Cluster no. 51

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Cluster is part of supercluster: 21

Cluster characteristics:

size 4343
size_real 4343
ecount 31837
supercluster 21
annotations_summary 30.83% Class_I/LTR/Ty1_copia/SIRE:Ty1-RT
20.68% Class_I/LTR/Ty1_copia/SIRE:Ty1-INT
12.09% Class_I/LTR/Ty1_copia/SIRE:Ty1-RH
5.13% Class_I/LTR/Ty1_copia/SIRE:Ty1-PROT
3.22% Class_I/LTR/Ty1_copia/Ivana:Ty1-RH
0.62% Class_I/LTR/Ty1_copia/Ivana:Ty1-INT
0.53% Class_I/LTR/Ty1_copia/Ivana:Ty1-PROT
0.25% Class_I/LTR/Ty1_copia/Alesia:Ty1-PROT
0.09% Class_I/LTR/Ty1_copia/Ivana:Ty1-RT
0.05% Class_I/LTR/Ty1_copia/Ale:Ty1-RT
0.05% Class_I/LTR/Ty1_copia/Ty1-outgroup:Ty1-INT
0.05% Class_I/LTR/Ty1_copia/TAR:Ty1-INT
0.05% Class_I/LTR/Ty1_copia/Tork:Ty1-INT
0.05% Class_I/LTR/Ty1_copia/Angela:Ty1-INT
0.02% Class_I/LTR/Ty1_copia/Ale:Ty1-INT
0.02% Class_I/LTR/Ty1_copia/Bianca:Ty1-RT
0.02% Class_II/Subclass_2/Helitron:Helitron-HEL2
0.02% Class_I/LTR/Ty1_copia/Ty1-outgroup:Ty1-RH
0.02% Class_I/LTR/Ty1_copia/Gymco-I:Ty1-INT
0.02% organelle/plastid
pair_completeness 0.733040702314445
pbs_score None
TR_score None
TR_monomer_length None
loop_index 0.000230255583697905
satellite_probability 9.81425038973844e-23
consensus None
TAREAN_annotation Other
orientation_score 1

comparative analysis:


Comparative analysis - species read counts:
Species Read count
S2 1360
S1 1460
S3 1520
comparative analysis - number of edges between species:
S2 S1 S3
S2 3490 3370 3530
S1 3370 3590 3590
S3 3530 3590 3780
comparative analysis - observed/expected number of edges between species
S2 S1 S3
S2 1.030 0.979 0.993
S1 0.979 1.030 0.994
S3 0.993 0.994 1.010

protein domains:

protein domains:


Reads annotation summary

  cl_string domain Freq proportion
plastid plastid 1 0.00023
Helitron Helitron-HEL2 Helitron Helitron-HEL2 1 0.00023
Ale Ty1-INT Ale Ty1-INT 1 0.00023
Angela Ty1-INT Angela Ty1-INT 2 0.00046
Gymco-I Ty1-INT Gymco-I Ty1-INT 1 0.00023
Ivana Ty1-INT Ivana Ty1-INT 27 0.00622
SIRE Ty1-INT SIRE Ty1-INT 898 0.20677
TAR Ty1-INT TAR Ty1-INT 2 0.00046
Tork Ty1-INT Tork Ty1-INT 2 0.00046
Ty1-outgroup Ty1-INT Ty1-outgroup Ty1-INT 2 0.00046
Alesia Ty1-PROT Alesia Ty1-PROT 11 0.00253
Ivana Ty1-PROT Ivana Ty1-PROT 23 0.00530
SIRE Ty1-PROT SIRE Ty1-PROT 223 0.05135
Ivana Ty1-RH Ivana Ty1-RH 140 0.03224
SIRE Ty1-RH SIRE Ty1-RH 525 0.12088
Ty1-outgroup Ty1-RH Ty1-outgroup Ty1-RH 1 0.00023
Ale Ty1-RT Ale Ty1-RT 2 0.00046
Bianca Ty1-RT Bianca Ty1-RT 1 0.00023
Ivana Ty1-RT Ivana Ty1-RT 4 0.00092
SIRE Ty1-RT SIRE Ty1-RT 1339 0.30831

clusters with similarity:

Cluster Number of similarity hits
64 69
65 14
99 3
111 3
93 2
187 1

clusters connected through mates:

Cluster Number of shared
read pairs		 k
111 30 0.0674
93 27 0.0474
99 26 0.0622
64 25 0.039
187 17 0.0479
222 9 0.0253
4 7 0.0027
1190 7 0.0205
255 5 0.0139
636 5 0.0148
1030 5 0.0147
3430 5 0.0148
3960 5 0.0148
4280 4 0.0119
6580 4 0.0119
1250 3 0.00881
1320 3 0.00886
4420 3 0.0089
5180 3 0.00892
5600 3 0.00892
7690 3 0.00892
8280 3 0.00893
10100 3 0.00893
10700 3 0.00893
6 2 0.00113
12 2 0.000983
13 2 0.00114
23 2 0.00178
42 2 0.00148
65 2 0.00391
2240 2 0.00591
2760 2 0.00592
5810 2 0.00594
6190 2 0.00596
7320 2 0.00594
9810 2 0.00595
10900 2 0.00595
12100 2 0.00595
34200 2 0.00596
35400 2 0.00596
39000 2 0.00596
45600 2 0.00596
45900 2 0.00596
48500 2 0.00596
51000 2 0.00596
51400 2 0.00596
7 1 0.000403
8 1 0.0011
9 1 0.000641
16 1 0.000503
17 1 0.000643
26 1 0.000665
34 1 0.00164
37 1 0.000688
38 1 0.000788
40 1 0.00105
43 1 0.00141
46 1 0.00109
54 1 0.00179
67 1 0.00141
68 1 0.00104
72 1 0.00148
74 1 0.000775
79 1 0.00141
84 1 0.00158
86 1 0.00189
92 1 0.00157
109 1 0.00277
159 1 0.00266
166 1 0.0025
298 1 0.00293
325 1 0.00279
479 1 0.00287
1240 1 0.00296
1850 1 0.00296
2030 1 0.00296
2440 1 0.00296
2630 1 0.00296
3060 1 0.00297
3400 1 0.00296
3930 1 0.00298
4160 1 0.00298
5380 1 0.00297
5660 1 0.00297
5660 1 0.00298
5820 1 0.00298
6210 1 0.00297
6990 1 0.00297
7130 1 0.00297
7170 1 0.00297
7500 1 0.00298
8870 1 0.00298
9040 1 0.00298
9170 1 0.00298
9240 1 0.00298
10700 1 0.00298
11600 1 0.00298
11600 1 0.00298
14400 1 0.00298
14800 1 0.00298
18000 1 0.00298
18400 1 0.00298
20000 1 0.00298
20500 1 0.00298
20700 1 0.00298
24300 1 0.00298
26700 1 0.00298
27000 1 0.00298
27100 1 0.00298
28900 1 0.00298
30000 1 0.00298
31000 1 0.00298
31900 1 0.00298
32000 1 0.00298
33500 1 0.00298
35200 1 0.00298
37000 1 0.00298
37400 1 0.00298
38600 1 0.00298
44900 1 0.00298
45300 1 0.00298
48100 1 0.00298
49200 1 0.00298
51100 1 0.00298

CL51 ----> CL111

image

No. of shared pairs: :30

CL51 ----> CL93

image

No. of shared pairs: :27

CL51 ----> CL99

image

No. of shared pairs: :26

CL51 ----> CL64

image

No. of shared pairs: :25

CL51 ----> CL187

image

No. of shared pairs: :17