genome.fa.s8319.2.7.7.80.10.50.1000.5.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: VEPZ01008319.1 Hibiscus syriacus cultivar Beakdansim tig00111022_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4819703

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  5  of  21  ( 2487 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)
990965--991085	22	5.0	22	71	17	80	50	11	0	37	1.45
991001--991077	18	4.5	18	69	21	58	50	11	1	36	1.47
991065--991268	31	7.5	28	70	29	117	52	13	0	32	1.44
991144--991219	28	2.6	29	87	12	111	53	11	0	34	1.37
991200--991243	20	2.1	21	95	4	81	54	13	0	31	1.39
990848--991384	209	2.6	205	89	8	814	53	12	0	33	1.43
991365--991524	15	10.5	15	78	12	148	49	1	0	48	1.12
991406--991524	44	2.7	43	85	7	166	46	0	0	52	1.06
991365--991524	30	5.2	30	80	13	184	49	1	0	48	1.12
992002--992040	18	2.1	19	85	4	53	25	10	2	61	1.41
993220--993261	22	2.0	21	86	13	59	52	0	2	45	1.13
993738--993807	25	2.8	25	82	2	77	27	12	10	50	1.72
1003844--1003914	33	2.2	32	82	7	81	35	4	1	59	1.26
1006116--1006150	18	2.0	17	88	5	52	28	17	28	25	1.97
1008689--1008742	16	3.6	15	76	20	51	46	1	1	50	1.23
1009285--1009349	27	2.3	29	89	7	98	47	16	4	30	1.67
1013311--1013371	7	8.7	7	100	0	122	59	0	40	0	0.98
1026123--1026170	20	2.4	20	96	0	87	35	25	18	20	1.95
1026164--1026412	61	4.1	61	87	1	304	41	25	14	18	1.88
1026164--1026418	20	12.6	20	80	4	271	41	25	14	17	1.88
1026851--1026894	19	2.4	19	92	3	72	11	18	25	45	1.82
1028994--1029088	21	4.7	20	74	19	72	25	33	16	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1030377--1030549	62	2.6	65	84	13	230	27	2	16	53	1.56
1030958--1030993	18	2.0	18	94	0	63	19	2	22	55	1.56
1033411--1033444	12	2.8	12	90	0	50	14	0	29	55	1.40
1034219--1034270	20	2.7	20	90	3	79	30	11	23	34	1.90
1034239--1034324	40	2.2	40	87	6	122	19	13	25	40	1.89
1034258--1034324	20	3.3	20	85	0	98	16	14	26	41	1.87
1034319--1034404	20	4.3	20	89	0	136	24	19	20	34	1.96
1034259--1034384	40	3.2	40	81	12	118	21	17	22	38	1.93
1035064--1035200	69	2.0	69	97	0	256	35	11	18	34	1.88
1036234--1036389	64	2.4	64	79	8	174	37	17	17	26	1.92
1036915--1036948	15	2.3	15	89	0	50	17	17	32	32	1.94
1043073--1043228	64	2.4	64	80	8	183	35	19	19	26	1.95
1045012--1045070	10	5.9	10	77	18	61	32	22	27	18	1.97
1045012--1045070	20	2.9	21	78	14	70	32	22	27	18	1.97
1052136--1052205	9	7.3	9	76	12	59	28	25	28	17	1.97
1052136--1052185	19	2.7	18	84	9	73	26	28	30	16	1.96
1052168--1052206	21	1.9	21	89	5	62	33	23	25	17	1.96
1055968--1056020	22	2.4	22	100	0	106	60	0	3	35	1.15
1059291--1059397	33	3.2	34	79	14	98	35	0	2	61	1.10
1059322--1059396	30	2.5	30	82	6	80	38	0	1	60	1.06
1061104--1061151	21	2.3	21	85	0	60	25	39	12	22	1.89
1061155--1061248	21	4.5	21	89	5	120	19	34	26	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1061771--1061867	33	2.9	34	85	3	133	55	4	3	37	1.35
1061769--1061874	34	3.2	33	82	8	133	54	4	2	37	1.36
1066163--1066217	22	2.5	22	81	0	65	34	20	7	38	1.80
1071380--1071435	14	4.3	14	76	17	66	10	12	23	53	1.69
1071387--1071456	24	2.9	24	87	4	97	12	10	18	58	1.62
1072186--1072228	16	2.7	16	92	0	77	9	11	20	58	1.61
1073491--1073528	20	1.9	20	89	10	60	44	0	5	50	1.24
1073944--1074059	43	2.7	43	80	5	128	23	18	23	34	1.96
1074078--1074203	44	2.9	44	85	4	173	32	14	22	30	1.93
1075558--1075745	60	3.1	59	77	8	193	30	21	5	42	1.76
1075867--1075979	60	1.9	60	83	7	149	42	3	21	32	1.70
1076391--1076460	22	3.2	20	76	21	52	37	5	8	48	1.58
1076464--1076514	24	2.0	26	88	7	79	39	3	0	56	1.18
1077749--1077805	21	3.0	20	71	23	59	15	5	5	73	1.19
1081403--1082640	106	11.8	106	95	1	2069	32	25	18	23	1.97
1081403--1082640	316	3.9	318	94	1	2069	32	25	18	23	1.97
1083519--1083587	20	3.7	19	73	19	56	39	5	7	47	1.55
1083622--1083652	3	10.3	3	92	0	53	35	0	0	64	0.94
1084856--1084952	42	2.3	40	79	15	99	20	6	3	70	1.23
1086136--1086180	16	2.6	17	82	6	56	55	0	0	44	0.99
1086137--1086165	2	15.0	2	92	7	51	51	0	0	48	1.00
1086151--1086189	19	2.0	20	90	5	62	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1091294--1091338	2	22.5	2	100	0	90	48	0	0	51	1.00
1091395--1091431	2	19.0	2	94	5	67	51	0	0	48	1.00
1094881--1094989	56	1.9	56	100	0	218	32	11	20	36	1.87
1095598--1095675	30	2.5	30	83	4	84	33	5	15	46	1.68
1099419--1099622	103	2.0	103	97	0	381	43	10	13	32	1.78
1104766--1105170	199	2.0	199	99	0	801	29	10	19	41	1.84
1107956--1107990	2	18.0	2	94	5	63	51	0	0	48	1.00
1111925--1111961	17	2.1	18	90	5	58	32	29	13	24	1.93
1111930--1111962	9	3.8	9	84	8	50	33	30	12	24	1.91
1114380--1114422	12	3.3	12	79	17	50	48	18	18	13	1.80
1116731--1116770	21	1.9	21	94	0	71	30	15	7	47	1.72
1116765--1116863	33	3.0	33	94	1	164	32	7	15	45	1.73
1116849--1116903	13	4.2	13	75	13	58	34	3	12	49	1.59
1117100--1117156	21	2.7	21	91	0	96	19	26	26	28	1.99
1117321--1117376	15	3.6	15	79	9	67	32	12	12	42	1.80
1117340--1117373	18	1.9	18	94	5	61	38	11	11	38	1.79
1121777--1121808	15	2.1	15	94	0	55	12	43	6	37	1.68
1135543--1135569	2	13.5	2	100	0	54	51	0	0	48	1.00
1138565--1138701	54	2.5	54	92	2	231	40	8	18	32	1.80
1138929--1138973	23	2.0	23	86	8	65	44	0	0	55	0.99
1142837--1142879	12	3.6	12	93	0	68	18	18	46	16	1.84
1153812--1153878	35	1.9	35	93	0	116	34	28	26	10	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1153956--1154046	24	3.8	23	82	2	101	36	19	17	26	1.94
1153962--1154030	23	2.9	24	86	2	95	36	20	15	27	1.93
1157087--1157149	23	2.7	23	82	0	90	17	26	25	30	1.97
1159779--1159821	17	2.6	16	78	7	50	34	0	25	39	1.56
1161138--1161203	2	33.0	2	100	0	132	50	0	0	50	1.00
1162201--1162265	23	2.8	23	83	0	94	20	23	24	32	1.98
1163878--1163920	13	3.3	13	83	0	59	23	23	34	18	1.96
1174162--1174538	127	3.0	127	92	1	603	46	5	5	42	1.49
1174415--1174458	22	2.0	23	86	4	63	54	2	2	40	1.25
1176382--1176424	20	2.2	19	95	4	77	30	4	9	55	1.52
1181849--1181886	19	2.0	20	94	5	69	36	21	23	18	1.95
1195287--1195353	22	3.0	22	100	0	134	26	26	26	19	1.99
1195615--1195685	29	2.5	28	90	2	106	39	12	8	39	1.74
1195987--1196161	69	2.6	69	84	1	210	18	27	26	27	1.98
1196119--1196161	21	2.0	21	86	0	59	16	25	27	30	1.97
1202199--1202265	22	3.0	22	100	0	134	26	26	26	19	1.99
1202527--1202597	29	2.5	28	90	2	106	39	12	8	39	1.74
1202900--1203054	69	2.2	70	86	2	206	18	27	27	26	1.98
1203034--1203076	21	2.0	21	86	0	59	16	25	27	30	1.97
1205665--1205690	12	2.2	12	100	0	52	46	0	0	53	1.00
1208040--1208162	61	2.0	61	87	3	176	26	14	21	37	1.92
1209236--1209307	37	1.9	38	83	8	94	44	11	12	31	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1209297--1209358	32	1.9	32	87	6	90	40	14	16	29	1.88
1213169--1213265	32	3.1	32	81	1	106	38	9	9	43	1.69
1213462--1213702	128	1.9	128	94	0	428	32	27	6	33	1.83
1213473--1213733	128	2.0	128	85	1	344	35	24	5	34	1.78
1213996--1214094	26	3.7	27	72	9	94	45	1	9	44	1.42
1214963--1216353	227	6.1	229	94	2	2433	44	6	8	39	1.62
1214963--1216347	451	3.1	455	94	2	2424	44	6	8	39	1.62
1216402--1216447	19	2.4	19	88	3	74	54	10	17	17	1.70
1216570--1216625	20	2.9	19	80	15	69	53	8	16	21	1.69
1218915--1218979	33	2.0	32	87	3	94	27	0	49	23	1.50

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21