Cluster no. 138

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Cluster is part of supercluster: 62

Cluster characteristics:

size 2396
size_real 2396
ecount 19338
supercluster 62
annotations_summary 19.07% Class_I/LTR/Ty1_copia/TAR:Ty1-RT
12.77% Class_I/LTR/Ty1_copia/TAR:Ty1-INT
7.01% Class_I/LTR/Ty1_copia/TAR:Ty1-RH
3.38% Class_I/LTR/Ty1_copia/TAR:Ty1-PROT
2.67% Class_I/LTR/Ty1_copia/TAR:Ty1-GAG
0.13% Class_I/LTR/Ty1_copia/SIRE:Ty1-RT
0.08% Class_I/LTR/Ty1_copia/Ale:Ty1-RT
pair_completeness 0.710206995003569
pbs_score None
TR_score None
TR_monomer_length None
loop_index 0.00208681135225376
satellite_probability 1.39099901770407e-22
consensus None
TAREAN_annotation Other
orientation_score 1

comparative analysis:


Comparative analysis - species read counts:
Species Read count
S8 167
S5 601
S4 537
S7 205
S9 201
S6 596
S2 30
S1 36
S3 23
comparative analysis - number of edges between species:
S8 S5 S4 S7 S9 S6 S2 S1 S3
S8 295.0 15.0 20.0 344.0 318.0 22.0 23.0 27.5 11.5
S5 15.0 1860.0 1690.0 34.5 13.5 1720.0 12.0 13.5 0.5
S4 20.0 1690.0 1550.0 38.0 15.5 1610.0 18.0 8.0 1.0
S7 344.0 34.5 38.0 385.0 354.0 38.0 28.5 31.0 13.0
S9 318.0 13.5 15.5 354.0 336.0 15.5 33.5 35.0 12.5
S6 22.0 1720.0 1610.0 38.0 15.5 1720.0 13.5 12.5 2.5
S2 23.0 12.0 18.0 28.5 33.5 13.5 11.0 16.0 5.0
S1 27.5 13.5 8.0 31.0 35.0 12.5 16.0 15.0 8.5
S3 11.5 0.5 1.0 13.0 12.5 2.5 5.0 8.5 10.0
comparative analysis - observed/expected number of edges between species
S8 S5 S4 S7 S9 S6 S2 S1 S3
S8 4.9300 0.0503 0.0726 4.8900 5.0400 0.0767 2.580 2.960 3.2100
S5 0.0503 1.2500 1.2300 0.0983 0.0430 1.2100 0.270 0.291 0.0279
S4 0.0726 1.2300 1.2200 0.1170 0.0534 1.2200 0.438 0.187 0.0605
S7 4.8900 0.0983 0.1170 4.6500 4.7700 0.1130 2.710 2.840 3.0800
S9 5.0400 0.0430 0.0534 4.7700 5.0700 0.0513 3.560 3.580 3.3100
S6 0.0767 1.2100 1.2200 0.1130 0.0513 1.2500 0.315 0.281 0.1450
S2 2.5800 0.2700 0.4380 2.7100 3.5600 0.3150 8.260 11.500 9.3400
S1 2.9600 0.2910 0.1870 2.8400 3.5800 0.2810 11.500 10.400 15.3000
S3 3.2100 0.0279 0.0605 3.0800 3.3100 0.1450 9.340 15.300 46.5000

protein domains:

protein domains:


Reads annotation summary

  cl_string domain Freq proportion
TAR Ty1-GAG TAR Ty1-GAG 64 0.02671
TAR Ty1-INT TAR Ty1-INT 306 0.12771
TAR Ty1-PROT TAR Ty1-PROT 81 0.03381
TAR Ty1-RH TAR Ty1-RH 168 0.07012
Ale Ty1-RT Ale Ty1-RT 2 0.00083
SIRE Ty1-RT SIRE Ty1-RT 3 0.00125
TAR Ty1-RT TAR Ty1-RT 457 0.19073

clusters connected through mates:

Cluster Number of shared
read pairs		 k
1750 7 0.0334
1140 5 0.0238
873 4 0.0187
10100 4 0.0195
429 3 0.0133
4230 3 0.0145
8700 3 0.0146
3 2 0.000661
6 2 0.000703
29 2 0.00161
37 2 0.00212
53 2 0.00263
90 2 0.00229
92 2 0.00305
530 2 0.00924
4310 2 0.00973
4890 2 0.00976
6960 2 0.00978
11400 2 0.00978
14000 2 0.00978
14100 2 0.00978
23100 2 0.0098
26700 2 0.0098
33300 2 0.0098
38200 2 0.0098
63800 2 0.0098
64500 2 0.0098
4 1 0.000555
9 1 0.00111
12 1 0.000717
14 1 0.000553
15 1 0.000404
22 1 0.000546
28 1 0.000807
33 1 0.00051
48 1 0.00085
56 1 0.00121
61 1 0.000961
67 1 0.000945
71 1 0.000884
72 1 0.00116
83 1 0.00173
84 1 0.00105
86 1 0.00142
87 1 0.00121
88 1 0.00117
91 1 0.00116
106 1 0.00165
117 1 0.00175
135 1 0.00235
142 1 0.00255
166 1 0.00268
178 1 0.00255
186 1 0.00324
404 1 0.00443
428 1 0.00463
2240 1 0.0048
4780 1 0.00485
5210 1 0.00485
5530 1 0.00487
9260 1 0.0049
9920 1 0.0049
10000 1 0.00488
11700 1 0.00491
12300 1 0.00489
13800 1 0.00489
15400 1 0.00491
28100 1 0.0049
34100 1 0.0049
36000 1 0.0049
37400 1 0.0049
39600 1 0.0049
46800 1 0.0049
52600 1 0.0049
55300 1 0.0049
64000 1 0.0049
64200 1 0.0049
69200 1 0.0049