Cluster no. 88

Cluster no. 88

Go back to cluster table

Cluster is part of supercluster: 36

Cluster characteristics:

size	1898
size_real	1898
ecount	8794
supercluster	36
annotations_summary	27.45% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-INT 12.75% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RT 11.49% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RH 5.16% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-CHDII 3.48% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-PROT 0.84% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RT 0.32% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-RT 0.16% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RH 0.16% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-PROT 0.11% organelle/mitochondria 0.11% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-RH 0.05% Class_I/LTR/Ty3_gypsy/chromovirus/chromo-unclass:Ty3-RT 0.05% Class_II/Subclass_1/TIR/hAT:hAT-TPase 0.05% Class_I/LTR/Ty3_gypsy/chromovirus/Galadriel:Ty3-RH 0.05% Class_I/pararetrovirus:PARA-RT
pair_completeness	0.594957983193277
pbs_score	None
TR_score	None
TR_monomer_length	None
loop_index	0.000526870389884088
satellite_probability	8.75468016753053e-22
consensus	None
TAREAN_annotation	Other
orientation_score	1

comparative analysis:

Comparative analysis - species read counts:

Species	Read count
S2	634
S1	606
S3	658

comparative analysis - number of edges between species:

	S2	S1	S3
S2	1000	920	1050
S1	920	899	916
S3	1050	916	1120

comparative analysis - observed/expected number of edges between species

	S2	S1	S3
S2	0.999	0.995	1.010
S1	0.995	1.060	0.954
S3	1.010	0.954	1.040

protein domains:

protein domains:

Reads annotation summary

cl_string domain Freq proportion

mitochondria mitochondria 2 0.00105

pararetrovirus PARA-RT pararetrovirus PARA-RT 1 0.00053

Tekay Ty3-CHDII Tekay Ty3-CHDII 98 0.05163

Tekay Ty3-INT Tekay Ty3-INT 521 0.27450

Reina Ty3-PROT Reina Ty3-PROT 3 0.00158

Tekay Ty3-PROT Tekay Ty3-PROT 66 0.03477

CRM Ty3-RH CRM Ty3-RH 2 0.00105

Galadriel Ty3-RH Galadriel Ty3-RH 1 0.00053

TatV Ty3-RH TatV Ty3-RH 3 0.00158

Tekay Ty3-RH Tekay Ty3-RH 218 0.11486

CRM Ty3-RT CRM Ty3-RT 6 0.00316

Reina Ty3-RT Reina Ty3-RT 16 0.00843

Tekay Ty3-RT Tekay Ty3-RT 242 0.12750

chromo-unclass Ty3-RT chromo-unclass Ty3-RT 1 0.00053

hAT hAT-TPase hAT hAT-TPase 1 0.00053

clusters with similarity:

Cluster	Number of similarity hits

39

4

clusters connected through mates:

Cluster	Number of shared read pairs	k

39	47	0.0365
726	6	0.0242
4750	5	0.0205
846	4	0.0161
2930	4	0.0164
4100	4	0.0164
1	3	0.00134
1240	3	0.0122
1370	3	0.0122
2350	3	0.0123
2510	3	0.0123
2800	3	0.0123
3940	3	0.0123
5020	3	0.0123
7800	3	0.0123
8720	3	0.0124
5	2	0.000836
11	2	0.00136
22	2	0.00164
37	2	0.00147
1240	2	0.00815
1590	2	0.00816
4340	2	0.00821
4610	2	0.00821
5410	2	0.00826
8400	2	0.00825
8760	2	0.00825
13800	2	0.00825
22500	2	0.00826
25200	2	0.00826
31000	2	0.00826
35700	2	0.00826
3	1	0.000559
8	1	0.00123
9	1	0.000682
10	1	0.000678
12	1	0.000515
13	1	0.000604
16	1	0.000527
35	1	0.000515
48	1	0.00133
56	1	0.000838
73	1	0.00149
74	1	0.000836
86	1	0.0023
240	1	0.00372
273	1	0.00388
730	1	0.00402
912	1	0.00408
1390	1	0.00409
1430	1	0.00406
1500	1	0.00407
1650	1	0.00408
1700	1	0.00407
1840	1	0.00407
1960	1	0.00409
2270	1	0.0041
3300	1	0.00412
3620	1	0.00412
4460	1	0.00411
4610	1	0.00412
5100	1	0.00412
5620	1	0.00412
5840	1	0.00413
7450	1	0.00412
7650	1	0.00412
8730	1	0.00412
10300	1	0.00412
10400	1	0.00414
10400	1	0.00412
10500	1	0.00412
10500	1	0.00414
10800	1	0.00412
11000	1	0.00412
19300	1	0.00413
20800	1	0.00413
24200	1	0.00413
24400	1	0.00413
24700	1	0.00413
25700	1	0.00413
27100	1	0.00413
31400	1	0.00413
31700	1	0.00413
32300	1	0.00413
32500	1	0.00413
33500	1	0.00413
35300	1	0.00413
36000	1	0.00413
36200	1	0.00413
36700	1	0.00413
41200	1	0.00413
44700	1	0.00413
44800	1	0.00413
45500	1	0.00413
48200	1	0.00413
48400	1	0.00413
49600	1	0.00413

CL88 ----> CL39

No. of shared pairs: :47