Cluster no. 44

Cluster no. 44

Go back to cluster table

Cluster is part of supercluster: 21

Cluster characteristics:

size	6330
size_real	6330
ecount	71572
supercluster	21
annotations_summary	13.08% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-GAG 8.91% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-PROT 0.62% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Athila:Ty3-GAG 0.13% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatIV_Ogre:Ty3-GAG 0.09% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatIV_Ogre:Ty3-PROT 0.05% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatII:Ty3-GAG 0.03% Class_I/LTR/Ty3_gypsy/chromovirus/Galadriel:Ty3-INT 0.03% Class_I/LTR/Ty1_copia/Tork:Ty1-RT 0.02% Class_I/LTR/Ty1_copia/SIRE:Ty1-RH 0.02% Class_I/LTR/Ty1_copia/Ale:Ty1-INT 0.02% Class_I/LINE:LINE-ENDO 0.02% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-INT 0.02% Class_I/LTR/Ty1_copia/Gymco-II:Ty1-RH 0.02% Class_I/DIRS:DIRS-RT
pair_completeness	0.714982389596315
pbs_score	None
TR_score	None
TR_monomer_length	None
loop_index	0.000157977883096366
satellite_probability	1.39099901770407e-22
consensus	None
TAREAN_annotation	Other
orientation_score	1

comparative analysis:

Comparative analysis - species read counts:

Species	Read count
S5	2140
S4	2100
S6	2080

comparative analysis - number of edges between species:

	S5	S4	S6
S5	8730	8130	7980
S4	8130	7840	7620
S6	7980	7620	7510

comparative analysis - observed/expected number of edges between species

	S5	S4	S6
S5	1.010	0.993	0.995
S4	0.993	1.010	1.000
S6	0.995	1.000	1.010

protein domains:

protein domains:

Reads annotation summary

cl_string domain Freq proportion

DIRS DIRS-RT DIRS DIRS-RT 1 0.00016

LINE LINE-ENDO LINE LINE-ENDO 1 0.00016

Ale Ty1-INT Ale Ty1-INT 1 0.00016

Gymco-II Ty1-RH Gymco-II Ty1-RH 1 0.00016

SIRE Ty1-RH SIRE Ty1-RH 1 0.00016

Tork Ty1-RT Tork Ty1-RT 2 0.00032

Athila Ty3-GAG Athila Ty3-GAG 39 0.00616

TatII Ty3-GAG TatII Ty3-GAG 3 0.00047

TatIV_Ogre Ty3-GAG TatIV_Ogre Ty3-GAG 8 0.00126

TatV Ty3-GAG TatV Ty3-GAG 828 0.13081

Galadriel Ty3-INT Galadriel Ty3-INT 2 0.00032

Reina Ty3-INT Reina Ty3-INT 1 0.00016

TatIV_Ogre Ty3-PROT TatIV_Ogre Ty3-PROT 6 0.00095

TatV Ty3-PROT TatV Ty3-PROT 564 0.08910

clusters with similarity:

Cluster	Number of similarity hits

60	320
25	37
58	27
164	6
247	1

clusters connected through mates:

Cluster	Number of shared read pairs	k

58	148	0.0862
164	61	0.0901
25	54	0.0474
1	11	0.00286
57	6	0.00365
27	5	0.00351
10	4	0.00145
19	4	0.00197
61	4	0.00233
94	4	0.003
2810	4	0.00756
53	3	0.00278
60	3	0.00378
14	2	0.00119
30	2	0.000934
32	2	0.00108
49	2	0.00121
56	2	0.0012
59	2	0.00139
132	2	0.00295
1680	2	0.00379
3700	2	0.00379
7610	2	0.00379
10700	2	0.00379
13900	2	0.0038
16100	2	0.0038
22300	2	0.0038
22400	2	0.0038
22400	2	0.0038
23800	2	0.0038
39300	2	0.0038
47900	2	0.0038
2	1	0.000276
13	1	0.000508
15	1	0.000669
16	1	0.000629
17	1	0.000496
18	1	0.000573
24	1	0.000609
26	1	0.00039
31	1	0.000595
38	1	0.000954
41	1	0.00062
75	1	0.000965
83	1	0.000618
85	1	0.00124
90	1	0.000987
99	1	0.000839
101	1	0.00104
105	1	0.00104
168	1	0.00151
171	1	0.0015
181	1	0.00165
231	1	0.00177
247	1	0.00182
266	1	0.00186
299	1	0.00183
1920	1	0.00189
2030	1	0.0019
2440	1	0.00189
3580	1	0.00189
4050	1	0.0019
4680	1	0.0019
4740	1	0.0019
5650	1	0.0019
5650	1	0.00189
6640	1	0.0019
6700	1	0.00189
6720	1	0.00189
8860	1	0.0019
8950	1	0.0019
10200	1	0.0019
11800	1	0.0019
12000	1	0.0019
13100	1	0.0019
13600	1	0.0019
15900	1	0.0019
17000	1	0.0019
18300	1	0.0019
20100	1	0.0019
22200	1	0.0019
24300	1	0.0019
28200	1	0.0019
29400	1	0.0019
31000	1	0.0019
31400	1	0.0019
31900	1	0.0019
32400	1	0.0019
33600	1	0.0019
34700	1	0.0019
37900	1	0.0019
42900	1	0.0019
43400	1	0.0019

CL44 ----> CL58

No. of shared pairs: :148

CL44 ----> CL164

No. of shared pairs: :61

CL44 ----> CL25

No. of shared pairs: :54

CL44 ----> CL1

No. of shared pairs: :11