Cluster no. 126

Go back to cluster table

Cluster is part of supercluster: 41

Cluster characteristics:

size	1710
size_real	1710
ecount	49570
supercluster	41
annotations_summary	32.11% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-INT 0.82% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatIV_Ogre:Ty3-INT 0.12% Class_I/LTR/Ty1_copia/Ale:Ty1-RT 0.06% Class_I/LTR/Ty1_copia/TAR:Ty1-INT 0.06% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatIII:Ty3-INT 0.06% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Athila:Ty3-INT
pair_completeness	0.71
pbs_score	None
TR_score	None
TR_monomer_length	None
loop_index	0.355555555555556
satellite_probability	2.07764967893191e-08
consensus	None
TAREAN_annotation	Other
orientation_score	1

comparative analysis:

Comparative analysis - species read counts:

Species	Read count
S5	556
S4	581
S6	573

comparative analysis - number of edges between species:

	S5	S4	S6
S5	6690	5120	6310
S4	5120	4060	4920
S6	6310	4920	6110

comparative analysis - observed/expected number of edges between species

	S5	S4	S6
S5	1.010	0.993	0.995
S4	0.993	1.010	0.997
S6	0.995	0.997	1.010

protein domains:

Reads annotation summary

cl_string domain Freq proportion

TAR Ty1-INT TAR Ty1-INT 1 0.00058

Ale Ty1-RT Ale Ty1-RT 2 0.00117

Athila Ty3-INT Athila Ty3-INT 1 0.00058

TatIII Ty3-INT TatIII Ty3-INT 1 0.00058

TatIV_Ogre Ty3-INT TatIV_Ogre Ty3-INT 14 0.00819

TatV Ty3-INT TatV Ty3-INT 549 0.32105

clusters with similarity:

Cluster	Number of similarity hits

128	136
176	3
123	1
203	1

clusters connected through mates:

Cluster	Number of shared read pairs	k

128	26	0.0864
123	21	0.0776
176	19	0.104
203	15	0.086
1110	6	0.0397
3020	6	0.0405
309	5	0.03
3540	4	0.0272
5700	4	0.0272
1	3	0.000866
558	3	0.0191
3990	3	0.0205
5240	3	0.0204
5580	3	0.0204
1140	2	0.0135
2280	2	0.0135
2570	2	0.0135
2980	2	0.0135
3700	2	0.0137
4220	2	0.0136
6030	2	0.0136
6420	2	0.0137
14	1	0.000769
20	1	0.000559
27	1	0.000958
58	1	0.000749
62	1	0.00155
84	1	0.00118
102	1	0.00144
109	1	0.00133
116	1	0.00543
135	1	0.00326
141	1	0.00446
999	1	0.00664
1200	1	0.00673
1850	1	0.00678
1880	1	0.00678
2420	1	0.00673
4910	1	0.00685
6440	1	0.0068
6460	1	0.0068
10100	1	0.00683
12800	1	0.00683
17500	1	0.00685
32100	1	0.00685
34000	1	0.00685
44600	1	0.00685
46700	1	0.00685

CL126 ----> CL128

No. of shared pairs: :26

CL126 ----> CL123

No. of shared pairs: :21

CL126 ----> CL176

No. of shared pairs: :19

CL126 ----> CL203

No. of shared pairs: :15