Cluster no. 50

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Cluster is part of supercluster: 11

Cluster characteristics:

size 2615
size_real 2615
ecount 16763
supercluster 11
annotations_summary 10.48% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-INT
5.74% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RT
4.86% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RH
3.14% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-PROT
3.06% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-GAG
2.98% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-aRH
0.65% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatIV_Ogre:Ty3-aRH
0.04% Class_I/LTR/Ty1_copia/Ale:Ty1-INT
0.04% Class_I/LTR/Ty1_copia/TAR:Ty1-RH
0.04% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatI:Ty3-INT
0.04% Class_I/LINE:LINE-RT
0.04% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-INT
pair_completeness 0.704693611473272
pbs_score None
TR_score None
TR_monomer_length None
loop_index 0.000382409177820268
satellite_probability 1.64859681984477e-22
consensus None
TAREAN_annotation Other
orientation_score 1

comparative analysis:


Comparative analysis - species read counts:
Species Read count
S8 916
S9 749
S7 950
comparative analysis - number of edges between species:
S8 S9 S7
S8 2090 1660 2110
S9 1660 1320 1760
S7 2110 1760 2300
comparative analysis - observed/expected number of edges between species
S8 S9 S7
S8 1.020 1.000 0.979
S9 1.000 0.985 1.010
S7 0.979 1.010 1.010

protein domains:

protein domains:


Reads annotation summary

  cl_string domain Freq proportion
LINE LINE-RT LINE LINE-RT 1 0.00038
Ale Ty1-INT Ale Ty1-INT 1 0.00038
TAR Ty1-RH TAR Ty1-RH 1 0.00038
TatV Ty3-GAG TatV Ty3-GAG 80 0.03059
Reina Ty3-INT Reina Ty3-INT 1 0.00038
TatI Ty3-INT TatI Ty3-INT 1 0.00038
TatV Ty3-INT TatV Ty3-INT 274 0.10478
TatV Ty3-PROT TatV Ty3-PROT 82 0.03136
TatV Ty3-RH TatV Ty3-RH 127 0.04857
TatV Ty3-RT TatV Ty3-RT 150 0.05736
TatIV_Ogre Ty3-aRH TatIV_Ogre Ty3-aRH 17 0.00650
TatV Ty3-aRH TatV Ty3-aRH 78 0.02983

clusters with similarity:

Cluster Number of similarity hits
47 4
55 1

clusters connected through mates:

Cluster Number of shared
read pairs		 k
47 41 0.0981
55 12 0.0245
254 9 0.0377
312 6 0.0255
23 5 0.00427
2680 4 0.0175
2 3 0.00137
4 3 0.00112
58 3 0.00936
296 3 0.0128
573 3 0.0129
659 3 0.0129
1000 3 0.013
1520 3 0.013
2920 3 0.0131
3590 3 0.0131
7240 3 0.0132
1 2 0.000684
13 2 0.000804
27 2 0.00119
28 2 0.00271
62 2 0.00396
64 2 0.0036
75 2 0.00413
1500 2 0.00873
2820 2 0.00877
3050 2 0.00879
4710 2 0.00877
4840 2 0.00877
5050 2 0.00877
8190 2 0.00879
11700 2 0.00879
12100 2 0.00879
12700 2 0.00879
13000 2 0.00879
16100 2 0.00879
23700 2 0.00879
24500 2 0.00879
8 1 0.000589
9 1 0.000432
12 1 0.000877
14 1 0.000924
15 1 0.000776
16 1 0.000448
17 1 0.000912
20 1 0.000475
21 1 0.00114
24 1 0.000711
25 1 0.00157
32 1 0.000577
35 1 0.000864
40 1 0.0013
42 1 0.00182
43 1 0.00111
54 1 0.00192
56 1 0.00115
59 1 0.00102
61 1 0.00138
65 1 0.00207
74 1 0.00177
85 1 0.00348
90 1 0.0027
95 1 0.00329
111 1 0.00355
131 1 0.00379
185 1 0.00426
267 1 0.00412
300 1 0.00419
330 1 0.00421
716 1 0.00437
801 1 0.00431
802 1 0.00433
986 1 0.00434
1410 1 0.00436
1650 1 0.00435
1690 1 0.00437
1940 1 0.00438
1980 1 0.00436
2140 1 0.00438
2170 1 0.00437
2270 1 0.00441
2690 1 0.00437
2960 1 0.0044
3350 1 0.00438
3380 1 0.0044
3730 1 0.00438
3740 1 0.00438
5300 1 0.00439
5320 1 0.00441
5350 1 0.00439
5820 1 0.00439
5840 1 0.00439
6940 1 0.00441
8180 1 0.0044
8660 1 0.0044
11100 1 0.0044
12600 1 0.0044
12600 1 0.0044
14800 1 0.0044
16300 1 0.0044
16400 1 0.0044
16500 1 0.0044
16600 1 0.0044
17600 1 0.0044
19500 1 0.0044
21100 1 0.0044
21700 1 0.0044
23400 1 0.0044
23800 1 0.0044
25300 1 0.0044

CL50 ----> CL47

image

No. of shared pairs: :41

CL50 ----> CL55

image

No. of shared pairs: :12