Cluster no. 137

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Cluster is part of supercluster: 61

Cluster characteristics:

size	2424
size_real	2424
ecount	13748
supercluster	61
annotations_summary	21.95% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-INT 13.08% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-RT 10.81% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-RH 10.02% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-GAG 5.16% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-PROT 0.25% organelle/mitochondria 0.08% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RH 0.04% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RH 0.04% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RH
pair_completeness	0.799554565701559
pbs_score	None
TR_score	None
TR_monomer_length	None
loop_index	0.000412541254125413
satellite_probability	2.63652108321905e-23
consensus	None
TAREAN_annotation	Other
orientation_score	1

comparative analysis:

Comparative analysis - species read counts:

Species	Read count
S8	7
S5	1
S4	6
S7	4
S9	4
S6	6
S2	732
S1	812
S3	852

comparative analysis - number of edges between species:

	S8	S5	S4	S7	S9	S6	S2	S1	S3
S8	3.0	0.0	0.0	1.0	0.0	0.0	2.5	1.5	5.5
S5	0.0	0.0	0.5	0.0	0.0	0.0	3.5	3.0	2.0
S4	0.0	0.5	0.0	0.0	0.0	0.0	14.5	15.0	11.5
S7	1.0	0.0	0.0	0.0	0.0	0.0	0.5	2.0	2.5
S9	0.0	0.0	0.0	0.0	0.0	0.0	8.5	16.5	13.0
S6	0.0	0.0	0.0	0.0	0.0	1.0	17.5	16.5	12.0
S2	2.5	3.5	14.5	0.5	8.5	17.5	1120.0	1350.0	1340.0
S1	1.5	3.0	15.0	2.0	16.5	16.5	1350.0	1800.0	1720.0
S3	5.5	2.0	11.5	2.5	13.0	12.0	1340.0	1720.0	1710.0

comparative analysis - observed/expected number of edges between species

	S8	S5	S4	S7	S9	S6	S2	S1	S3
S8	226.00	0.000	0.000	170.000	0.000	0.000	0.660	0.310	1.160
S5	0.00	0.000	18.400	0.000	0.000	0.000	1.390	0.931	0.635
S4	0.00	18.400	0.000	0.000	0.000	0.000	1.250	1.010	0.792
S7	170.00	0.000	0.000	0.000	0.000	0.000	0.297	0.931	1.190
S9	0.00	0.000	0.000	0.000	0.000	0.000	0.797	1.210	0.977
S6	0.00	0.000	0.000	0.000	0.000	6.220	1.330	0.981	0.729
S2	0.66	1.390	1.250	0.297	0.797	1.330	1.040	0.977	0.991
S1	0.31	0.931	1.010	0.931	1.210	0.981	0.977	1.020	1.000
S3	1.16	0.635	0.792	1.190	0.977	0.729	0.991	1.000	1.010

protein domains:

Reads annotation summary

cl_string domain Freq proportion

mitochondria mitochondria 6 0.00248

CRM Ty3-GAG CRM Ty3-GAG 243 0.10025

CRM Ty3-INT CRM Ty3-INT 532 0.21947

CRM Ty3-PROT CRM Ty3-PROT 125 0.05157

CRM Ty3-RH CRM Ty3-RH 262 0.10809

Reina Ty3-RH Reina Ty3-RH 1 0.00041

TatV Ty3-RH TatV Ty3-RH 2 0.00083

Tekay Ty3-RH Tekay Ty3-RH 1 0.00041

CRM Ty3-RT CRM Ty3-RT 317 0.13078

clusters with similarity:

Cluster	Number of similarity hits

239

clusters connected through mates:

Cluster	Number of shared read pairs	k

239	21	0.0814
1220	14	0.0979
1620	6	0.0426
3460	5	0.0362
3470	5	0.0362
5780	5	0.0364
85	4	0.00624
23	2	0.00158
30	2	0.00175
42	2	0.00279
96	2	0.00293
113	2	0.00387
7960	2	0.0146
9110	2	0.0146
10600	2	0.0146
16300	2	0.0147
18500	2	0.0147
21100	2	0.0147
28300	2	0.0147
29800	2	0.0147
33900	2	0.0147
64200	2	0.0147
38	1	0.00086
57	1	0.00107
91	1	0.00127
125	1	0.00161
152	1	0.00201
806	1	0.00712
809	1	0.00709
2030	1	0.00709
2210	1	0.00717
2290	1	0.00712
2430	1	0.00719
4040	1	0.00722
9920	1	0.0073
10200	1	0.00735
10900	1	0.0073
12300	1	0.00733
14200	1	0.00738
14700	1	0.00733
15000	1	0.00733
15300	1	0.00733
16600	1	0.00733
22400	1	0.00735
24600	1	0.00735
25300	1	0.00735
29600	1	0.00735
34900	1	0.00735
41300	1	0.00735
47600	1	0.00735
48700	1	0.00735
51700	1	0.00735
56100	1	0.00735
56200	1	0.00735
62800	1	0.00735
67200	1	0.00735
70000	1	0.00735

CL137 ----> CL239

No. of shared pairs: :21

CL137 ----> CL1217

No. of shared pairs: :14