Cluster no. 28

Cluster no. 28

Go back to cluster table

Cluster is part of supercluster: 3

Cluster characteristics:

size	6284
size_real	6284
ecount	1073008
supercluster	3
annotations_summary	0.05% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RT 0.02% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-GAG 0.02% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatIV_Ogre:Ty3-RT 0.02% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-INT 0.02% Class_I/LINE:LINE-ENDO 0.02% Class_I/LTR/Ty1_copia/Ale:Ty1-INT
pair_completeness	0.425266500340213
pbs_score	None
TR_score	None
TR_monomer_length	None
loop_index	0.00843411839592616
satellite_probability	1.0041894271145e-20
consensus	None
TAREAN_annotation	Other
orientation_score	1

comparative analysis:

Comparative analysis - species read counts:

Species	Read count
S2	2020
S1	2110
S3	2160

comparative analysis - number of edges between species:

	S2	S1	S3
S2	107000	116000	116000
S1	116000	126000	126000
S3	116000	126000	125000

comparative analysis - observed/expected number of edges between species

	S2	S1	S3
S2	1.000	0.998	1.000
S1	0.998	1.000	1.000
S3	1.000	1.000	0.998

protein domains:

protein domains:

Reads annotation summary

cl_string domain Freq proportion

LINE LINE-ENDO LINE LINE-ENDO 1 0.00016

Ale Ty1-INT Ale Ty1-INT 1 0.00016

Tekay Ty3-GAG Tekay Ty3-GAG 1 0.00016

CRM Ty3-INT CRM Ty3-INT 1 0.00016

TatIV_Ogre Ty3-RT TatIV_Ogre Ty3-RT 1 0.00016

TatV Ty3-RT TatV Ty3-RT 3 0.00048

clusters with similarity:

Cluster	Number of similarity hits

56	11400
27	6830
37	1600
10	1290
80	1

clusters connected through mates:

Cluster	Number of shared read pairs	k

27	1000	0.406
37	875	0.367
10	127	0.0508
56	123	0.0554
12	10	0.00337
9	8	0.00321
1	6	0.00184
4	5	0.00142
22	5	0.00223
74	5	0.00225
11	4	0.0016
39	4	0.00173
7	3	0.000879
25	3	0.00141
34	3	0.00195
38	3	0.00136
40	3	0.00159
2360	3	0.00236
8	2	0.00109
23	2	0.000973
32	2	0.000833
33	2	0.000938
42	2	0.000876
68	2	0.00106
69	2	0.0013
70	2	0.00127
98	2	0.00131
4530	2	0.00158
33100	2	0.00158
45500	2	0.00158
2	1	0.000289
3	1	0.000355
6	1	0.000371
13	1	0.000373
14	1	0.000335
18	1	0.00032
20	1	0.000649
21	1	0.000486
24	1	0.000422
26	1	0.000411
29	1	0.000461
31	1	0.000405
36	1	0.000568
46	1	0.000541
47	1	0.000645
58	1	0.000626
60	1	0.000595
64	1	0.000636
65	1	0.000693
67	1	0.00061
75	1	0.000591
80	1	0.000497
90	1	0.000599
99	1	0.00074
106	1	0.00071
129	1	0.000757
147	1	0.000781
403	1	0.000782
593	1	0.000784
694	1	0.000783
899	1	0.000786
1020	1	0.000786
1740	1	0.000787
1880	1	0.000786
3250	1	0.000787
6710	1	0.000788
7080	1	0.000788
7220	1	0.000788
7460	1	0.000788
8540	1	0.000788
8680	1	0.000788
9040	1	0.000788
11000	1	0.000788
11300	1	0.000788
11900	1	0.000788
12300	1	0.000788
13400	1	0.000788
21500	1	0.000789
22500	1	0.000789
28400	1	0.000789
29100	1	0.000789
30700	1	0.000789
33700	1	0.000789
34400	1	0.000789
34500	1	0.000789
34900	1	0.000789
39300	1	0.000789
45200	1	0.000789

CL28 ----> CL27

No. of shared pairs: :1001

CL28 ----> CL37

No. of shared pairs: :875

CL28 ----> CL10

No. of shared pairs: :127

CL28 ----> CL56

No. of shared pairs: :123

CL28 ----> CL12

No. of shared pairs: :10