Cluster no. 178

Cluster no. 178

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Cluster is part of supercluster: 85

Cluster characteristics:

size	1238
size_real	1238
ecount	5196
supercluster	85
annotations_summary	31.10% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-INT 13.89% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RH 5.82% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-CHDII 1.21% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RT 0.16% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-RH 0.08% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RH 0.08% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RH 0.08% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-INT 0.08% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RT
pair_completeness	0.532178217821782
pbs_score	None
TR_score	None
TR_monomer_length	None
loop_index	0.000807754442649435
satellite_probability	1.86264069827155e-21
consensus	None
TAREAN_annotation	Other
orientation_score	1

comparative analysis:

Comparative analysis - species read counts:

Species	Read count
S8	2
S5	423
S4	386
S7	1
S9	1
S6	423
S2	2
S1	0
S3	0

comparative analysis - number of edges between species:

	S8	S5	S4	S7	S9	S6	S2	S1	S3
S8	0.0	3.5	4.0	0.0	0.0	3.0	0.0	0	0
S5	3.5	577.0	552.0	0.0	0.0	606.0	2.5	0	0
S4	4.0	552.0	540.0	0.5	1.5	560.0	2.0	0	0
S7	0.0	0.0	0.5	0.0	0.0	1.0	0.0	0	0
S9	0.0	0.0	1.5	0.0	0.0	1.5	0.0	0	0
S6	3.0	606.0	560.0	1.0	1.5	596.0	3.0	0	0
S2	0.0	2.5	2.0	0.0	0.0	3.0	0.0	0	0
S1	0.0	0.0	0.0	0.0	0.0	0.0	0.0	0	0
S3	0.0	0.0	0.0	0.0	0.0	0.0	0.0	0	0

comparative analysis - observed/expected number of edges between species

	S8	S5	S4	S7	S9	S6	S2	S1	S3
S8	0.000	0.994	1.190	0.00	0.00	0.838	0.000	NA	NA
S5	0.994	0.988	0.992	0.00	0.00	1.020	0.994	NA	NA
S4	1.190	0.992	1.020	1.04	1.56	0.989	0.834	NA	NA
S7	0.000	0.000	1.040	0.00	0.00	1.960	0.000	NA	NA
S9	0.000	0.000	1.560	0.00	0.00	1.470	0.000	NA	NA
S6	0.838	1.020	0.989	1.96	1.47	0.987	1.170	NA	NA
S2	0.000	0.994	0.834	0.00	0.00	1.170	0.000	NA	NA
S1	NA	NA	NA	NA	NA	NA	NA	NA	NA
S3	NA	NA	NA	NA	NA	NA	NA	NA	NA

protein domains:

protein domains:

Reads annotation summary

cl_string domain Freq proportion

Tekay Ty3-CHDII Tekay Ty3-CHDII 72 0.05816

Reina Ty3-INT Reina Ty3-INT 1 0.00081

Tekay Ty3-INT Tekay Ty3-INT 385 0.31099

CRM Ty3-RH CRM Ty3-RH 2 0.00162

Reina Ty3-RH Reina Ty3-RH 1 0.00081

TatV Ty3-RH TatV Ty3-RH 1 0.00081

Tekay Ty3-RH Tekay Ty3-RH 172 0.13893

Reina Ty3-RT Reina Ty3-RT 1 0.00081

Tekay Ty3-RT Tekay Ty3-RT 15 0.01212

clusters with similarity:

Cluster	Number of similarity hits

87

16

clusters connected through mates:

Cluster	Number of shared read pairs	k

87	30	0.037
258	14	0.0587
821	11	0.055
594	10	0.0512
1260	9	0.0458
1030	5	0.026
4100	5	0.026
1	4	0.0021
3240	4	0.0207
9160	4	0.0209
9480	4	0.0209
10700	4	0.0209
60	3	0.00256
7080	3	0.0157
41	2	0.00257
3740	2	0.0104
4930	2	0.0105
5640	2	0.0104
6490	2	0.0104
7400	2	0.0105
10000	2	0.0105
10400	2	0.0105
10500	2	0.0105
11000	2	0.0105
15200	2	0.0105
59200	2	0.0105
62800	2	0.0105
63800	2	0.0105
65500	2	0.0105
68700	2	0.0105
10	1	0.000565
13	1	0.000584
14	1	0.000557
15	1	0.000406
16	1	0.00142
19	1	0.000527
25	1	0.00106
26	1	0.000897
35	1	0.000858
48	1	0.00086
49	1	0.000578
52	1	0.00135
66	1	0.00102
67	1	0.000957
82	1	0.00122
88	1	0.00119
92	1	0.00156
138	1	0.00255
141	1	0.00274
146	1	0.00141
165	1	0.00313
184	1	0.00217
185	1	0.00214
777	1	0.00506
2290	1	0.00517
4100	1	0.00519
6950	1	0.00525
8770	1	0.00526
11600	1	0.00525
12200	1	0.00525
12400	1	0.00525
17800	1	0.00525
18700	1	0.00528
19600	1	0.00525
19900	1	0.00525
29200	1	0.00526
30600	1	0.00526
35700	1	0.00526
37400	1	0.00526
38300	1	0.00526
42000	1	0.00526
43100	1	0.00526
44400	1	0.00526
44600	1	0.00526
45800	1	0.00526
48500	1	0.00526
50400	1	0.00526
51400	1	0.00526
55300	1	0.00526
55300	1	0.00526
56200	1	0.00526
59000	1	0.00526
61300	1	0.00526
67300	1	0.00526

CL178 ----> CL87

No. of shared pairs: :30

CL178 ----> CL258

No. of shared pairs: :14

CL178 ----> CL821

No. of shared pairs: :11

CL178 ----> CL594

No. of shared pairs: :10