :43

CL86 ----> CL229

No. of shared pairs: :18

CL86 ----> CL595

No. of shared pairs: :11

CL86 ----> CL624

No. of shared pairs: :10