Cluster no. 73

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Cluster is part of supercluster: 7

Cluster characteristics:

size 2636
size_real 2636
ecount 70140
supercluster 7
annotations_summary 10.89% Class_I/LTR/Ty1_copia/SIRE:Ty1-GAG
0.08% Class_I/LTR/Ty1_copia/Bryco:Ty1-GAG
0.08% Class_I/LTR/Ty1_copia/Ivana:Ty1-GAG
0.08% Class_I/LTR/Ty1_copia/TAR:Ty1-GAG
0.04% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RH
0.04% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RT
0.04% organelle/plastid
0.04% Class_I/LTR/Ty3_gypsy/chromovirus/Tcn1:Ty3-INT
pair_completeness 0.508872352604465
pbs_score None
TR_score None
TR_monomer_length None
loop_index 0.00113808801213961
satellite_probability 2.33736515693784e-21
consensus None
TAREAN_annotation Other
orientation_score 1

comparative analysis:


Comparative analysis - species read counts:
Species Read count
S2 828
S1 889
S3 919
comparative analysis - number of edges between species:
S2 S1 S3
S2 7520 7280 8210
S1 7280 7080 7880
S3 8210 7880 8790
comparative analysis - observed/expected number of edges between species
S2 S1 S3
S2 0.996 0.998 1.010
S1 0.998 1.000 0.999
S3 1.010 0.999 0.996

protein domains:

protein domains:


Reads annotation summary

  cl_string domain Freq proportion
plastid plastid 1 0.00038
Bryco Ty1-GAG Bryco Ty1-GAG 2 0.00076
Ivana Ty1-GAG Ivana Ty1-GAG 2 0.00076
SIRE Ty1-GAG SIRE Ty1-GAG 287 0.10888
TAR Ty1-GAG TAR Ty1-GAG 2 0.00076
Tcn1 Ty3-INT Tcn1 Ty3-INT 1 0.00038
Reina Ty3-RH Reina Ty3-RH 1 0.00038
TatV Ty3-RT TatV Ty3-RT 1 0.00038

clusters with similarity:

Cluster Number of similarity hits
53 158
86 11
145 1

clusters connected through mates:

Cluster Number of shared
read pairs		 k
53 147 0.17
145 23 0.0442
86 12 0.0192
9 7 0.00423
3440 6 0.0139
1250 4 0.00922
2 3 0.00115
4 3 0.00112
17 3 0.00182
25 3 0.00232
1160 3 0.0069
1 2 0.000823
6 2 0.00107
8 2 0.002
16 2 0.00096
19 2 0.0027
24 2 0.0013
50 2 0.00196
68 2 0.0019
74 2 0.00145
381 2 0.00447
668 2 0.00457
2340 2 0.00462
2460 2 0.00462
6980 2 0.00465
8810 2 0.00465
9060 2 0.00465
9500 2 0.00465
10100 2 0.00465
11800 2 0.00465
12200 2 0.00465
18700 2 0.00465
19100 2 0.00465
19700 2 0.00465
23100 2 0.00465
29800 2 0.00465
30800 2 0.00465
43000 2 0.00465
3 1 0.000506
7 1 0.000388
12 1 0.000469
14 1 0.000465
23 1 0.000822
26 1 0.000626
37 1 0.000646
38 1 0.000733
39 1 0.000678
44 1 0.000801
47 1 0.0014
48 1 0.00106
58 1 0.00132
62 1 0.00209
64 1 0.00136
65 1 0.00165
79 1 0.00125
88 1 0.00149
92 1 0.00137
98 1 0.00145
99 1 0.00195
100 1 0.00186
102 1 0.00206
125 1 0.00182
126 1 0.00207
135 1 0.00203
139 1 0.00185
142 1 0.00183
172 1 0.00207
683 1 0.00227
754 1 0.0023
912 1 0.00231
944 1 0.0023
1570 1 0.0023
1660 1 0.00231
1720 1 0.0023
1820 1 0.00231
1860 1 0.00231
2020 1 0.00231
2800 1 0.00232
3230 1 0.00231
3420 1 0.00231
3870 1 0.00232
4180 1 0.00232
4200 1 0.00232
4290 1 0.00232
5160 1 0.00232
5490 1 0.00233
5870 1 0.00232
6130 1 0.00233
6300 1 0.00232
6450 1 0.00232
6920 1 0.00233
7040 1 0.00233
7180 1 0.00233
7610 1 0.00232
7660 1 0.00232
7790 1 0.00232
8670 1 0.00233
9660 1 0.00232
10700 1 0.00232
10900 1 0.00233
11000 1 0.00232
11400 1 0.00232
12900 1 0.00232
13800 1 0.00232
15600 1 0.00233
18600 1 0.00233
23500 1 0.00233
24000 1 0.00233
24600 1 0.00233
25100 1 0.00233
25300 1 0.00233
26500 1 0.00233
29300 1 0.00233
30900 1 0.00233
32700 1 0.00233
33200 1 0.00233
33300 1 0.00233
33700 1 0.00233
35200 1 0.00233
35300 1 0.00233
35900 1 0.00233
35900 1 0.00233
36000 1 0.00233
36400 1 0.00233
38400 1 0.00233
38800 1 0.00233
40800 1 0.00233
44200 1 0.00233
44300 1 0.00233
46400 1 0.00233
48600 1 0.00233

CL73 ----> CL53

image

No. of shared pairs: :147

CL73 ----> CL145

image

No. of shared pairs: :23

CL73 ----> CL86

image

No. of shared pairs: :12