Cluster no. 55

Go back to cluster table

Cluster is part of supercluster: 13

Cluster characteristics:

size 2488
size_real 2488
ecount 25301
supercluster 13
annotations_summary 4.78% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-GAG
0.56% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Athila:Ty3-GAG
0.08% Class_I/LTR/Ty1_copia/Ale:Ty1-RH
0.04% Class_I/LTR/Ty1_copia/Ikeros:Ty1-INT
0.04% Class_I/LTR/Ty1_copia/Angela:Ty1-RH
0.04% Class_I/LTR/Ty1_copia/Tork:Ty1-RT
pair_completeness 0.650962176509622
pbs_score None
TR_score None
TR_monomer_length None
loop_index 0.27451768488746
satellite_probability 1.11953980258522e-10
consensus None
TAREAN_annotation Other
orientation_score 1

comparative analysis:


Comparative analysis - species read counts:
Species Read count
S8 835
S9 853
S7 800
comparative analysis - number of edges between species:
S8 S9 S7
S8 3170 3030 2750
S9 3030 2870 2620
S7 2750 2620 2450
comparative analysis - observed/expected number of edges between species
S8 S9 S7
S8 1.000 1.000 0.993
S9 1.000 0.999 0.995
S7 0.993 0.995 1.010

protein domains:

protein domains:


Reads annotation summary

  cl_string domain Freq proportion
Ikeros Ty1-INT Ikeros Ty1-INT 1 0.0004
Ale Ty1-RH Ale Ty1-RH 2 0.0008
Angela Ty1-RH Angela Ty1-RH 1 0.0004
Tork Ty1-RT Tork Ty1-RT 1 0.0004
Athila Ty3-GAG Athila Ty3-GAG 14 0.0056
TatV Ty3-GAG TatV Ty3-GAG 119 0.0478

clusters with similarity:

Cluster Number of similarity hits
50 1

clusters connected through mates:

Cluster Number of shared
read pairs		 k
50 12 0.0245
1 9 0.00304
1230 7 0.0263
22 6 0.00359
1350 6 0.0226
317 5 0.0184
18 4 0.00322
3270 4 0.0151
36 3 0.00331
1420 3 0.0113
1690 3 0.0113
4290 3 0.0113
4790 3 0.0113
5510 3 0.0113
2 2 0.000897
15 2 0.00151
16 2 0.000881
21 2 0.00218
23 2 0.00166
1200 2 0.00748
1520 2 0.00756
2920 2 0.00755
6940 2 0.00756
7430 2 0.00758
7980 2 0.00758
13100 2 0.00758
13400 2 0.00758
13700 2 0.00758
14000 2 0.00758
15700 2 0.00758
19400 2 0.00758
20700 2 0.00758
20800 2 0.00758
20900 2 0.00758
21000 2 0.00758
25100 2 0.00758
25700 2 0.00758
3 1 0.000305
4 1 0.000367
6 1 0.000359
7 1 0.000897
9 1 0.000425
11 1 0.000467
12 1 0.00085
20 1 0.000467
33 1 0.0015
34 1 0.00184
37 1 0.00115
43 1 0.00107
46 1 0.00152
53 1 0.00177
60 1 0.00172
61 1 0.00131
70 1 0.00178
74 1 0.00167
79 1 0.00221
80 1 0.00204
130 1 0.00335
159 1 0.00335
233 1 0.00372
289 1 0.00368
456 1 0.00372
899 1 0.00372
1610 1 0.00375
1810 1 0.00379
1850 1 0.00377
1880 1 0.00377
2370 1 0.00377
3490 1 0.00377
4150 1 0.00379
4330 1 0.00378
4830 1 0.0038
4840 1 0.00378
5300 1 0.00378
5390 1 0.00378
5470 1 0.00378
5960 1 0.00378
6140 1 0.00378
6910 1 0.0038
6910 1 0.00378
6950 1 0.00378
7020 1 0.00378
7100 1 0.00378
7130 1 0.00378
7660 1 0.00379
8150 1 0.00379
8230 1 0.00379
8530 1 0.00379
9580 1 0.00379
10100 1 0.00379
10900 1 0.00379
11000 1 0.00379
11200 1 0.00379
11500 1 0.00379
11600 1 0.00379
13400 1 0.00379
13700 1 0.00379
14600 1 0.00379
14700 1 0.00379
16900 1 0.00379
18600 1 0.00379
18700 1 0.00379
19800 1 0.00379
20000 1 0.00379
20200 1 0.00379
20800 1 0.00379
21500 1 0.00379
22200 1 0.00379
24700 1 0.00379

CL55 ----> CL50

image

No. of shared pairs: :12