Cluster no. 135

Cluster no. 135

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Cluster is part of supercluster: 60

Cluster characteristics:

size	2438
size_real	2438
ecount	20259
supercluster	60
annotations_summary	8.45% Class_I/LTR/Ty1_copia/SIRE:Ty1-GAG 0.04% Class_I/LTR/Ty1_copia/TAR:Ty1-INT 0.04% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RT 0.04% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-INT 0.04% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RH
pair_completeness	0.691880638445524
pbs_score	None
TR_score	None
TR_monomer_length	None
loop_index	0.569319114027892
satellite_probability	0.000330689671139645
consensus	None
TAREAN_annotation	Other
orientation_score	1

comparative analysis:

Comparative analysis - species read counts:

Species	Read count
S8	2
S5	834
S4	762
S7	1
S9	0
S6	834
S2	2
S1	0
S3	3

comparative analysis - number of edges between species:

	S8	S5	S4	S7	S9	S6	S2	S1	S3
S8	1.0	13.5	8.5	0.0	0	9.0	0.5	0	0.0
S5	13.5	2410.0	2150.0	0.5	0	2340.0	12.5	0	7.5
S4	8.5	2150.0	2010.0	0.0	0	2180.0	11.0	0	8.0
S7	0.0	0.5	0.0	0.0	0	0.5	0.0	0	0.0
S9	0.0	0.0	0.0	0.0	0	0.0	0.0	0	0.0
S6	9.0	2340.0	2180.0	0.5	0	2300.0	12.0	0	10.5
S2	0.5	12.5	11.0	0.0	0	12.0	0.0	0	0.0
S1	0.0	0.0	0.0	0.0	0	0.0	0.0	0	0.0
S3	0.0	7.5	8.0	0.0	0	10.5	0.0	0	0.0

comparative analysis - observed/expected number of edges between species

	S8	S5	S4	S7	S9	S6	S2	S1	S3
S8	19.200	1.210	0.832	0.00	NA	0.818	8.660	NA	0.000
S5	1.210	1.020	0.985	1.46	NA	0.998	1.010	NA	0.842
S4	0.832	0.985	1.010	0.00	NA	1.010	0.972	NA	0.979
S7	0.000	1.460	0.000	0.00	NA	1.480	0.000	NA	0.000
S9	NA	NA	NA	NA	NA	NA	NA	NA	NA
S6	0.818	0.998	1.010	1.48	NA	0.992	0.985	NA	1.190
S2	8.660	1.010	0.972	0.00	NA	0.985	0.000	NA	0.000
S1	NA	NA	NA	NA	NA	NA	NA	NA	NA
S3	0.000	0.842	0.979	0.00	NA	1.190	0.000	NA	0.000

protein domains:

protein domains:

Reads annotation summary

cl_string domain Freq proportion

SIRE Ty1-GAG SIRE Ty1-GAG 206 0.08450

TAR Ty1-INT TAR Ty1-INT 1 0.00041

Tekay Ty3-INT Tekay Ty3-INT 1 0.00041

Tekay Ty3-RH Tekay Ty3-RH 1 0.00041

TatV Ty3-RT TatV Ty3-RT 1 0.00041

clusters with similarity:

Cluster	Number of similarity hits

74	13
117	5

clusters connected through mates:

Cluster	Number of shared read pairs	k

74	46	0.0839
117	22	0.0373
282	17	0.0692
418	15	0.0633
2000	7	0.0308
1070	5	0.0219
2040	5	0.0219
1	3	0.00155
3	3	0.000986
14	3	0.00164
5420	3	0.0133
5780	3	0.0134
7120	3	0.0134
8670	3	0.0134
13700	3	0.0134
19	2	0.00104
34	2	0.00143
84	2	0.00207
105	2	0.00268
126	2	0.00316
289	2	0.00797
7280	2	0.00891
13600	2	0.00895
14800	2	0.00895
28800	2	0.00897
31800	2	0.00897
33400	2	0.00897
34500	2	0.00897
39800	2	0.00897
70200	2	0.00897
2	1	0.000565
6	1	0.000349
10	1	0.000555
17	1	0.000544
20	1	0.000882
24	1	0.00119
26	1	0.000871
28	1	0.000795
29	1	0.000793
31	1	0.00103
33	1	0.000505
43	1	0.000676
45	1	0.000605
48	1	0.000836
49	1	0.000568
52	1	0.00129
55	1	0.00106
56	1	0.00119
60	1	0.000829
61	1	0.000944
67	1	0.000928
70	1	0.00183
80	1	0.00104
89	1	0.00144
99	1	0.00134
121	1	0.00204
123	1	0.00126
128	1	0.00119
132	1	0.00292
138	1	0.00235
142	1	0.00243
146	1	0.00135
155	1	0.0024
165	1	0.00284
181	1	0.00168
185	1	0.002
186	1	0.00305
245	1	0.00418
360	1	0.00411
722	1	0.00426
764	1	0.00426
2380	1	0.00444
3330	1	0.00442
3860	1	0.00445
3950	1	0.00445
4580	1	0.00446
6700	1	0.00445
10500	1	0.00446
11100	1	0.00447
11100	1	0.00449
16900	1	0.00449
18100	1	0.00447
18800	1	0.00447
19100	1	0.00447
21800	1	0.00448
23800	1	0.00448
33800	1	0.00448
34400	1	0.00448
35200	1	0.00448
41700	1	0.00448
42200	1	0.00448
47500	1	0.00448
48400	1	0.00448
48900	1	0.00448
59700	1	0.00448
62900	1	0.00448
63800	1	0.00448
67300	1	0.00448
68700	1	0.00448
69300	1	0.00448

CL135 ----> CL74

No. of shared pairs: :46

CL135 ----> CL117

No. of shared pairs: :22

CL135 ----> CL282

No. of shared pairs: :17

CL135 ----> CL418

No. of shared pairs: :15