Cluster no. 163

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Cluster is part of supercluster: 72

Cluster characteristics:

size	731
size_real	731
ecount	3860
supercluster	72
annotations_summary	29.69% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RH 24.49% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RT 2.87% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-PROT 0.82% Class_I/LTR/Ty3_gypsy/chromovirus/Chlamyvir:Ty3-RT 0.27% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RT 0.27% Class_I/pararetrovirus:PARA-RT 0.14% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RH 0.14% organelle/plastid 0.14% Class_I/LTR/Ty3_gypsy/chromovirus/Galadriel:Ty3-RT 0.14% Class_I/LTR/Ty3_gypsy/chromovirus/Tcn1:Ty3-RT 0.14% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RH 0.14% Class_I/LTR/Ty3_gypsy/non-chromovirus/Selgy:Ty3-RT
pair_completeness	0.7
pbs_score	None
TR_score	None
TR_monomer_length	None
loop_index	0.00136798905608755
satellite_probability	1.64859681984477e-22
consensus	None
TAREAN_annotation	Other
orientation_score	1

comparative analysis:

Comparative analysis - species read counts:

Species	Read count
S5	242
S4	230
S6	259

comparative analysis - number of edges between species:

	S5	S4	S6
S5	394	397	424
S4	397	416	474
S6	424	474	460

comparative analysis - observed/expected number of edges between species

	S5	S4	S6
S5	1.030	0.980	0.991
S4	0.980	0.969	1.050
S6	0.991	1.050	0.963

protein domains:

Reads annotation summary

cl_string domain Freq proportion

plastid plastid 1 0.0014

pararetrovirus PARA-RT pararetrovirus PARA-RT 2 0.0027

Tekay Ty3-PROT Tekay Ty3-PROT 21 0.0287

Reina Ty3-RH Reina Ty3-RH 1 0.0014

TatV Ty3-RH TatV Ty3-RH 1 0.0014

Tekay Ty3-RH Tekay Ty3-RH 217 0.2969

Chlamyvir Ty3-RT Chlamyvir Ty3-RT 6 0.0082

Galadriel Ty3-RT Galadriel Ty3-RT 1 0.0014

Reina Ty3-RT Reina Ty3-RT 2 0.0027

Selgy Ty3-RT Selgy Ty3-RT 1 0.0014

Tcn1 Ty3-RT Tcn1 Ty3-RT 1 0.0014

Tekay Ty3-RT Tekay Ty3-RT 179 0.2449

clusters connected through mates:

Cluster	Number of shared read pairs	k

199	12	0.109
175	11	0.0794
262	7	0.0909
473	5	0.0654
1080	4	0.0567
56	2	0.00165
35000	2	0.0305
46100	2	0.0305
10	1	0.000436
54	1	0.000935
72	1	0.000947
168	1	0.005
458	1	0.0135
5470	1	0.0153
5510	1	0.015
6010	1	0.015
9520	1	0.0154
15200	1	0.0153
15400	1	0.0153
19800	1	0.0153
20200	1	0.0153
30300	1	0.0153

CL163 ----> CL199

No. of shared pairs: :12

CL163 ----> CL175

No. of shared pairs: :11