genome.fa.s250.2.7.7.80.10.50.1000.5.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01000250.1 Hibiscus syriacus cultivar Beakdansim tig00000452_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2850692

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  5  of  12  ( 1407 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
920195--920237	22	2.0	21	86	13	61	46	4	0	48	1.22
921368--921668	87	3.3	90	82	14	363	37	0	0	61	1.03
921369--921647	82	3.4	84	86	10	371	37	0	0	62	0.99
921372--921647	5	56.2	5	86	10	367	37	0	0	61	0.99
921372--921668	77	3.8	77	83	11	310	37	1	0	61	1.03
927733--927804	29	2.4	30	79	2	83	30	8	15	45	1.75
928642--928709	21	3.2	21	81	8	68	35	2	0	61	1.11
929643--929685	20	2.0	23	86	13	65	46	4	20	27	1.71
932966--932994	2	14.5	2	100	0	58	0	0	48	51	1.00
935162--935244	43	1.9	43	95	0	148	38	10	14	36	1.81
936578--936613	16	2.2	16	90	0	54	55	5	11	27	1.57
938081--938132	19	2.6	20	81	6	61	36	0	28	34	1.58
939417--939446	2	15.0	2	100	0	60	50	0	0	50	1.00
940363--940392	10	3.0	10	95	0	51	0	10	3	86	0.67
941157--941637	55	8.7	55	81	4	495	31	23	17	27	1.97
941653--941763	37	3.0	37	87	0	168	23	20	18	37	1.94
942801--942963	66	2.5	65	84	6	197	30	23	18	26	1.98
942933--942981	19	2.6	19	84	9	57	24	28	20	26	1.99
944222--944314	13	6.8	13	75	15	66	5	18	0	76	0.97
944221--944331	34	3.4	33	81	12	133	5	17	0	77	0.95
944211--944291	41	2.0	41	88	9	121	7	17	0	75	1.02
944223--944322	41	2.4	41	81	8	114	5	18	0	77	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
944222--944330	7	15.7	7	80	14	68	5	17	0	77	0.96
944227--944375	56	2.6	57	78	18	170	7	18	0	73	1.05
955826--955853	2	14.0	2	100	0	56	50	0	0	50	1.00
956962--958319	677	2.0	677	98	0	2653	36	16	13	32	1.88
959214--959334	64	1.9	64	83	6	156	42	4	8	44	1.56
967330--967477	58	2.6	57	81	8	158	35	4	20	39	1.71
967330--967477	29	5.1	30	79	8	139	35	4	20	39	1.71
974598--974623	13	2.0	13	100	0	52	15	46	23	15	1.83
974600--974633	17	1.9	18	94	5	61	17	47	23	11	1.81
974642--974780	57	2.4	60	85	6	205	33	3	23	40	1.72
974642--974826	29	6.3	29	83	6	189	35	3	21	40	1.71
974675--974815	30	4.8	30	82	7	130	38	3	17	40	1.67
974675--974826	59	2.6	58	83	6	182	36	3	19	40	1.70
977110--977155	23	2.0	23	100	0	92	17	21	17	43	1.88
978443--978648	2	107.0	2	68	19	118	41	2	3	51	1.35
978467--978595	38	3.4	38	79	11	133	40	1	3	54	1.28
978450--978614	58	2.8	56	81	9	163	40	3	4	52	1.36
978488--978648	58	2.8	59	78	11	147	41	2	4	51	1.35
981221--981273	20	2.6	21	85	8	65	28	18	18	33	1.95
991479--991793	157	2.0	158	99	0	623	40	10	16	32	1.83
993524--993954	210	2.1	210	92	0	709	25	9	28	36	1.86
995954--996006	22	2.4	22	100	0	106	67	5	22	3	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1013108--1013148	22	2.0	21	85	9	57	43	9	0	46	1.36
1018773--1019060	143	2.0	144	99	0	569	35	5	20	38	1.76
1021216--1021330	57	2.0	57	94	0	203	29	27	11	31	1.91
1036902--1036968	21	3.3	21	70	16	68	43	16	14	25	1.86
1036893--1036968	40	1.9	40	94	0	134	42	18	14	25	1.88
1036895--1036957	19	3.2	19	72	16	65	39	20	14	25	1.90
1037466--1037524	3	20.3	3	73	13	52	35	1	0	62	1.05
1042608--1042673	34	1.9	34	93	0	114	31	18	12	37	1.87
1043612--1043665	18	3.1	18	70	24	60	5	14	35	44	1.69
1048452--1048503	22	2.5	19	82	14	59	34	25	13	26	1.93
1054041--1054074	2	17.0	2	100	0	68	50	0	0	50	1.00
1062438--1062540	3	35.0	3	79	13	99	66	0	0	31	1.04
1062438--1062540	33	3.2	33	85	6	122	66	0	0	31	1.04
1062594--1062650	29	2.0	29	82	6	71	33	0	3	63	1.12
1063721--1063766	2	23.0	2	81	0	56	41	0	8	50	1.33
1063752--1063792	20	2.1	19	86	4	55	39	7	7	46	1.60
1067825--1067977	82	1.9	83	82	9	197	34	18	17	28	1.94
1071526--1071579	28	1.9	28	96	0	99	42	14	9	33	1.78
1074599--1074661	2	31.5	2	100	0	126	50	0	0	49	1.00
1075243--1075327	34	2.5	34	82	3	100	40	24	14	21	1.90
1078347--1078382	12	3.1	12	84	8	56	8	19	0	72	1.10
1081952--1082000	20	2.5	20	80	6	55	24	30	20	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1081968--1082013	20	2.3	20	80	0	56	28	21	28	21	1.99
1082050--1082089	20	2.0	20	90	0	62	30	27	15	27	1.96
1084822--1084903	10	8.4	9	70	12	56	17	24	26	31	1.97
1084852--1084903	19	2.7	19	87	3	77	19	26	25	28	1.98
1084913--1084950	17	2.2	17	95	0	67	21	47	21	10	1.80
1086413--1086451	17	2.3	17	81	0	51	28	2	7	61	1.37
1091538--1091585	19	2.5	20	87	12	66	12	25	25	37	1.91
1091611--1091652	22	1.9	22	95	0	75	21	42	21	14	1.88
1100996--1101176	78	2.3	78	91	1	283	20	23	33	23	1.97
1103766--1103805	21	1.9	21	89	0	62	10	25	40	25	1.86
1103788--1103848	20	2.9	21	87	7	79	18	26	34	21	1.96
1107727--1107948	117	1.9	118	82	6	281	27	14	9	48	1.75
1109253--1109463	76	2.8	77	86	2	282	19	22	32	25	1.97
1113237--1113274	19	2.0	20	94	5	69	39	5	18	36	1.73
1116149--1116185	19	1.9	19	100	0	74	48	5	10	35	1.61
1127043--1127130	29	3.0	29	94	0	158	48	13	13	23	1.78
1130313--1130358	23	2.0	23	100	0	92	43	8	17	30	1.79
1130315--1130363	23	2.2	22	92	7	82	42	10	18	28	1.83
1133069--1133195	31	3.9	31	70	23	109	40	7	15	35	1.77
1139153--1139199	24	2.0	24	83	4	60	8	21	12	57	1.62
1144481--1144560	23	3.7	22	85	8	103	18	26	31	23	1.98
1150769--1151002	43	5.4	43	89	3	344	30	25	27	17	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1150769--1151002	85	2.7	86	88	4	353	30	25	27	17	1.97
1153785--1153814	13	2.3	13	100	0	60	13	20	50	16	1.78
1155767--1156029	42	6.2	42	94	1	418	32	25	25	16	1.96
1155740--1156029	85	3.4	84	89	2	409	32	25	25	16	1.96
1155767--1156029	127	2.1	128	92	0	438	32	25	25	16	1.96
1158740--1158772	14	2.3	15	89	5	50	24	18	36	21	1.95
1158772--1158805	13	2.6	13	90	0	50	14	20	47	17	1.83
1158768--1158830	18	3.8	18	72	20	64	15	17	47	19	1.83
1158761--1158826	31	2.1	31	88	5	98	18	18	43	19	1.88
1162560--1162616	21	2.7	21	97	0	105	21	19	22	36	1.95
1163175--1163199	10	2.5	10	100	0	50	48	12	0	40	1.40
1179703--1182317	873	3.0	873	95	0	4711	31	15	16	35	1.91
1181854--1181888	18	1.9	18	88	0	52	54	2	8	34	1.46
1185976--1186018	19	2.3	18	80	7	50	32	4	2	60	1.30
1190603--1190651	17	2.8	18	81	6	64	63	18	2	16	1.41
1190610--1190666	26	2.2	26	87	0	78	68	12	1	17	1.29
1190680--1190718	19	2.1	19	85	0	51	56	7	2	33	1.41
1211109--1211156	20	2.4	20	100	0	96	33	18	16	31	1.94
1215089--1215179	45	2.0	45	100	0	182	26	17	17	38	1.92
1221475--1221809	163	2.0	165	98	1	647	40	20	13	26	1.89
1238808--1238837	9	3.2	9	95	4	51	30	3	0	66	1.07
1239146--1239219	39	1.9	39	88	2	114	21	27	6	44	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1241909--1241957	25	2.0	25	100	0	98	36	8	30	24	1.85
1243316--1243455	73	1.9	71	88	5	210	40	13	14	31	1.84
1245935--1246003	30	2.3	31	82	9	81	49	0	1	49	1.09
1246104--1246540	201	2.2	198	87	2	626	41	14	13	29	1.85
1247192--1247242	23	2.2	23	89	0	75	33	13	9	43	1.77
1247137--1247532	87	4.5	87	86	4	549	32	12	11	43	1.78
1247143--1247502	181	2.0	181	93	0	612	32	13	11	43	1.78
1247373--1247432	23	2.6	23	83	0	75	36	13	8	41	1.74
1247469--1247513	23	2.0	23	86	0	63	37	15	11	35	1.83
1249042--1249083	17	2.4	18	84	4	59	66	2	2	28	1.16

Tables:   1   2   3   4   5   6   7   8   9   10   11   12