Cluster no. 70

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Cluster is part of supercluster: 29

Cluster characteristics:

size 2876
size_real 2876
ecount 19390
supercluster 29
annotations_summary 0.14% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RT
0.03% Class_I/LTR/Ty1_copia/Ale:Ty1-INT
0.03% organelle/plastid
0.03% Class_I/LTR/Ty3_gypsy/chromovirus/Tcn1:Ty3-RT
0.03% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-RT
0.03% Class_I/LTR/Ty1_copia/Tork:Ty1-INT
pair_completeness 0.644368210405946
pbs_score None
TR_score None
TR_monomer_length None
loop_index 0.0163421418636996
satellite_probability 3.2248535574017e-20
consensus None
TAREAN_annotation Other
orientation_score 1

comparative analysis:


Comparative analysis - species read counts:
Species Read count
S2 983
S1 958
S3 935
comparative analysis - number of edges between species:
S2 S1 S3
S2 2320 2120 2230
S1 2120 2060 2060
S3 2230 2060 2200
comparative analysis - observed/expected number of edges between species
S2 S1 S3
S2 1.010 0.988 0.998
S1 0.988 1.030 0.988
S3 0.998 0.988 1.010

protein domains:

protein domains:


Reads annotation summary

  cl_string domain Freq proportion
plastid plastid 1 0.00035
Ale Ty1-INT Ale Ty1-INT 1 0.00035
Tork Ty1-INT Tork Ty1-INT 1 0.00035
CRM Ty3-RT CRM Ty3-RT 1 0.00035
Tcn1 Ty3-RT Tcn1 Ty3-RT 1 0.00035
Tekay Ty3-RT Tekay Ty3-RT 4 0.00139

clusters with similarity:

Cluster Number of similarity hits
69 34
9 3
114 1
125 1

clusters connected through mates:

Cluster Number of shared
read pairs
k
69 38 0.0651
125 19 0.0441
500 9 0.028
24 7 0.00495
408 5 0.0155
1220 5 0.0158
1400 5 0.0158
1980 5 0.0159
2070 5 0.0159
4 4 0.00156
844 4 0.0125
2400 4 0.0127
9 3 0.00195
80 3 0.00284
2460 3 0.00957
2520 3 0.00954
2590 3 0.00954
2610 3 0.00957
3470 3 0.00955
4230 3 0.00957
8490 3 0.0096
10700 3 0.0096
11200 3 0.0096
3 2 0.00108
11 2 0.00129
13 2 0.00116
16 2 0.00102
28 2 0.00127
37 2 0.0014
39 2 0.00147
45 2 0.00268
54 2 0.00374
64 2 0.00324
68 2 0.00214
74 2 0.00158
283 2 0.00603
556 2 0.00624
640 2 0.00631
665 2 0.00632
775 2 0.00626
1320 2 0.00635
1620 2 0.00635
2040 2 0.00636
2450 2 0.00636
3140 2 0.00637
3370 2 0.00637
3780 2 0.00638
4010 2 0.0064
4880 2 0.0064
5130 2 0.00638
5670 2 0.00639
8320 2 0.0064
9480 2 0.0064
26800 2 0.00641
34300 2 0.00641
43700 2 0.00641
46600 2 0.00641
50300 2 0.00641
5 1 0.000406
7 1 0.000407
8 1 0.00113
12 1 0.000497
14 1 0.000492
17 1 0.000653
22 1 0.000778
23 1 0.00091
25 1 0.00085
27 1 0.000664
30 1 0.000717
34 1 0.00171
38 1 0.000803
40 1 0.00108
42 1 0.000754
43 1 0.00146
53 1 0.00134
59 1 0.00138
60 1 0.00138
75 1 0.00136
83 1 0.0019
92 1 0.00163
98 1 0.00175
124 1 0.00225
140 1 0.00264
150 1 0.00292
258 1 0.00301
343 1 0.00314
353 1 0.00303
407 1 0.00308
430 1 0.00315
1580 1 0.00318
1610 1 0.00318
1650 1 0.00318
1730 1 0.00318
1790 1 0.00317
1930 1 0.00318
2250 1 0.00317
2730 1 0.00319
3000 1 0.00318
3200 1 0.00318
3640 1 0.00319
3690 1 0.00319
3890 1 0.0032
4080 1 0.00319
4120 1 0.00319
4430 1 0.00319
4660 1 0.00319
4710 1 0.0032
4950 1 0.0032
4960 1 0.00319
5050 1 0.00319
6010 1 0.00319
6010 1 0.00321
6040 1 0.00321
7600 1 0.00319
8190 1 0.0032
9340 1 0.0032
12200 1 0.0032
12300 1 0.0032
12400 1 0.0032
13200 1 0.00321
13200 1 0.0032
16600 1 0.00321
17500 1 0.00321
19200 1 0.00321
20200 1 0.00321
25400 1 0.00321
26900 1 0.00321
27900 1 0.00321
29900 1 0.00321
31000 1 0.00321
33700 1 0.00321
36400 1 0.00321
37500 1 0.00321
37500 1 0.00321
38300 1 0.00321
38600 1 0.00321
39400 1 0.00321
39600 1 0.00321
39800 1 0.00321
43400 1 0.00321
45500 1 0.00321
47200 1 0.00321
47900 1 0.00321
51500 1 0.00321
51800 1 0.00321

CL70 ----> CL69

image

No. of shared pairs: :38

CL70 ----> CL125

image

No. of shared pairs: :19