Cluster no. 23
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Cluster is part of supercluster: 1
Cluster characteristics:
| size |
8753 |
| size_real |
8753 |
| ecount |
1138679 |
| supercluster |
1 |
| annotations_summary |
0.05% organelle/plastid
0.03% Class_I/LTR/Ty1_copia/Ale:Ty1-PROT
0.02% Class_I/LTR/Ty1_copia/SIRE:Ty1-INT
0.01% Class_I/LINE:LINE-RT
0.01% Class_I/LTR/Ty1_copia/Bianca:Ty1-RH
0.01% Class_I/LTR/Ty1_copia/Ivana:Ty1-GAG
0.01% Class_I/LTR/Ty1_copia/Tork:Ty1-PROT
0.01% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RT
0.01% Class_I/LTR/Ty1_copia/Tork:Ty1-RT
|
| pair_completeness |
0.303111508113741 |
| pbs_score |
None |
| TR_score |
None |
| TR_monomer_length |
None |
| loop_index |
0.0386153318862104 |
| satellite_probability |
1.25207938339344e-18 |
| consensus |
None |
| TAREAN_annotation |
Other |
| orientation_score |
1 |
comparative analysis:
Comparative analysis - species read counts:
| Species |
Read count |
| S5 |
2930 |
| S4 |
2930 |
| S6 |
2900 |
comparative analysis - number of edges between species:
|
S5 |
S4 |
S6 |
| S5 |
131000 |
125000 |
131000 |
| S4 |
125000 |
118000 |
124000 |
| S6 |
131000 |
124000 |
130000 |
comparative analysis - observed/expected number of edges between species
|
S5 |
S4 |
S6 |
| S5 |
0.997 |
1.000 |
1.000 |
| S4 |
1.000 |
0.998 |
0.999 |
| S6 |
1.000 |
0.999 |
1.000 |
protein domains:
protein domains:
Reads annotation summary
| |
cl_string |
domain |
Freq |
proportion |
| plastid
|
plastid
|
|
4
|
0.00046
|
| LINE LINE-RT
|
LINE
|
LINE-RT
|
1
|
0.00011
|
| Ivana Ty1-GAG
|
Ivana
|
Ty1-GAG
|
1
|
0.00011
|
| SIRE Ty1-INT
|
SIRE
|
Ty1-INT
|
2
|
0.00023
|
| Ale Ty1-PROT
|
Ale
|
Ty1-PROT
|
3
|
0.00034
|
| Tork Ty1-PROT
|
Tork
|
Ty1-PROT
|
1
|
0.00011
|
| Bianca Ty1-RH
|
Bianca
|
Ty1-RH
|
1
|
0.00011
|
| Tork Ty1-RT
|
Tork
|
Ty1-RT
|
1
|
0.00011
|
| Tekay Ty3-RT
|
Tekay
|
Ty3-RT
|
1
|
0.00011
|
|
clusters with similarity:
| Cluster |
Number of similarity hits |
|
| 64 |
16100 |
| 55 |
10300 |
| 46 |
5140 |
| 29 |
4820 |
| 109 |
3450 |
| 71 |
1340 |
| 173 |
807 |
| 129 |
548 |
| 140 |
457 |
| 32 |
1 |
|
clusters connected through mates:
| Cluster |
Number of shared
read pairs |
k |
|
| 29 |
1120 |
0.246 |
| 46 |
892 |
0.251 |
| 64 |
771 |
0.227 |
| 55 |
678 |
0.202 |
| 109 |
487 |
0.165 |
| 173 |
144 |
0.058 |
| 21 |
133 |
0.029 |
| 71 |
101 |
0.0329 |
| 31 |
60 |
0.0172 |
| 129 |
10 |
0.00382 |
| 140 |
10 |
0.00393 |
| 99 |
9 |
0.00299 |
| 32 |
7 |
0.00191 |
| 1 |
6 |
0.00106 |
| 7 |
5 |
0.00111 |
| 13 |
5 |
0.00132 |
| 35 |
4 |
0.00118 |
| 103 |
4 |
0.0013 |
| 2 |
3 |
0.000552 |
| 10 |
3 |
0.000657 |
| 49 |
3 |
0.000864 |
| 54 |
3 |
0.000897 |
| 56 |
3 |
0.000861 |
| 4 |
2 |
0.000364 |
| 6 |
2 |
0.00034 |
| 16 |
2 |
0.000588 |
| 59 |
2 |
0.000614 |
| 61 |
2 |
0.000566 |
| 63 |
2 |
0.000575 |
| 70 |
2 |
0.000709 |
| 81 |
2 |
0.000608 |
| 7440 |
2 |
0.000854 |
| 9370 |
2 |
0.000854 |
| 34200 |
2 |
0.000854 |
| 3 |
1 |
0.000221 |
| 14 |
1 |
0.000286 |
| 17 |
1 |
0.000261 |
| 19 |
1 |
0.00026 |
| 25 |
1 |
0.000338 |
| 28 |
1 |
0.000251 |
| 30 |
1 |
0.000253 |
| 37 |
1 |
0.000302 |
| 39 |
1 |
0.000324 |
| 40 |
1 |
0.000313 |
| 41 |
1 |
0.000292 |
| 43 |
1 |
0.000314 |
| 58 |
1 |
0.000283 |
| 62 |
1 |
0.000352 |
| 73 |
1 |
0.00031 |
| 75 |
1 |
0.000351 |
| 82 |
1 |
0.00033 |
| 83 |
1 |
0.000291 |
| 84 |
1 |
0.000329 |
| 94 |
1 |
0.000318 |
| 97 |
1 |
0.000359 |
| 98 |
1 |
0.000323 |
| 106 |
1 |
0.000391 |
| 108 |
1 |
0.000324 |
| 118 |
1 |
0.000421 |
| 124 |
1 |
0.000422 |
| 142 |
1 |
0.000369 |
| 218 |
1 |
0.000416 |
| 312 |
1 |
0.000423 |
| 615 |
1 |
0.000426 |
| 992 |
1 |
0.000426 |
| 1170 |
1 |
0.000427 |
| 1460 |
1 |
0.000427 |
| 1640 |
1 |
0.000426 |
| 3140 |
1 |
0.000427 |
| 4450 |
1 |
0.000427 |
| 9000 |
1 |
0.000427 |
| 21700 |
1 |
0.000427 |
| 23500 |
1 |
0.000427 |
| 23700 |
1 |
0.000427 |
| 25300 |
1 |
0.000427 |
| 30300 |
1 |
0.000427 |
| 38200 |
1 |
0.000427 |
| 39400 |
1 |
0.000427 |
| 41700 |
1 |
0.000427 |
| 47500 |
1 |
0.000427 |
|
CL23 ----> CL29
No. of shared pairs: :1115
CL23 ----> CL46
No. of shared pairs: :892
CL23 ----> CL64
No. of shared pairs: :771
CL23 ----> CL55
No. of shared pairs: :678
CL23 ----> CL109
No. of shared pairs: :487
CL23 ----> CL173
No. of shared pairs: :144
CL23 ----> CL21
No. of shared pairs: :133
CL23 ----> CL71
No. of shared pairs: :101
CL23 ----> CL31
No. of shared pairs: :60
CL23 ----> CL129
No. of shared pairs: :10
CL23 ----> CL140
No. of shared pairs: :10