Cluster no. 53

Cluster no. 53

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Cluster is part of supercluster: 3

Cluster characteristics:

size	5303
size_real	5303
ecount	97296
supercluster	3
annotations_summary	2.85% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-GAG 0.23% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-GAG 0.13% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-INT 0.09% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-GAG 0.09% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RT 0.04% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RH 0.02% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatIV_Ogre:Ty3-RT 0.02% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-PROT
pair_completeness	0.653054862842893
pbs_score	None
TR_score	None
TR_monomer_length	None
loop_index	0.000565717518385819
satellite_probability	3.68527499034017e-22
consensus	None
TAREAN_annotation	Other
orientation_score	1

comparative analysis:

Comparative analysis - species read counts:

Species	Read count
S8	1720
S5	6
S4	8
S7	1720
S9	1820
S6	14
S2	6
S1	6
S3	3

comparative analysis - number of edges between species:

	S8	S5	S4	S7	S9	S6	S2	S1	S3
S8	10000.0	20.5	49.0	10200.0	10900.0	82.5	28	30.0	15.0
S5	20.5	0.0	0.0	14.5	20.5	0.0	0	0.0	0.0
S4	49.0	0.0	1.0	48.5	53.5	0.5	0	0.0	0.0
S7	10200.0	14.5	48.5	10400.0	10900.0	78.5	26	15.0	10.5
S9	10900.0	20.5	53.5	10900.0	11600.0	92.5	26	37.5	14.5
S6	82.5	0.0	0.5	78.5	92.5	1.0	1	0.0	0.0
S2	28.0	0.0	0.0	26.0	26.0	1.0	0	0.0	0.0
S1	30.0	0.0	0.0	15.0	37.5	0.0	0	1.0	0.0
S3	15.0	0.0	0.0	10.5	14.5	0.0	0	0.0	0.0

comparative analysis - observed/expected number of edges between species

	S8	S5	S4	S7	S9	S6	S2	S1	S3
S8	0.995	1.150	0.999	1.000	1.000	1.000	1.080	1.120	1.170
S5	1.150	0.000	0.000	0.801	1.070	0.000	0.000	0.000	0.000
S4	0.999	0.000	4.180	0.975	1.020	1.250	0.000	0.000	0.000
S7	1.000	0.801	0.975	1.010	0.993	0.941	0.985	0.551	0.805
S9	1.000	1.070	1.020	0.993	1.000	1.050	0.929	1.300	1.050
S6	1.000	0.000	1.250	0.941	1.050	1.480	4.690	0.000	0.000
S2	1.080	0.000	0.000	0.985	0.929	4.690	0.000	0.000	0.000
S1	1.120	0.000	0.000	0.551	1.300	0.000	0.000	14.000	0.000
S3	1.170	0.000	0.000	0.805	1.050	0.000	0.000	0.000	0.000

protein domains:

protein domains:

Reads annotation summary

cl_string domain Freq proportion

CRM Ty3-GAG CRM Ty3-GAG 12 0.00226

Reina Ty3-GAG Reina Ty3-GAG 5 0.00094

Tekay Ty3-GAG Tekay Ty3-GAG 151 0.02847

Tekay Ty3-INT Tekay Ty3-INT 7 0.00132

Tekay Ty3-PROT Tekay Ty3-PROT 1 0.00019

Tekay Ty3-RH Tekay Ty3-RH 2 0.00038

TatIV_Ogre Ty3-RT TatIV_Ogre Ty3-RT 1 0.00019

Tekay Ty3-RT Tekay Ty3-RT 5 0.00094

clusters with similarity:

Cluster	Number of similarity hits

40	728
102	439
12	101
4	95
104	72
79	12
32	5
9	3
36	3
22	1
103	1

clusters connected through mates:

Cluster	Number of shared read pairs	k

40	262	0.232
102	147	0.159
104	118	0.159
4	78	0.0362
12	26	0.0149
79	22	0.0286
103	16	0.0198
5	11	0.00455
9	9	0.00718
11	7	0.00389
32	7	0.0061
221	7	0.0105
1900	6	0.0107
8	5	0.00211
21	5	0.00484
36	5	0.00334
1080	5	0.0089
17	4	0.00184
22	4	0.00183
68	4	0.00297
78	4	0.00243
54	3	0.00216
59	3	0.00173
106	3	0.00312
114	3	0.00332
209	3	0.0044
213	3	0.00427
5550	3	0.00537
65	2	0.00208
83	2	0.00215
100	2	0.00203
107	2	0.00178
131	2	0.00223
138	2	0.00263
167	2	0.00262
172	2	0.00323
193	2	0.00325
235	2	0.00313
4680	2	0.00357
17300	2	0.00358
29300	2	0.00359
7	1	0.000502
15	1	0.000354
18	1	0.000551
23	1	0.000593
69	1	0.000595
91	1	0.000825
139	1	0.00122
150	1	0.00143
157	1	0.00103
162	1	0.000946
173	1	0.00131
177	1	0.00149
182	1	0.00137
198	1	0.00135
199	1	0.00154
203	1	0.00139
206	1	0.00136
227	1	0.00166
261	1	0.00165
277	1	0.0017
310	1	0.0017
312	1	0.00174
349	1	0.00175
429	1	0.00173
432	1	0.00175
519	1	0.00173
807	1	0.00177
823	1	0.00176
909	1	0.00177
1070	1	0.00177
1390	1	0.00178
3000	1	0.00178
4100	1	0.00179
4500	1	0.00179
6020	1	0.00179
7300	1	0.00179
7660	1	0.00179
11400	1	0.00179
14400	1	0.00179
17400	1	0.00179
18300	1	0.00179
20300	1	0.00179
22500	1	0.00179
22800	1	0.00179
23600	1	0.00179
28700	1	0.00179
32800	1	0.00179
36600	1	0.00179
36800	1	0.00179
42300	1	0.00179
43600	1	0.00179
55300	1	0.00179
56100	1	0.00179
68000	1	0.00179
69200	1	0.00179

CL53 ----> CL40

No. of shared pairs: :262

CL53 ----> CL102

No. of shared pairs: :147

CL53 ----> CL104

No. of shared pairs: :118

CL53 ----> CL4

No. of shared pairs: :78

CL53 ----> CL12

No. of shared pairs: :26

CL53 ----> CL79

No. of shared pairs: :22

CL53 ----> CL103

No. of shared pairs: :16

CL53 ----> CL5

No. of shared pairs: :11