Cluster no. 52

Cluster no. 52

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Cluster is part of supercluster: 12

Cluster characteristics:

size	4214
size_real	4214
ecount	233055
supercluster	12
annotations_summary	25.49% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-INT 13.48% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RH 13.19% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RT 5.58% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-CHDII 4.46% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-PROT 0.55% Class_I/LTR/Ty3_gypsy/chromovirus/Chlamyvir:Ty3-RT 0.47% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RT 0.09% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-PROT 0.05% Class_I/LTR/Ty3_gypsy/chromovirus/Tcn1:Ty3-RT 0.05% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RH 0.05% Class_I/pararetrovirus:PARA-RT 0.02% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Athila:Ty3-RH 0.02% Class_I/LTR/Ty3_gypsy/non-chromovirus/Selgy:Ty3-RT
pair_completeness	0.84339457567804
pbs_score	None
TR_score	None
TR_monomer_length	None
loop_index	0.000711912672045562
satellite_probability	1.1655040537334e-23
consensus	None
TAREAN_annotation	Other
orientation_score	1

comparative analysis:

Comparative analysis - species read counts:

Species	Read count
S2	1260
S1	1450
S3	1510

comparative analysis - number of edges between species:

	S2	S1	S3
S2	21000	24100	24900
S1	24100	27500	28600
S3	24900	28600	29500

comparative analysis - observed/expected number of edges between species

	S2	S1	S3
S2	1	1.000	1.000
S1	1	0.996	1.000
S3	1	1.000	0.997

protein domains:

protein domains:

Reads annotation summary

cl_string domain Freq proportion

pararetrovirus PARA-RT pararetrovirus PARA-RT 2 0.00047

Tekay Ty3-CHDII Tekay Ty3-CHDII 235 0.05577

Tekay Ty3-INT Tekay Ty3-INT 1074 0.25486

Reina Ty3-PROT Reina Ty3-PROT 4 0.00095

Tekay Ty3-PROT Tekay Ty3-PROT 188 0.04461

Athila Ty3-RH Athila Ty3-RH 1 0.00024

TatV Ty3-RH TatV Ty3-RH 2 0.00047

Tekay Ty3-RH Tekay Ty3-RH 568 0.13479

Chlamyvir Ty3-RT Chlamyvir Ty3-RT 23 0.00546

Reina Ty3-RT Reina Ty3-RT 20 0.00475

Selgy Ty3-RT Selgy Ty3-RT 1 0.00024

Tcn1 Ty3-RT Tcn1 Ty3-RT 2 0.00047

Tekay Ty3-RT Tekay Ty3-RT 556 0.13194

clusters with similarity:

Cluster	Number of similarity hits

34	235
19	2
15	1

clusters connected through mates:

Cluster	Number of shared read pairs	k

34	131	0.289
19	5	0.0102
1980	4	0.0219
4540	3	0.0165
4	2	0.00082
11	2	0.00142
12	2	0.00106
15	2	0.00401
46	2	0.00262
55	2	0.00409
80	2	0.00217
2730	2	0.0111
3770	2	0.011
4150	2	0.0111
4980	2	0.011
9060	2	0.0111
11500	2	0.0111
14800	2	0.0111
18000	2	0.0111
48300	2	0.0111
5	1	0.000429
6	1	0.000621
8	1	0.00133
9	1	0.000712
10	1	0.000707
14	1	0.000526
16	1	0.000545
25	1	0.000957
26	1	0.000742
39	1	0.000816
43	1	0.00181
57	1	0.00228
67	1	0.00181
68	1	0.00124
71	1	0.00227
74	1	0.000882
92	1	0.00208
779	1	0.00545
1250	1	0.00546
1700	1	0.00546
1880	1	0.00551
1920	1	0.00554
2720	1	0.00551
3060	1	0.00549
4810	1	0.00554
5580	1	0.00552
5600	1	0.00552
5680	1	0.00552
5780	1	0.00552
6630	1	0.00552
7160	1	0.00552
7800	1	0.00556
9690	1	0.00554
10300	1	0.00554
11100	1	0.00557
11100	1	0.00554
11200	1	0.00557
11800	1	0.00554
12500	1	0.00554
13400	1	0.00557
14000	1	0.00557
19600	1	0.00556
20200	1	0.00556
20400	1	0.00556
21500	1	0.00556
23100	1	0.00556
24500	1	0.00556
28000	1	0.00556
29100	1	0.00556
29200	1	0.00556
29700	1	0.00556
30000	1	0.00556
33000	1	0.00556
33100	1	0.00556
34400	1	0.00556
37100	1	0.00556
41200	1	0.00556
43600	1	0.00556
44100	1	0.00556
44200	1	0.00556
44600	1	0.00556
46300	1	0.00556
52300	1	0.00556

CL52 ----> CL34

No. of shared pairs: :131