Cluster no. 163

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Cluster is part of supercluster: 74

Cluster characteristics:

size	1649
size_real	1649
ecount	10238
supercluster	74
annotations_summary	15.22% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-INT 7.58% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RT 5.82% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-aRH 5.76% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RH 3.46% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-PROT 2.85% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-GAG 0.30% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatIV_Ogre:Ty3-RT 0.12% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatIV_Ogre:Ty3-aRH 0.12% Class_I/LTR/Ty3_gypsy/non-chromovirus/Selgy:Ty3-RH 0.06% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatIV_Ogre:Ty3-INT 0.06% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Athila:Ty3-INT
pair_completeness	0.848654708520179
pbs_score	None
TR_score	None
TR_monomer_length	None
loop_index	0.0103092783505155
satellite_probability	1.78459432152064e-22
consensus	None
TAREAN_annotation	Other
orientation_score	1

comparative analysis:

Comparative analysis - species read counts:

Species	Read count
S8	567
S5	0
S4	4
S7	507
S9	562
S6	3
S2	6
S1	0
S3	0

comparative analysis - number of edges between species:

	S8	S4	S7	S9	S6	S2
S8	1100.0	6.0	1080.0	1200.0	4.5	12
S5	0.0	0.0	0.0	0.0	0.0	0
S4	6.0	0.0	6.0	7.5	0.5	0
S7	1080.0	6.0	1030.0	1090.0	3.5	10
S9	1200.0	7.5	1090.0	1240.0	6.5	12
S6	4.5	0.5	3.5	6.5	0.0	0
S2	12.0	0.0	10.0	12.0	0.0	0
S1	0.0	0.0	0.0	0.0	0.0	0
S3	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	0.975	NA	0.903	1.010	1.020	0.903	1.060	NA	NA
S5	NA	NA	NA	NA	NA	NA	NA	NA	NA
S4	0.903	NA	0.000	0.954	1.080	17.100	0.000	NA	NA
S7	1.010	NA	0.954	1.020	0.975	0.742	0.935	NA	NA
S9	1.020	NA	1.080	0.975	1.010	1.250	1.020	NA	NA
S6	0.903	NA	17.100	0.742	1.250	0.000	0.000	NA	NA
S2	1.060	NA	0.000	0.935	1.020	0.000	0.000	NA	NA
S1	NA	NA	NA	NA	NA	NA	NA	NA	NA
S3	NA	NA	NA	NA	NA	NA	NA	NA	NA

protein domains:

Reads annotation summary

cl_string domain Freq proportion

TatV Ty3-GAG TatV Ty3-GAG 47 0.02850

Athila Ty3-INT Athila Ty3-INT 1 0.00061

TatIV_Ogre Ty3-INT TatIV_Ogre Ty3-INT 1 0.00061

TatV Ty3-INT TatV Ty3-INT 251 0.15221

TatV Ty3-PROT TatV Ty3-PROT 57 0.03457

Selgy Ty3-RH Selgy Ty3-RH 2 0.00121

TatV Ty3-RH TatV Ty3-RH 95 0.05761

TatIV_Ogre Ty3-RT TatIV_Ogre Ty3-RT 5 0.00303

TatV Ty3-RT TatV Ty3-RT 125 0.07580

TatIV_Ogre Ty3-aRH TatIV_Ogre Ty3-aRH 2 0.00121

TatV Ty3-aRH TatV Ty3-aRH 96 0.05822

clusters with similarity:

Cluster	Number of similarity hits

205

clusters connected through mates:

Cluster	Number of shared read pairs	k

253	17	0.133
205	15	0.115
1980	5	0.069
4450	5	0.0709
4550	4	0.0567
6670	4	0.0571
3080	3	0.0426
3900	3	0.0429
13200	3	0.0435
47600	2	0.0292
56800	2	0.0292
9	1	0.00131
32	1	0.00152
78	1	0.000864
91	1	0.00138
167	1	0.00363
381	1	0.0112
3420	1	0.014
4120	1	0.0141
16400	1	0.0145
18900	1	0.0145
22600	1	0.0146
38800	1	0.0146

CL163 ----> CL253

No. of shared pairs: :17

CL163 ----> CL205

No. of shared pairs: :15