Cluster no. 79

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Cluster is part of supercluster: 36

Cluster characteristics:

size	3967
size_real	3967
ecount	72016
supercluster	36
annotations_summary	25.94% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-INT 15.18% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RT 11.37% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RH 4.87% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-GAG 2.57% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-PROT 0.53% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RH 0.53% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RT 0.53% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-PROT 0.48% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-RT 0.45% Class_I/LTR/Ty3_gypsy/chromovirus/Chlamyvir:Ty3-RT 0.28% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-CHDII 0.28% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-GAG 0.18% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-RH 0.15% Class_I/LTR/Ty3_gypsy/chromovirus/Tcn1:Ty3-RT 0.05% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Athila:Ty3-RH 0.03% Class_I/LTR/Ty3_gypsy/chromovirus/chromo-unclass:Ty3-INT 0.03% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-GAG 0.03% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-INT
pair_completeness	0.806466302367942
pbs_score	None
TR_score	None
TR_monomer_length	None
loop_index	0.000252079657171666
satellite_probability	2.15940292115794e-23
consensus	None
TAREAN_annotation	Other
orientation_score	1

comparative analysis:

Comparative analysis - species read counts:

Species	Read count
S8	1260
S5	6
S4	11
S7	1340
S9	1340
S6	12
S2	2
S1	2
S3	0

comparative analysis - number of edges between species:

	S8	S5	S4	S7	S9	S6	S2	S1
S8	7590.0	64.5	54.0	7540.0	7940.0	65.5	31.0	6.5
S5	64.5	1.0	0.0	56.5	54.5	0.0	0.0	0.0
S4	54.0	0.0	2.0	72.5	63.5	0.0	0.0	0.0
S7	7540.0	56.5	72.5	7910.0	8090.0	60.5	19.5	3.5
S9	7940.0	54.5	63.5	8090.0	8100.0	56.5	23.5	5.0
S6	65.5	0.0	0.0	60.5	56.5	2.0	0.0	0.0
S2	31.0	0.0	0.0	19.5	23.5	0.0	0.0	0.0
S1	6.5	0.0	0.0	3.5	5.0	0.0	0.0	0.0
S3	0.0	0.0	0.0	0.0	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	1.130	0.869	0.982	1.010	1.100	1.300	1.340	NA
S5	1.130	2.310	0.000	0.971	0.914	0.000	0.000	0.000	NA
S4	0.869	0.000	3.910	1.150	0.979	0.000	0.000	0.000	NA
S7	0.982	0.971	1.150	1.010	1.010	0.994	0.799	0.708	NA
S9	1.010	0.914	0.979	1.010	0.985	0.906	0.940	0.987	NA
S6	1.100	0.000	0.000	0.994	0.906	4.230	0.000	0.000	NA
S2	1.300	0.000	0.000	0.799	0.940	0.000	0.000	0.000	NA
S1	1.340	0.000	0.000	0.708	0.987	0.000	0.000	0.000	NA
S3	NA	NA	NA	NA	NA	NA	NA	NA	NA

protein domains:

Reads annotation summary

cl_string domain Freq proportion

Tekay Ty3-CHDII Tekay Ty3-CHDII 11 0.00277

CRM Ty3-GAG CRM Ty3-GAG 11 0.00277

Reina Ty3-GAG Reina Ty3-GAG 1 0.00025

Tekay Ty3-GAG Tekay Ty3-GAG 193 0.04865

CRM Ty3-INT CRM Ty3-INT 1 0.00025

Tekay Ty3-INT Tekay Ty3-INT 1029 0.25939

chromo-unclass Ty3-INT chromo-unclass Ty3-INT 1 0.00025

Reina Ty3-PROT Reina Ty3-PROT 21 0.00529

Tekay Ty3-PROT Tekay Ty3-PROT 102 0.02571

Athila Ty3-RH Athila Ty3-RH 2 0.00050

CRM Ty3-RH CRM Ty3-RH 7 0.00176

Reina Ty3-RH Reina Ty3-RH 21 0.00529

Tekay Ty3-RH Tekay Ty3-RH 451 0.11369

CRM Ty3-RT CRM Ty3-RT 19 0.00479

Chlamyvir Ty3-RT Chlamyvir Ty3-RT 18 0.00454

Reina Ty3-RT Reina Ty3-RT 21 0.00529

Tcn1 Ty3-RT Tcn1 Ty3-RT 6 0.00151

Tekay Ty3-RT Tekay Ty3-RT 602 0.15175

clusters with similarity:

Cluster	Number of similarity hits

32	324
4	261
12	220
104	54
53	12
221	7
209	1

clusters connected through mates:

Cluster	Number of shared read pairs	k

4	134	0.074
12	85	0.0606
32	49	0.061
53	22	0.0286
104	18	0.045
8	3	0.00148
9990	3	0.014
83	2	0.0034
253	2	0.00733
2110	2	0.00926
27400	2	0.00937
67200	2	0.00937
5	1	0.000483
9	1	0.0011
11	1	0.000688
22	1	0.000543
36	1	0.000867
51	1	0.000704
54	1	0.000954
75	1	0.00122
91	1	0.00115
100	1	0.00156
103	1	0.00215
106	1	0.00162
114	1	0.00179
139	1	0.00211
1740	1	0.00461
1900	1	0.00462
5550	1	0.00465
6430	1	0.00465
7850	1	0.00468
16600	1	0.00467
20600	1	0.00468
66600	1	0.00468

CL79 ----> CL4

No. of shared pairs: :134

CL79 ----> CL12

No. of shared pairs: :85

CL79 ----> CL32

No. of shared pairs: :49

CL79 ----> CL53

No. of shared pairs: :22

CL79 ----> CL104

No. of shared pairs: :18