Cluster no. 177

Go back to cluster table

Cluster is part of supercluster: 84

Cluster characteristics:

size	1257
size_real	1257
ecount	8469
supercluster	84
annotations_summary	32.62% Class_I/LTR/Ty1_copia/SIRE:Ty1-RT 19.89% Class_I/LTR/Ty1_copia/SIRE:Ty1-INT 10.90% Class_I/LTR/Ty1_copia/SIRE:Ty1-RH 5.81% Class_I/LTR/Ty1_copia/SIRE:Ty1-PROT 2.47% Class_I/LTR/Ty1_copia/Ivana:Ty1-RH 0.56% Class_I/LTR/Ty1_copia/Ivana:Ty1-INT 0.32% Class_I/LTR/Ty1_copia/Ivana:Ty1-PROT 0.24% Class_I/LTR/Ty1_copia/Tork:Ty1-INT
pair_completeness	0.689516129032258
pbs_score	None
TR_score	None
TR_monomer_length	None
loop_index	0.000795544948289578
satellite_probability	1.94805139038498e-22
consensus	None
TAREAN_annotation	Other
orientation_score	1

comparative analysis:

Comparative analysis - species read counts:

Species	Read count
S8	44
S5	6
S4	5
S7	48
S9	42
S6	5
S2	346
S1	384
S3	377

comparative analysis - number of edges between species:

	S8	S5	S4	S7	S9	S6	S2	S1	S3
S8	21.0	0.0	0.0	28.0	18.0	0.0	4.5	4.0	3.0
S5	0.0	2.0	0.0	0.0	0.5	1.5	9.5	4.5	9.0
S4	0.0	0.0	1.0	0.0	0.0	1.5	1.0	1.0	1.5
S7	28.0	0.0	0.0	25.0	24.0	0.0	1.0	2.5	2.5
S9	18.0	0.5	0.0	24.0	26.0	0.0	4.0	2.5	5.0
S6	0.0	1.5	1.5	0.0	0.0	0.0	7.0	6.0	6.5
S2	4.5	9.5	1.0	1.0	4.0	7.0	871.0	875.0	836.0
S1	4.0	4.5	1.0	2.5	2.5	6.0	875.0	950.0	969.0
S3	3.0	9.0	1.5	2.5	5.0	6.5	836.0	969.0	915.0

comparative analysis - observed/expected number of edges between species

	S8	S5	S4	S7	S9	S6	S2	S1	S3
S8	28.900	0.000	0.000	36.4000	24.300	0.000	0.1860	0.1530	0.1180
S5	0.000	23.200	0.000	0.0000	1.960	20.900	1.1400	0.5020	1.0300
S4	0.000	0.000	235.000	0.0000	0.000	94.100	0.5410	0.5020	0.7700
S7	36.400	0.000	0.000	30.7000	30.600	0.000	0.0391	0.0906	0.0928
S9	24.300	1.960	0.000	30.6000	34.400	0.000	0.1620	0.0940	0.1930
S6	0.000	20.900	94.100	0.0000	0.000	0.000	1.0100	0.8020	0.8900
S2	0.186	1.140	0.541	0.0391	0.162	1.010	1.0800	1.0100	0.9880
S1	0.153	0.502	0.502	0.0906	0.094	0.802	1.0100	1.0200	1.0600
S3	0.118	1.030	0.770	0.0928	0.193	0.890	0.9880	1.0600	1.0300

protein domains:

Reads annotation summary

cl_string domain Freq proportion

Ivana Ty1-INT Ivana Ty1-INT 7 0.0056

SIRE Ty1-INT SIRE Ty1-INT 250 0.1989

Tork Ty1-INT Tork Ty1-INT 3 0.0024

Ivana Ty1-PROT Ivana Ty1-PROT 4 0.0032

SIRE Ty1-PROT SIRE Ty1-PROT 73 0.0581

Ivana Ty1-RH Ivana Ty1-RH 31 0.0247

SIRE Ty1-RH SIRE Ty1-RH 137 0.1090

SIRE Ty1-RT SIRE Ty1-RT 410 0.3262

clusters with similarity:

Cluster	Number of similarity hits

129	10
74	7
42	1

clusters connected through mates:

Cluster	Number of shared read pairs	k

129	34	0.0974
1180	8	0.065
915	7	0.0553
4270	7	0.0588
681	6	0.0472
932	5	0.0395
6530	4	0.0339
7	3	0.00193
42	3	0.0043
2950	3	0.0252
6830	3	0.0254
23	2	0.0016
6440	2	0.0169
8370	2	0.017
38600	2	0.0172
39100	2	0.0172
22	1	0.000574
30	1	0.000889
38	1	0.000875
46	1	0.000974
53	1	0.00149
54	1	0.00105
74	1	0.00226
91	1	0.0013
100	1	0.00184
106	1	0.00192
113	1	0.00201
124	1	0.00296
143	1	0.00187
175	1	0.00321
612	1	0.008
671	1	0.0081
770	1	0.00791
1640	1	0.0083
2420	1	0.00837
5960	1	0.00855
9720	1	0.00851
9790	1	0.00851
10600	1	0.00858
11800	1	0.00855
14600	1	0.00855
30700	1	0.00858
35100	1	0.00858
55500	1	0.00858
57000	1	0.00858
67900	1	0.00858

CL177 ----> CL129

No. of shared pairs: :34