Cluster no. 123

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Cluster is part of supercluster: 39

Cluster characteristics:

size	1937
size_real	1937
ecount	9893
supercluster	39
annotations_summary	13.63% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RT 11.05% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RH 6.35% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-aRH 4.18% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-PROT 3.25% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-GAG 2.68% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatIV_Ogre:Ty3-aRH 0.15% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatIV_Ogre:Ty3-GAG 0.10% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatIII:Ty3-RH 0.10% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Athila:Ty3-GAG 0.05% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatIV_Ogre:Ty3-RH 0.05% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatII:Ty3-aRH 0.05% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-PROT
pair_completeness	0.770566727605119
pbs_score	None
TR_score	None
TR_monomer_length	None
loop_index	0.000516262261228704
satellite_probability	4.71413703996316e-23
consensus	None
TAREAN_annotation	Other
orientation_score	1

comparative analysis:

Comparative analysis - species read counts:

Species	Read count
S5	631
S4	660
S6	646

comparative analysis - number of edges between species:

	S5	S4	S6
S5	977	1110	998
S4	1110	1340	1160
S6	998	1160	1030

comparative analysis - observed/expected number of edges between species

	S5	S4	S6
S5	1.010	0.986	1.000
S4	0.986	1.020	0.996
S6	1.000	0.996	1.000

protein domains:

Reads annotation summary

cl_string domain Freq proportion

Athila Ty3-GAG Athila Ty3-GAG 2 0.00103

TatIV_Ogre Ty3-GAG TatIV_Ogre Ty3-GAG 3 0.00155

TatV Ty3-GAG TatV Ty3-GAG 63 0.03252

CRM Ty3-PROT CRM Ty3-PROT 1 0.00052

TatV Ty3-PROT TatV Ty3-PROT 81 0.04182

TatIII Ty3-RH TatIII Ty3-RH 2 0.00103

TatIV_Ogre Ty3-RH TatIV_Ogre Ty3-RH 1 0.00052

TatV Ty3-RH TatV Ty3-RH 214 0.11048

TatV Ty3-RT TatV Ty3-RT 264 0.13629

TatII Ty3-aRH TatII Ty3-aRH 1 0.00052

TatIV_Ogre Ty3-aRH TatIV_Ogre Ty3-aRH 52 0.02685

TatV Ty3-aRH TatV Ty3-aRH 123 0.06350

clusters with similarity:

Cluster	Number of similarity hits

136	2
126	1

clusters connected through mates:

Cluster	Number of shared read pairs	k

136	23	0.0858
126	21	0.0776
1520	10	0.0763
2310	7	0.0543
1250	6	0.046
6270	4	0.0314
1	3	0.00087
5890	3	0.0235
7950	3	0.0236
8600	3	0.0236
8950	3	0.0236
13300	3	0.0236
56	2	0.00157
58	2	0.00152
2190	2	0.0157
4000	2	0.0156
8280	2	0.0157
11100	2	0.0157
18600	2	0.0158
25800	2	0.0158
32300	2	0.0158
35000	2	0.0158
46400	2	0.0158
47100	2	0.0158
18	1	0.000743
27	1	0.000977
38	1	0.00154
59	1	0.00096
63	1	0.000791
80	1	0.00323
83	1	0.000821
103	1	0.00118
132	1	0.00359
143	1	0.00319
314	1	0.00712
690	1	0.00746
1240	1	0.00791
1360	1	0.00769
2940	1	0.00778
2950	1	0.00778
3470	1	0.00778
4200	1	0.00787
7370	1	0.00784
9160	1	0.00794
9250	1	0.00787
11100	1	0.00787
23100	1	0.00791
29000	1	0.00791
30700	1	0.00791
32200	1	0.00791
37900	1	0.00791
42300	1	0.00791
43500	1	0.00791
45600	1	0.00791

CL123 ----> CL136

No. of shared pairs: :23

CL123 ----> CL126

No. of shared pairs: :21

CL123 ----> CL1515

No. of shared pairs: :10