Cluster no. 94

Cluster no. 94

Go back to cluster table

Cluster is part of supercluster: 39

Cluster characteristics:

size	3581
size_real	3581
ecount	27012
supercluster	39
annotations_summary	14.13% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-GAG 8.04% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-PROT 0.28% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Athila:Ty3-GAG 0.08% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatIV_Ogre:Ty3-GAG
pair_completeness	0.682010333489901
pbs_score	None
TR_score	None
TR_monomer_length	None
loop_index	0.000279251605696733
satellite_probability	2.29499556110385e-22
consensus	None
TAREAN_annotation	Other
orientation_score	1

comparative analysis:

Comparative analysis - species read counts:

Species	Read count
S8	1
S5	1240
S4	1200
S7	1
S9	1
S6	1130
S2	2
S1	6
S3	4

comparative analysis - number of edges between species:

	S8	S5	S4	S7	S9	S6	S2	S1	S3
S8	0.0	3.5	0.5	0.0	0.0	3.0	0	0.0	0.0
S5	3.5	3480.0	3160.0	3.5	0.0	2840.0	6	34.0	3.0
S4	0.5	3160.0	3050.0	4.5	0.0	2830.0	2	28.5	5.0
S7	0.0	3.5	4.5	0.0	0.0	4.0	0	0.0	0.0
S9	0.0	0.0	0.0	0.0	0.0	0.5	0	0.0	0.0
S6	3.0	2840.0	2830.0	4.0	0.5	2590.0	2	26.0	8.5
S2	0.0	6.0	2.0	0.0	0.0	2.0	0	0.0	0.0
S1	0.0	34.0	28.5	0.0	0.0	26.0	0	1.0	0.0
S3	0.0	3.0	5.0	0.0	0.0	8.5	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	1.420	0.213	0.000	0.00	1.400	0.000	0.000	0.000
S5	1.420	1.040	0.988	0.828	0.00	0.971	1.700	1.080	0.516
S4	0.213	0.988	1.000	1.120	0.00	1.010	0.596	0.948	0.903
S7	0.000	0.828	1.120	0.000	0.00	1.090	0.000	0.000	0.000
S9	0.000	0.000	0.000	0.000	0.00	3.260	0.000	0.000	0.000
S6	1.400	0.971	1.010	1.090	3.26	1.020	0.652	0.946	1.680
S2	0.000	1.700	0.596	0.000	0.00	0.652	0.000	0.000	0.000
S1	0.000	1.080	0.948	0.000	0.00	0.946	0.000	3.370	0.000
S3	0.000	0.516	0.903	0.000	0.00	1.680	0.000	0.000	0.000

protein domains:

protein domains:

Reads annotation summary

cl_string domain Freq proportion

Athila Ty3-GAG Athila Ty3-GAG 10 0.00279

TatIV_Ogre Ty3-GAG TatIV_Ogre Ty3-GAG 3 0.00084

TatV Ty3-GAG TatV Ty3-GAG 506 0.14130

TatV Ty3-PROT TatV Ty3-PROT 288 0.08042

clusters with similarity:

Cluster	Number of similarity hits

97	84
16	16
61	5
120	1

clusters connected through mates:

Cluster	Number of shared read pairs	k

61	71	0.0604
16	34	0.0399
120	29	0.0392
3	6	0.0019
1030	5	0.0144
6	3	0.00101
14	3	0.00154
28	3	0.00218
39	3	0.00231
128	3	0.00313
1600	3	0.00868
14700	3	0.00882
16400	3	0.00882
17400	3	0.00882
84	2	0.00185
1270	2	0.00581
1800	2	0.0058
3540	2	0.00584
4440	2	0.00586
5050	2	0.00587
7170	2	0.00588
12400	2	0.00588
13600	2	0.00588
14900	2	0.00588
19800	2	0.00588
35200	2	0.00589
49800	2	0.00589
59200	2	0.00589
61300	2	0.00589
64700	2	0.00589
2	1	0.000531
29	1	0.000726
34	1	0.00066
35	1	0.00076
43	1	0.000627
47	1	0.000776
63	1	0.00138
67	1	0.000838
90	1	0.000991
117	1	0.00141
201	1	0.00276
784	1	0.00288
3720	1	0.00294
4870	1	0.00293
5860	1	0.00293
8960	1	0.00295
9470	1	0.00295
10800	1	0.00295
11600	1	0.00295
12000	1	0.00294
12700	1	0.00294
12800	1	0.00294
15600	1	0.00294
15800	1	0.00294
17400	1	0.00294
18700	1	0.00295
21100	1	0.00295
23000	1	0.00295
33900	1	0.00295
37700	1	0.00295
41300	1	0.00295
43100	1	0.00295
43500	1	0.00295
43800	1	0.00295
49300	1	0.00295
56100	1	0.00295
59600	1	0.00295
61600	1	0.00295
70000	1	0.00295

CL94 ----> CL61

No. of shared pairs: :71

CL94 ----> CL16

No. of shared pairs: :34

CL94 ----> CL120

No. of shared pairs: :29