Cluster no. 60

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Cluster is part of supercluster: 4

Cluster characteristics:

size	5422
size_real	5422
ecount	203441
supercluster	4
annotations_summary	8.91% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-GAG 7.25% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-PROT 0.89% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Athila:Ty3-GAG 0.33% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-INT 0.02% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatII:Ty3-GAG 0.02% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-INT 0.02% Class_I/LTR/Ty1_copia/Gymco-II:Ty1-RH 0.02% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatIV_Ogre:Ty3-GAG 0.02% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatIV_Ogre:Ty3-PROT
pair_completeness	0.820685023505708
pbs_score	None
TR_score	None
TR_monomer_length	None
loop_index	0.0221320545924013
satellite_probability	2.44149714965346e-21
consensus	None
TAREAN_annotation	Other
orientation_score	1

comparative analysis:

Comparative analysis - species read counts:

Species	Read count
S5	1900
S4	1800
S6	1730

comparative analysis - number of edges between species:

	S5	S4	S6
S5	24600	23400	22500
S4	23400	23300	21800
S6	22500	21800	20200

comparative analysis - observed/expected number of edges between species

	S5	S4	S6
S5	1.010	0.986	1.01
S4	0.986	1.010	1.00
S6	1.010	1.000	0.99

protein domains:

Reads annotation summary

cl_string domain Freq proportion

Gymco-II Ty1-RH Gymco-II Ty1-RH 1 0.00018

Athila Ty3-GAG Athila Ty3-GAG 48 0.00885

TatII Ty3-GAG TatII Ty3-GAG 1 0.00018

TatIV_Ogre Ty3-GAG TatIV_Ogre Ty3-GAG 1 0.00018

TatV Ty3-GAG TatV Ty3-GAG 483 0.08908

CRM Ty3-INT CRM Ty3-INT 18 0.00332

TatV Ty3-INT TatV Ty3-INT 1 0.00018

TatIV_Ogre Ty3-PROT TatIV_Ogre Ty3-PROT 1 0.00018

TatV Ty3-PROT TatV Ty3-PROT 393 0.07248

clusters with similarity:

Cluster	Number of similarity hits

58	414
44	320
25	161
84	1

clusters connected through mates:

Cluster	Number of shared read pairs	k

58	194	0.133
25	148	0.168
38	4	0.00507
44	3	0.00378
61	3	0.00206
84	3	0.00309
3400	3	0.0112
1	2	0.000557
2	2	0.000596
10	2	0.000801
13	2	0.00117
53	2	0.00243
101	2	0.00286
22500	2	0.00746
4	1	0.000292
7	1	0.000414
11	1	0.000417
12	1	0.000332
19	1	0.000563
21	1	0.000398
22	1	0.000932
26	1	0.000434
29	1	0.000405
30	1	0.000531
32	1	0.000631
49	1	0.000715
51	1	0.000773
54	1	0.000786
56	1	0.000708
74	1	0.00182
75	1	0.00129
77	1	0.000932
87	1	0.00117
91	1	0.00322
92	1	0.00214
94	1	0.000931
95	1	0.00222
96	1	0.00119
110	1	0.00104
113	1	0.00142
117	1	0.00132
122	1	0.00152
135	1	0.00233
188	1	0.00306
1150	1	0.00367
1540	1	0.0037
2870	1	0.0037
7400	1	0.00372
7700	1	0.00372
8730	1	0.00372
8850	1	0.00372
10900	1	0.00374
36500	1	0.00373
38500	1	0.00373
44500	1	0.00373

CL60 ----> CL58

No. of shared pairs: :194

CL60 ----> CL25

No. of shared pairs: :148