Cluster no. 159

Cluster no. 159

Go back to cluster table

Cluster is part of supercluster: 72

Cluster characteristics:

size	1734
size_real	1734
ecount	5268
supercluster	72
annotations_summary	46.19% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-INT 17.01% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RH 9.52% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RT 0.92% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-PROT 0.81% Class_I/LTR/Ty3_gypsy/chromovirus/Chlamyvir:Ty3-RT 0.46% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RH 0.23% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RH 0.06% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RT 0.06% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-INT
pair_completeness	0.488412017167382
pbs_score	None
TR_score	None
TR_monomer_length	None
loop_index	0.000576701268742791
satellite_probability	2.89707838193454e-21
consensus	None
TAREAN_annotation	Other
orientation_score	1

comparative analysis:

Comparative analysis - species read counts:

Species	Read count
S8	2
S5	580
S4	583
S7	2
S9	0
S6	567
S2	0
S1	0
S3	0

comparative analysis - number of edges between species:

	S8	S5	S4	S7	S9	S6	S2	S1	S3
S8	1.0	1.0	0.5	0.0	0	1.0	0	0	0
S5	1.0	588.0	594.0	5.5	0	562.0	0	0	0
S4	0.5	594.0	628.0	6.0	0	587.0	0	0	0
S7	0.0	5.5	6.0	0.0	0	2.5	0	0	0
S9	0.0	0.0	0.0	0.0	0	0.0	0	0	0
S6	1.0	562.0	587.0	2.5	0	532.0	0	0	0
S2	0.0	0.0	0.0	0.0	0	0.0	0	0	0
S1	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

comparative analysis - observed/expected number of edges between species

	S8	S5	S4	S7	S9	S6	S2	S1	S3
S8	430.000	0.860	0.415	0.000	NA	0.894	NA	NA	NA
S5	0.860	1.010	0.985	1.180	NA	1.000	NA	NA	NA
S4	0.415	0.985	1.000	1.240	NA	1.010	NA	NA	NA
S7	0.000	1.180	1.240	0.000	NA	0.558	NA	NA	NA
S9	NA	NA	NA	NA	NA	NA	NA	NA	NA
S6	0.894	1.000	1.010	0.558	NA	0.988	NA	NA	NA
S2	NA	NA	NA	NA	NA	NA	NA	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

Reina Ty3-INT Reina Ty3-INT 1 0.00058

Tekay Ty3-INT Tekay Ty3-INT 801 0.46194

Tekay Ty3-PROT Tekay Ty3-PROT 16 0.00923

Reina Ty3-RH Reina Ty3-RH 8 0.00461

TatV Ty3-RH TatV Ty3-RH 4 0.00231

Tekay Ty3-RH Tekay Ty3-RH 295 0.17013

Chlamyvir Ty3-RT Chlamyvir Ty3-RT 14 0.00807

Reina Ty3-RT Reina Ty3-RT 1 0.00058

Tekay Ty3-RT Tekay Ty3-RT 165 0.09516

clusters with similarity:

Cluster	Number of similarity hits

43	6
62	4

clusters connected through mates:

Cluster	Number of shared read pairs	k

43	54	0.0347
62	5	0.00698
579	5	0.0161
1560	5	0.0164
3	4	0.00128
892	4	0.0129
14	3	0.00158
84	3	0.00287
745	3	0.00963
1580	3	0.00984
3050	3	0.00997
3290	3	0.00997
4680	3	0.01
6	2	0.00068
71	2	0.00163
117	2	0.003
9580	2	0.00667
12900	2	0.00668
13000	2	0.00668
52800	2	0.00669
55900	2	0.00669
26	1	0.000817
48	1	0.000786
61	1	0.000881
67	1	0.000867
80	1	0.000963
86	1	0.00125
88	1	0.00105
89	1	0.0013
90	1	0.00103
236	1	0.0026
417	1	0.00318
1150	1	0.00326
1820	1	0.00332
2800	1	0.00332
3170	1	0.00332
5950	1	0.00333
7560	1	0.00333
8130	1	0.00333
8500	1	0.00333
10400	1	0.00333
11300	1	0.00335
11800	1	0.00335
12500	1	0.00335
13200	1	0.00334
13400	1	0.00334
14100	1	0.00335
14100	1	0.00334
14400	1	0.00335
15400	1	0.00334
16700	1	0.00334
18100	1	0.00335
19000	1	0.00334
20000	1	0.00334
23500	1	0.00334
27000	1	0.00334
31200	1	0.00334
36400	1	0.00334
39700	1	0.00334
41200	1	0.00334
41400	1	0.00334
46400	1	0.00334
47000	1	0.00334
50400	1	0.00334
51600	1	0.00334
52500	1	0.00334
55000	1	0.00334
60200	1	0.00334
61100	1	0.00334
67900	1	0.00334

CL159 ----> CL43

No. of shared pairs: :54