Cluster no. 88

Go back to cluster table

Cluster is part of supercluster: 6

Cluster characteristics:

size	3636
size_real	3636
ecount	190828
supercluster	6
annotations_summary	53.14% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-INT 16.72% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RH 10.34% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-CHDII 0.28% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RH 0.06% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-CHDII 0.06% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-INT 0.03% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RH 0.03% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-INT 0.03% Class_I/LTR/Ty3_gypsy/chromovirus/Tcn1:Ty3-PROT 0.03% Class_I/LINE:LINE-ENDO
pair_completeness	0.720776147657359
pbs_score	None
TR_score	None
TR_monomer_length	None
loop_index	0.00137513751375138
satellite_probability	1.17014641654426e-22
consensus	None
TAREAN_annotation	Other
orientation_score	1

comparative analysis:

Comparative analysis - species read counts:

Species	Read count
S5	1290
S4	1140
S6	1200

comparative analysis - number of edges between species:

	S5	S4	S6
S5	24100	21000	22900
S4	21000	17900	19700
S6	22900	19700	21600

comparative analysis - observed/expected number of edges between species

	S5	S4	S6
S5	0.993	1.010	1.000
S4	1.010	0.994	0.998
S6	1.000	0.998	1.000

protein domains:

Reads annotation summary

cl_string domain Freq proportion

LINE LINE-ENDO LINE LINE-ENDO 1 0.00028

Reina Ty3-CHDII Reina Ty3-CHDII 2 0.00055

Tekay Ty3-CHDII Tekay Ty3-CHDII 376 0.10341

CRM Ty3-INT CRM Ty3-INT 1 0.00028

Reina Ty3-INT Reina Ty3-INT 2 0.00055

Tekay Ty3-INT Tekay Ty3-INT 1932 0.53135

Tcn1 Ty3-PROT Tcn1 Ty3-PROT 1 0.00028

Reina Ty3-RH Reina Ty3-RH 10 0.00275

TatV Ty3-RH TatV Ty3-RH 1 0.00028

Tekay Ty3-RH Tekay Ty3-RH 608 0.16722

clusters with similarity:

Cluster	Number of similarity hits

89	1480
103	1430
86	6
9	1
15	1

clusters connected through mates:

Cluster	Number of shared read pairs	k

103	181	0.177
89	142	0.239
38	3	0.00367
58	3	0.00202
4940	3	0.0101
1	2	0.000553
13	2	0.00115
30	2	0.00105
34	2	0.00268
41	2	0.00145
45	2	0.00153
54	2	0.00154
57	2	0.00142
66	2	0.00224
86	2	0.00223
3780	2	0.00675
15000	2	0.00676
15700	2	0.00676
18400	2	0.00676
25000	2	0.00676
29700	2	0.00676
5	1	0.000399
9	1	7e-04
10	1	0.000396
14	1	0.00069
18	1	0.00066
19	1	0.000554
21	1	0.000394
27	1	0.000838
28	1	0.000514
32	1	0.00062
35	1	0.000751
39	1	0.000962
49	1	0.000701
50	1	0.000844
56	1	0.000694
59	1	0.000825
63	1	0.000697
65	1	0.00112
92	1	0.00202
94	1	0.000907
127	1	0.00216
13100	1	0.00338
30900	1	0.00338
39500	1	0.00338
42600	1	0.00338
42600	1	0.00338
47500	1	0.00338

CL88 ----> CL103

No. of shared pairs: :181

CL88 ----> CL89

No. of shared pairs: :142