Cluster no. 1

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Cluster is part of supercluster: 4

Cluster characteristics:

size 17243
size_real 17243
ecount 654511
supercluster 4
annotations_summary 0.01% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RH
0.01% Class_I/LTR/Ty1_copia/Ale:Ty1-INT
0.01% Class_I/LTR/Ty1_copia/Ivana:Ty1-INT
0.01% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-INT
0.01% organelle/plastid
0.01% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RH
pair_completeness 0.667601547388781
pbs_score None
TR_score None
TR_monomer_length None
loop_index 0.0121208606390999
satellite_probability 1.9456658316349e-21
consensus None
TAREAN_annotation Other
orientation_score 1

comparative analysis:


Comparative analysis - species read counts:
Species Read count
S8 7
S5 5780
S4 5520
S7 7
S9 9
S6 5880
S2 24
S1 5
S3 4
comparative analysis - number of edges between species:
S8 S5 S4 S7 S9 S6 S2 S1 S3
S8 1.0 15.5 14.0 0.0 0.0 20.5 0.5 0.5 0.5
S5 15.5 73600.0 68900.0 46.5 59.5 76100.0 306.0 43.0 47.0
S4 14.0 68900.0 65000.0 48.5 62.5 71800.0 272.0 45.5 49.5
S7 0.0 46.5 48.5 0.0 0.0 52.0 0.5 0.0 0.0
S9 0.0 59.5 62.5 0.0 0.0 59.5 0.0 0.0 0.0
S6 20.5 76100.0 71800.0 52.0 59.5 79300.0 344.0 54.0 53.5
S2 0.5 306.0 272.0 0.5 0.0 344.0 2.0 0.0 0.5
S1 0.5 43.0 45.5 0.0 0.0 54.0 0.0 0.0 0.0
S3 0.5 47.0 49.5 0.0 0.0 53.5 0.5 0.0 0.0
comparative analysis - observed/expected number of edges between species
S8 S5 S4 S7 S9 S6 S2 S1 S3
S8 237.000 0.882 0.847 0.000 0.000 1.120 6.740 43.600 41.30
S5 0.882 1.000 0.998 0.942 0.980 0.998 0.986 0.898 0.93
S4 0.847 0.998 1.000 1.040 1.090 1.000 0.933 1.010 1.04
S7 0.000 0.942 1.040 0.000 0.000 1.010 2.400 0.000 0.00
S9 0.000 0.980 1.090 0.000 0.000 0.942 0.000 0.000 0.00
S6 1.120 0.998 1.000 1.010 0.942 1.000 1.070 1.090 1.02
S2 6.740 0.986 0.933 2.400 0.000 1.070 1.530 0.000 2.34
S1 43.600 0.898 1.010 0.000 0.000 1.090 0.000 0.000 0.00
S3 41.300 0.930 1.040 0.000 0.000 1.020 2.340 0.000 0.00

protein domains:

protein domains:


Reads annotation summary

  cl_string domain Freq proportion
plastid plastid 1 5.8e-05
Ale Ty1-INT Ale Ty1-INT 2 1.2e-04
Ivana Ty1-INT Ivana Ty1-INT 1 5.8e-05
Tekay Ty3-INT Tekay Ty3-INT 1 5.8e-05
TatV Ty3-RH TatV Ty3-RH 1 5.8e-05
Tekay Ty3-RH Tekay Ty3-RH 2 1.2e-04

clusters with similarity:

Cluster Number of similarity hits
118 2250
93 1710
84 1000
240 103
87 50
35 32
179 29
296 27
272 16
19 11
67 2
2 1
14 1
15 1
37 1
56 1
90 1
100 1
151 1
220 1

clusters connected through mates:

Cluster Number of shared
read pairs		 k
84 565 0.229
93 543 0.229
118 413 0.19
87 140 0.0598
179 81 0.0408
35 72 0.0267
240 46 0.026
272 35 0.0197
3 30 0.00661
6 17 0.0039
296 15 0.00857
14 12 0.00361
19 12 0.0035
29 11 0.00399
67 11 0.00427
48 9 0.00334
90 8 0.00335
10 6 0.00182
28 6 0.00218
39 6 0.00224
60 6 0.00222
220 6 0.00329
384 6 0.00346
37 5 0.00203
123 5 0.00218
151 5 0.00233
2810 5 0.0029
117 4 0.00192
130 4 0.00188
178 4 0.0021
1310 4 0.00232
2 3 0.000919
16 3 0.00134
31 3 0.00122
80 3 0.00122
82 3 0.00128
88 3 0.00127
89 3 0.00137
92 3 0.00138
105 3 0.00134
135 3 0.00155
1520 3 0.00174
1840 3 0.00174
4380 3 0.00174
6160 3 0.00174
7260 3 0.00174
9420 3 0.00174
14900 3 0.00174
19400 3 0.00174
15 2 0.000501
20 2 0.00076
26 2 0.000756
34 2 0.000691
43 2 0.000672
47 2 0.000749
56 2 0.000855
86 2 0.000901
95 2 0.000883
97 2 0.00105
99 2 0.000893
111 2 0.00105
126 2 0.00094
132 2 0.00109
146 2 0.000893
208 2 0.00105
537 2 0.00115
1500 2 0.00116
3720 2 0.00116
3720 2 0.00116
4530 2 0.00116
5110 2 0.00116
5530 2 0.00116
6530 2 0.00116
9710 2 0.00116
9980 2 0.00116
10700 2 0.00116
11000 2 0.00116
11900 2 0.00116
13700 2 0.00116
22700 2 0.00116
29000 2 0.00116
33400 2 0.00116
42400 2 0.00116
42900 2 0.00116
43600 2 0.00116
45600 2 0.00116
48400 2 0.00116
49200 2 0.00116
53400 2 0.00116
60200 2 0.00116
62300 2 0.00116
62600 2 0.00116
65200 2 0.00116
65300 2 0.00116
13 1 0.000308
25 1 0.000404
33 1 0.000288
41 1 0.000433
44 1 0.000389
45 1 0.000317
52 1 0.000441
61 1 0.000391
66 1 0.000398
68 1 0.000399
71 1 0.000378
72 1 0.000421
74 1 0.000489
76 1 0.000442
100 1 0.000466
112 1 0.000487
119 1 0.000498
120 1 0.000472
128 1 0.000427
134 1 0.000563
144 1 0.000522
145 1 0.000541
158 1 0.000564
165 1 0.000541
186 1 0.000548
211 1 0.000527
236 1 0.000554
238 1 0.000549
242 1 0.000545
252 1 0.000556
258 1 0.000566
308 1 0.000572
350 1 0.000576
368 1 0.000568
404 1 0.000574
470 1 0.000576
482 1 0.000576
639 1 0.000579
1170 1 0.000579
1300 1 0.000581
1850 1 0.00058
1970 1 0.00058
2040 1 0.000581
2170 1 0.00058
2480 1 0.000581
2560 1 0.000581
3330 1 0.000581
3460 1 0.000581
4440 1 0.000581
4560 1 0.000581
4800 1 0.000581
4950 1 0.000582
6390 1 0.000581
6390 1 0.000581
6560 1 0.000581
7880 1 0.000582
8440 1 0.000581
8630 1 0.000581
9170 1 0.000581
9900 1 0.000581
10300 1 0.000581
10500 1 0.000581
10500 1 0.000581
10600 1 0.000582
14300 1 0.000581
14300 1 0.000581
14300 1 0.000581
14600 1 0.000582
14800 1 0.000581
15000 1 0.000582
15200 1 0.000581
15600 1 0.000582
15900 1 0.000581
16700 1 0.000582
16800 1 0.000582
17300 1 0.000582
17800 1 0.000582
19500 1 0.000582
19600 1 0.000581
22100 1 0.000582
22300 1 0.000582
23200 1 0.000582
23700 1 0.000582
27000 1 0.000582
29100 1 0.000582
29300 1 0.000582
31200 1 0.000582
31200 1 0.000582
31700 1 0.000582
35900 1 0.000582
37000 1 0.000582
39200 1 0.000582
39700 1 0.000582
41100 1 0.000582
41300 1 0.000582
45200 1 0.000582
46200 1 0.000582
47000 1 0.000582
49900 1 0.000582
50100 1 0.000582
50300 1 0.000582
50900 1 0.000582
51500 1 0.000582
51800 1 0.000582
53500 1 0.000582
54300 1 0.000582
54700 1 0.000582
55100 1 0.000582
55200 1 0.000582
58000 1 0.000582
60500 1 0.000582
61200 1 0.000582
62400 1 0.000582
64800 1 0.000582
65000 1 0.000582
65900 1 0.000582
66800 1 0.000582
67500 1 0.000582
67800 1 0.000582

CL1 ----> CL84

image

No. of shared pairs: :565

CL1 ----> CL93

image

No. of shared pairs: :543

CL1 ----> CL118

image

No. of shared pairs: :413

CL1 ----> CL87

image

No. of shared pairs: :140

CL1 ----> CL179

image

No. of shared pairs: :81

CL1 ----> CL35

image

No. of shared pairs: :72

CL1 ----> CL240

image

No. of shared pairs: :46

CL1 ----> CL272

image

No. of shared pairs: :35

CL1 ----> CL3

image

No. of shared pairs: :30

CL1 ----> CL6

image

No. of shared pairs: :17

CL1 ----> CL296

image

No. of shared pairs: :15

CL1 ----> CL14

image

No. of shared pairs: :12

CL1 ----> CL19

image

No. of shared pairs: :12

CL1 ----> CL29

image

No. of shared pairs: :11

CL1 ----> CL67

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No. of shared pairs: :11