Cluster no. 1

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Cluster is part of supercluster: 1

Cluster characteristics:

size 17350
size_real 17350
ecount 1508345
supercluster 1
annotations_summary 0.02% Class_I/LTR/Ty1_copia/Ale:Ty1-INT
0.02% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RT
0.02% Class_I/LTR/Ty1_copia/Ivana:Ty1-RT
0.01% organelle/plastid
0.01% Class_I/LINE:LINE-RT
0.01% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-INT
0.01% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-INT
0.01% Class_I/LTR/Ty1_copia/SIRE:Ty1-GAG
0.01% Class_I/LTR/Ty3_gypsy/chromovirus/Galadriel:Ty3-RT
0.01% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatIV_Ogre:Ty3-RH
0.01% Class_I/LINE:LINE-ENDO
0.01% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-PROT
0.01% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RT
0.01% Class_I/LTR/Ty1_copia/SIRE:Ty1-RT
0.01% 45S_rDNA/25S_rDNA
0.01% Class_I/pararetrovirus:PARA-RT
0.01% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-INT
0.01% Class_I/LTR/Ty1_copia/Angela:Ty1-INT
0.01% Class_I/LTR/Ty1_copia/Gymco-II:Ty1-RH
0.01% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RH
0.01% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatIV_Ogre:Ty3-RT
0.01% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-INT
0.01% Class_I/LTR/Ty1_copia/Ivana:Ty1-RH
pair_completeness 0.446315438479493
pbs_score None
TR_score None
TR_monomer_length None
loop_index 0.0024207492795389
satellite_probability 4.28848727092841e-21
consensus None
TAREAN_annotation Other
orientation_score 1

comparative analysis:


Comparative analysis - species read counts:
Species Read count
S5 5870
S4 5860
S6 5620
comparative analysis - number of edges between species:
S5 S4 S6
S5 184000 175000 168000
S4 175000 166000 160000
S6 168000 160000 154000
comparative analysis - observed/expected number of edges between species
S5 S4 S6
S5 1.000 1.000 0.997
S4 1.000 0.999 1.000
S6 0.997 1.000 1.000

protein domains:

protein domains:


Reads annotation summary

  cl_string domain Freq proportion
25S_rDNA 25S_rDNA 1 5.8e-05
plastid plastid 2 1.2e-04
LINE LINE-ENDO LINE LINE-ENDO 1 5.8e-05
LINE LINE-RT LINE LINE-RT 2 1.2e-04
pararetrovirus PARA-RT pararetrovirus PARA-RT 1 5.8e-05
SIRE Ty1-GAG SIRE Ty1-GAG 1 5.8e-05
Ale Ty1-INT Ale Ty1-INT 4 2.3e-04
Angela Ty1-INT Angela Ty1-INT 1 5.8e-05
Gymco-II Ty1-RH Gymco-II Ty1-RH 1 5.8e-05
Ivana Ty1-RH Ivana Ty1-RH 1 5.8e-05
Ivana Ty1-RT Ivana Ty1-RT 3 1.7e-04
SIRE Ty1-RT SIRE Ty1-RT 1 5.8e-05
CRM Ty3-INT CRM Ty3-INT 1 5.8e-05
Reina Ty3-INT Reina Ty3-INT 2 1.2e-04
TatV Ty3-INT TatV Ty3-INT 1 5.8e-05
Tekay Ty3-INT Tekay Ty3-INT 2 1.2e-04
CRM Ty3-PROT CRM Ty3-PROT 1 5.8e-05
TatIV_Ogre Ty3-RH TatIV_Ogre Ty3-RH 1 5.8e-05
TatV Ty3-RH TatV Ty3-RH 1 5.8e-05
Galadriel Ty3-RT Galadriel Ty3-RT 1 5.8e-05
TatIV_Ogre Ty3-RT TatIV_Ogre Ty3-RT 1 5.8e-05
TatV Ty3-RT TatV Ty3-RT 4 2.3e-04
Tekay Ty3-RT Tekay Ty3-RT 1 5.8e-05

clusters with similarity:

Cluster Number of similarity hits
61 30700
6 16400
2 10900
19 4560
7 3120
63 3010
142 1380
12 682
11 49
77 45
153 23
79 18
224 10
64 6
29 4
22 1
33 1
59 1
134 1
144 1
212 1
729 1

clusters connected through mates:

Cluster Number of shared
read pairs		 k
6 2280 0.333
2 1140 0.178
61 251 0.0556
12 177 0.0292
19 171 0.0354
79 109 0.0294
142 92 0.0249
4 82 0.0127
63 54 0.0121
29 42 0.00761
77 35 0.00848
7 33 0.00604
10 23 0.00414
212 22 0.00655
13 20 0.0042
108 19 0.00468
11 16 0.00294
5 15 0.00271
8 15 0.00281
31 14 0.00313
48 14 0.00343
15 13 0.00303
20 13 0.00262
22 13 0.00315
30 13 0.00263
153 12 0.00346
9 11 0.00247
32 11 0.00237
39 11 0.00271
40 11 0.00264
44 11 0.00286
49 11 0.00247
25 10 0.00254
28 10 0.00201
34 10 0.00265
51 10 0.0023
57 10 0.00225
84 10 0.00249
87 10 0.00256
21 9 0.00162
27 9 0.00213
33 9 0.00217
58 9 0.002
81 9 0.00211
90 9 0.00236
42 8 0.00189
46 8 0.00176
62 8 0.00209
69 8 0.00201
94 8 0.00194
14 7 0.00156
26 7 0.00131
45 7 0.00162
55 7 0.00161
56 7 0.00157
85 7 0.00194
86 7 0.00178
96 7 0.0018
135 7 0.00201
16 6 0.00137
23 6 0.00106
35 6 0.00138
50 6 0.00142
53 6 0.00155
54 6 0.00139
67 6 0.0016
72 6 0.00139
83 6 0.00136
41 5 0.00113
59 5 0.00118
71 5 0.00123
73 5 0.00119
95 5 0.00143
107 5 0.00142
110 5 0.00125
38 4 0.00104
75 4 0.00104
78 4 0.00103
98 4 0.000982
103 4 0.000989
115 4 0.00104
150 4 0.00112
184 4 0.00118
3 3 0.000544
18 3 0.000661
36 3 0.000685
37 3 0.000699
43 3 0.00072
52 3 0.000724
65 3 0.000766
66 3 0.000766
80 3 0.000856
91 3 0.000892
102 3 0.000775
113 3 0.000799
117 3 0.000787
120 3 0.000814
123 3 0.00087
126 3 0.000866
127 3 0.00086
128 3 0.000863
130 3 0.000824
168 3 0.000868
1410 3 0.000902
9250 3 0.000903
24 2 0.000451
47 2 0.000486
60 2 0.000557
88 2 0.000553
89 2 0.000553
99 2 0.000502
101 2 0.000533
104 2 0.000502
112 2 0.000508
125 2 0.000551
132 2 0.000576
140 2 0.000567
141 2 0.000588
144 2 0.000589
147 2 0.00056
181 2 0.000588
5010 2 0.000602
12700 2 0.000602
19600 2 0.000602
25600 2 0.000602
33000 2 0.000602
34900 2 0.000602
36400 2 0.000602
38500 2 0.000602
42800 2 0.000602
17 1 0.000208
64 1 0.000229
74 1 0.000278
76 1 0.000262
92 1 0.000284
97 1 0.000265
106 1 0.000283
109 1 0.000255
111 1 0.00028
119 1 0.000265
121 1 0.000269
122 1 0.000269
129 1 0.000278
133 1 0.000288
136 1 0.000289
137 1 0.000271
149 1 0.000288
155 1 0.000297
173 1 0.000289
175 1 0.000295
194 1 0.000298
198 1 0.000298
200 1 0.000299
213 1 0.000298
222 1 0.000298
224 1 0.000297
234 1 0.000298
244 1 0.000299
245 1 3e-04
247 1 0.000299
260 1 0.000298
312 1 0.000299
339 1 0.000299
362 1 0.000299
368 1 0.000299
378 1 3e-04
416 1 3e-04
417 1 3e-04
460 1 3e-04
481 1 3e-04
503 1 0.000301
507 1 3e-04
555 1 0.000301
601 1 3e-04
637 1 3e-04
660 1 3e-04
704 1 3e-04
742 1 3e-04
776 1 3e-04
827 1 0.000301
872 1 0.000301
902 1 0.000301
970 1 0.000301
1050 1 0.000301
1070 1 3e-04
1190 1 0.000301
1450 1 0.000301
1470 1 0.000301
1490 1 0.000301
1500 1 0.000301
1560 1 0.000301
1700 1 0.000301
1940 1 0.000301
2060 1 0.000301
2090 1 0.000301
2220 1 0.000301
2300 1 0.000301
2420 1 0.000301
2490 1 0.000301
2760 1 0.000301
2930 1 0.000301
2990 1 0.000301
3320 1 0.000301
3340 1 0.000301
3400 1 0.000301
3820 1 0.000301
3930 1 0.000301
4010 1 0.000301
4070 1 0.000301
4510 1 0.000301
4660 1 0.000301
4880 1 0.000301
5130 1 0.000301
5320 1 0.000301
5580 1 0.000301
6640 1 0.000301
8480 1 0.000301
8880 1 0.000301
9220 1 0.000301
9220 1 0.000301
9440 1 0.000301
9440 1 0.000301
9760 1 0.000301
10000 1 0.000301
10100 1 0.000301
10800 1 0.000301
10800 1 0.000301
10900 1 0.000301
11000 1 0.000301
11300 1 0.000301
11400 1 0.000301
11600 1 0.000301
12100 1 0.000301
12100 1 0.000301
12800 1 0.000301
13400 1 0.000301
14200 1 0.000301
15000 1 0.000301
15800 1 0.000301
17200 1 0.000301
17500 1 0.000301
17500 1 0.000301
17800 1 0.000301
19200 1 0.000301
19800 1 0.000301
20200 1 0.000301
20500 1 0.000301
20900 1 0.000301
21300 1 0.000301
21400 1 0.000301
22000 1 0.000301
22400 1 0.000301
23000 1 0.000301
23100 1 0.000301
23200 1 0.000301
24000 1 0.000301
24100 1 0.000301
24400 1 0.000301
26300 1 0.000301
26600 1 0.000301
26600 1 0.000301
26700 1 0.000301
26800 1 0.000301
27600 1 0.000301
27600 1 0.000301
28600 1 0.000301
29100 1 0.000301
30000 1 0.000301
31000 1 0.000301
31800 1 0.000301
32200 1 0.000301
32600 1 0.000301
33000 1 0.000301
33200 1 0.000301
33200 1 0.000301
33400 1 0.000301
33500 1 0.000301
34200 1 0.000301
34500 1 0.000301
37100 1 0.000301
37300 1 0.000301
38300 1 0.000301
38400 1 0.000301
40100 1 0.000301
40500 1 0.000301
40900 1 0.000301
41100 1 0.000301
41400 1 0.000301
42000 1 0.000301
42100 1 0.000301
43100 1 0.000301
44500 1 0.000301
47100 1 0.000301
47900 1 0.000301
47900 1 0.000301
48100 1 0.000301

CL1 ----> CL6

image

No. of shared pairs: :2282

CL1 ----> CL2

image

No. of shared pairs: :1141

CL1 ----> CL61

image

No. of shared pairs: :251

CL1 ----> CL12

image

No. of shared pairs: :177

CL1 ----> CL19

image

No. of shared pairs: :171

CL1 ----> CL79

image

No. of shared pairs: :109

CL1 ----> CL142

image

No. of shared pairs: :92

CL1 ----> CL4

image

No. of shared pairs: :82

CL1 ----> CL63

image

No. of shared pairs: :54

CL1 ----> CL29

image

No. of shared pairs: :42

CL1 ----> CL77

image

No. of shared pairs: :35

CL1 ----> CL7

image

No. of shared pairs: :33

CL1 ----> CL10

image

No. of shared pairs: :23

CL1 ----> CL212

image

No. of shared pairs: :22

CL1 ----> CL13

image

No. of shared pairs: :20

CL1 ----> CL108

image

No. of shared pairs: :19

CL1 ----> CL11

image

No. of shared pairs: :16

CL1 ----> CL5

image

No. of shared pairs: :15

CL1 ----> CL8

image

No. of shared pairs: :15

CL1 ----> CL31

image

No. of shared pairs: :14

CL1 ----> CL48

image

No. of shared pairs: :14

CL1 ----> CL15

image

No. of shared pairs: :13

CL1 ----> CL20

image

No. of shared pairs: :13

CL1 ----> CL22

image

No. of shared pairs: :13

CL1 ----> CL30

image

No. of shared pairs: :13

CL1 ----> CL153

image

No. of shared pairs: :12

CL1 ----> CL9

image

No. of shared pairs: :11

CL1 ----> CL32

image

No. of shared pairs: :11

CL1 ----> CL39

image

No. of shared pairs: :11

CL1 ----> CL40

image

No. of shared pairs: :11

CL1 ----> CL44

image

No. of shared pairs: :11

CL1 ----> CL49

image

No. of shared pairs: :11

CL1 ----> CL25

image

No. of shared pairs: :10

CL1 ----> CL28

image

No. of shared pairs: :10

CL1 ----> CL34

image

No. of shared pairs: :10

CL1 ----> CL51

image

No. of shared pairs: :10

CL1 ----> CL57

image

No. of shared pairs: :10

CL1 ----> CL84

image

No. of shared pairs: :10

CL1 ----> CL87

image

No. of shared pairs: :10