Cluster no. 32

Cluster no. 32

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Cluster is part of supercluster: 3

Cluster characteristics:

size	6981
size_real	6981
ecount	133363
supercluster	3
annotations_summary	16.22% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RT 11.30% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-INT 8.81% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RH 3.65% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-PROT 2.32% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-GAG 1.07% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RT 1.06% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-PROT 0.69% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RH 0.49% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-GAG 0.40% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-RT 0.30% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-CHDII 0.30% Class_I/LTR/Ty3_gypsy/chromovirus/Chlamyvir:Ty3-RT 0.09% Class_I/pararetrovirus:PARA-RT 0.09% Class_I/LTR/Ty3_gypsy/chromovirus/Tcn1:Ty3-RT 0.06% Class_I/LTR/Ty3_gypsy/chromovirus/Chlamyvir:Ty3-PROT 0.06% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-INT 0.06% Class_I/LTR/Ty3_gypsy/chromovirus/Galadriel:Ty3-GAG 0.03% Class_I/LTR/Ty3_gypsy/chromovirus/Galadriel:Ty3-RT 0.03% Class_I/LTR/Ty3_gypsy/non-chromovirus/Phygy:Ty3-PROT 0.01% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-RH 0.01% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Athila:Ty3-GAG 0.01% Class_I/LTR/Ty3_gypsy/chromovirus/Chlamyvir:Ty3-RH
pair_completeness	0.710610144572409
pbs_score	None
TR_score	None
TR_monomer_length	None
loop_index	0.000143245953301819
satellite_probability	1.39099901770407e-22
consensus	None
TAREAN_annotation	Other
orientation_score	1

comparative analysis:

Comparative analysis - species read counts:

Species	Read count
S8	2330
S5	8
S4	8
S7	2220
S9	2380
S6	9
S2	18
S1	8
S3	3

comparative analysis - number of edges between species:

	S8	S5	S4	S7	S9	S6	S2	S1	S3
S8	14600.0	13.5	31.5	14000.0	15100.0	27.5	92.5	60.5	8.5
S5	13.5	0.0	0.0	11.5	16.0	0.0	0.5	0.0	0.0
S4	31.5	0.0	0.0	25.5	22.5	0.5	0.0	0.0	0.0
S7	14000.0	11.5	25.5	13800.0	14700.0	23.5	106.0	55.0	6.5
S9	15100.0	16.0	22.5	14700.0	15700.0	28.0	114.0	68.0	11.0
S6	27.5	0.0	0.5	23.5	28.0	0.0	0.0	0.0	0.0
S2	92.5	0.5	0.0	106.0	114.0	0.0	0.0	0.5	0.0
S1	60.5	0.0	0.0	55.0	68.0	0.0	0.5	0.0	0.0
S3	8.5	0.0	0.0	6.5	11.0	0.0	0.0	0.0	0.0

comparative analysis - observed/expected number of edges between species

	S8	S5	S4	S7	S9	S6	S2	S1	S3
S8	1.010	0.986	1.190	0.991	1.000	1.050	0.897	0.996	0.991
S5	0.986	0.000	0.000	0.864	1.120	0.000	5.140	0.000	0.000
S4	1.190	0.000	0.000	0.993	0.818	10.500	0.000	0.000	0.000
S7	0.991	0.864	0.993	1.010	1.000	0.921	1.050	0.932	0.779
S9	1.000	1.120	0.818	1.000	0.998	1.020	1.060	1.080	1.230
S6	1.050	0.000	10.500	0.921	1.020	0.000	0.000	0.000	0.000
S2	0.897	5.140	0.000	1.050	1.060	0.000	0.000	1.160	0.000
S1	0.996	0.000	0.000	0.932	1.080	0.000	1.160	0.000	0.000
S3	0.991	0.000	0.000	0.779	1.230	0.000	0.000	0.000	0.000

protein domains:

protein domains:

Reads annotation summary

cl_string domain Freq proportion

pararetrovirus PARA-RT pararetrovirus PARA-RT 6 0.00086

Tekay Ty3-CHDII Tekay Ty3-CHDII 21 0.00301

Athila Ty3-GAG Athila Ty3-GAG 1 0.00014

CRM Ty3-GAG CRM Ty3-GAG 34 0.00487

Galadriel Ty3-GAG Galadriel Ty3-GAG 4 0.00057

Tekay Ty3-GAG Tekay Ty3-GAG 162 0.02321

Reina Ty3-INT Reina Ty3-INT 4 0.00057

Tekay Ty3-INT Tekay Ty3-INT 789 0.11302

Chlamyvir Ty3-PROT Chlamyvir Ty3-PROT 4 0.00057

Phygy Ty3-PROT Phygy Ty3-PROT 2 0.00029

Reina Ty3-PROT Reina Ty3-PROT 74 0.01060

Tekay Ty3-PROT Tekay Ty3-PROT 255 0.03653

CRM Ty3-RH CRM Ty3-RH 1 0.00014

Chlamyvir Ty3-RH Chlamyvir Ty3-RH 1 0.00014

Reina Ty3-RH Reina Ty3-RH 48 0.00688

Tekay Ty3-RH Tekay Ty3-RH 615 0.08810

CRM Ty3-RT CRM Ty3-RT 28 0.00401

Chlamyvir Ty3-RT Chlamyvir Ty3-RT 21 0.00301

Galadriel Ty3-RT Galadriel Ty3-RT 2 0.00029

Reina Ty3-RT Reina Ty3-RT 75 0.01074

Tcn1 Ty3-RT Tcn1 Ty3-RT 6 0.00086

Tekay Ty3-RT Tekay Ty3-RT 1132 0.16215

clusters with similarity:

Cluster	Number of similarity hits

4	796
9	380
79	324
104	101
12	47
221	22
21	8
124	7
209	6
53	5
263	3

clusters connected through mates:

Cluster	Number of shared read pairs	k

4	257	0.117
9	186	0.144
12	79	0.0443
79	49	0.061
221	36	0.0515
209	33	0.0461
124	30	0.0369
263	25	0.0372
21	15	0.014
83	9	0.00932
104	8	0.0103
53	7	0.0061
22	6	0.00271
106	6	0.00603
1920	5	0.00838
8	4	0.00166
54	4	0.00281
473	4	0.00663
17	3	0.00136
91	3	0.00241
2340	3	0.00505
3960	3	0.00506
5080	3	0.00506
6430	3	0.00506
11	2	0.00109
40	2	0.00172
192	2	0.00261
2110	2	0.00337
6740	2	0.00337
7570	2	0.00338
9890	2	0.00338
17700	2	0.00338
34700	2	0.00338
35400	2	0.00338
38300	2	0.00338
64400	2	0.00338
5	1	0.000408
78	1	0.000595
112	1	0.00108
114	1	0.00107
136	1	0.00081
150	1	0.00136
163	1	0.00152
182	1	0.00131
232	1	0.0014
270	1	0.00153
546	1	0.00165
2350	1	0.00168
2580	1	0.00168
3080	1	0.00168
3190	1	0.00168
3570	1	0.00168
4440	1	0.00168
5320	1	0.00169
5440	1	0.00169
6290	1	0.00169
6350	1	0.00169
7300	1	0.00169
8960	1	0.00169
10800	1	0.00169
11000	1	0.00169
12000	1	0.00169
13400	1	0.00169
16100	1	0.00169
16300	1	0.00169
16400	1	0.00169
16600	1	0.00169
16600	1	0.00169
17400	1	0.00169
17800	1	0.00169
20300	1	0.00169
20900	1	0.00169
21400	1	0.00169
23600	1	0.00169
27300	1	0.00169
28200	1	0.00169
29800	1	0.00169
30500	1	0.00169
35500	1	0.00169
42400	1	0.00169
42500	1	0.00169
45100	1	0.00169
47500	1	0.00169
50200	1	0.00169
52000	1	0.00169
53200	1	0.00169
56700	1	0.00169
58000	1	0.00169
59100	1	0.00169

CL32 ----> CL4

No. of shared pairs: :257

CL32 ----> CL9

No. of shared pairs: :186

CL32 ----> CL12

No. of shared pairs: :79

CL32 ----> CL79

No. of shared pairs: :49

CL32 ----> CL221

No. of shared pairs: :36

CL32 ----> CL209

No. of shared pairs: :33

CL32 ----> CL124

No. of shared pairs: :30

CL32 ----> CL263

No. of shared pairs: :25

CL32 ----> CL21

No. of shared pairs: :15