genome.fa.s7808.2.7.7.80.10.50.1000.4.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: VEPZ01007808.1 Hibiscus syriacus cultivar Beakdansim tig00110129_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1698870

Tables:   1   2   3   4   5   6   7   

This is table  4  of  7  ( 791 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)
984399--984476	3	26.7	3	94	5	142	65	0	0	34	0.93
987902--987942	17	2.3	19	87	8	59	65	0	2	31	1.05
987983--988010	14	2.0	14	100	0	56	50	7	21	21	1.72
989627--989678	7	7.1	7	77	14	52	17	1	3	76	1.02
989630--989693	30	2.2	28	78	15	67	20	3	4	71	1.17
994832--994877	18	2.6	18	85	0	65	23	47	17	10	1.79
997375--997474	24	4.2	24	72	10	87	22	13	17	48	1.81
997643--997686	2	22.0	2	100	0	88	50	0	0	50	1.00
1009535--1009586	3	17.7	3	84	11	72	30	3	0	65	1.10
1016084--1016284	95	2.1	95	80	4	226	34	15	21	28	1.94
1016630--1017051	59	7.3	59	87	5	567	33	12	19	34	1.89
1022145--1022223	21	3.5	22	77	8	79	26	24	22	26	2.00
1028010--1028169	66	2.5	66	85	6	211	28	17	21	32	1.96
1031728--1031778	20	2.5	20	100	0	102	31	21	21	25	1.98
1031747--1031968	95	2.3	95	81	6	254	35	14	21	29	1.93
1032295--1032838	59	9.2	59	88	3	810	33	11	20	33	1.89
1036010--1036049	19	2.0	20	90	4	64	25	10	0	65	1.24
1038025--1038088	3	21.7	3	78	15	71	67	1	1	29	1.09
1039907--1039947	21	1.9	22	85	5	57	48	14	0	36	1.44
1040829--1040928	51	2.0	51	82	4	121	17	29	32	22	1.96
1041338--1041368	4	7.5	4	96	3	53	45	0	0	54	0.99
1043866--1044071	103	2.0	103	100	0	412	30	23	21	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1044138--1044247	47	2.4	46	88	5	154	40	8	19	32	1.81
1044628--1044664	12	3.1	12	92	0	56	27	10	24	37	1.88
1046979--1047042	9	7.9	8	75	19	53	81	3	10	4	0.96
1046977--1047026	18	2.6	19	87	6	66	80	4	10	6	1.02
1047015--1047039	13	1.9	13	100	0	50	80	0	16	4	0.87
1046999--1047040	6	6.8	6	79	15	50	80	2	14	2	0.90
1046987--1047040	19	2.9	18	83	5	63	79	3	12	3	1.00
1051045--1051168	47	2.8	45	86	9	173	38	8	20	31	1.84
1053422--1053469	13	3.7	13	82	0	60	16	2	12	68	1.29
1053420--1053469	26	1.9	26	91	0	82	18	4	12	66	1.39
1058184--1058285	12	8.5	12	83	0	87	36	9	31	22	1.87
1058184--1058274	6	15.2	6	87	0	92	37	9	29	23	1.87
1058187--1058285	18	5.5	18	80	0	72	36	10	31	22	1.87
1059618--1059655	20	1.9	20	94	0	67	34	5	18	42	1.73
1059660--1059701	21	2.0	20	86	4	57	40	7	14	38	1.73
1064298--1064336	20	2.0	20	100	0	78	33	10	15	41	1.81
1065732--1065778	19	2.3	22	89	10	73	55	0	0	44	0.99
1066680--1066725	23	2.0	23	86	0	65	45	6	2	45	1.41
1070454--1070620	90	1.9	90	96	0	307	36	11	5	46	1.65
1071514--1071552	19	2.0	20	95	5	71	46	15	5	33	1.68
1076819--1076993	90	2.0	89	93	1	296	37	11	6	44	1.66
1079736--1079777	19	2.0	21	86	13	61	40	26	4	28	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1081787--1081870	34	2.5	33	79	9	89	26	15	3	54	1.57
1084480--1084547	22	3.1	21	71	23	59	41	2	1	54	1.24
1096837--1096879	17	2.6	17	85	3	52	32	18	18	30	1.95
1100302--1100340	20	2.0	20	84	0	51	33	23	7	35	1.83
1103673--1103795	32	4.0	31	81	3	122	26	13	21	38	1.90
1107067--1107102	15	2.3	16	90	4	56	33	22	22	22	1.97
1108058--1108145	31	2.9	30	84	3	113	26	18	18	37	1.93
1118323--1118386	30	2.1	31	88	2	94	26	20	34	18	1.96
1118335--1118407	30	2.4	30	83	0	92	21	20	38	19	1.94
1118702--1118740	20	2.0	20	89	0	60	33	23	10	33	1.88
1123897--1123931	2	17.5	2	100	0	70	48	0	0	51	1.00
1124302--1124395	20	4.7	20	85	2	134	41	19	22	17	1.90
1124302--1124414	41	2.8	41	86	2	120	40	18	23	16	1.91
1124400--1124477	41	1.9	41	83	0	102	39	20	16	23	1.92
1124403--1124517	20	5.7	20	76	5	88	35	21	17	25	1.95
1124685--1124728	22	2.0	22	95	0	79	20	45	15	18	1.85
1124992--1125029	20	1.9	20	88	0	58	13	15	21	50	1.78
1126349--1126393	18	2.5	18	85	0	63	28	42	15	13	1.85
1126875--1126941	20	3.4	20	81	2	73	38	23	22	14	1.92
1126875--1126995	19	6.6	19	77	13	92	42	22	21	14	1.88
1127021--1127124	19	5.4	19	83	4	111	14	21	24	40	1.90
1127032--1127105	39	1.9	38	88	2	112	14	24	22	37	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1129101--1129168	19	3.9	18	81	18	90	45	19	22	13	1.84
1129187--1129244	20	2.9	20	92	0	89	17	20	22	39	1.92
1131035--1131099	19	3.7	19	70	19	68	43	20	24	12	1.86
1131035--1131097	33	1.9	33	96	0	117	41	20	25	12	1.88
1131095--1131137	19	2.2	20	87	4	61	16	16	23	44	1.86
1131279--1131314	14	2.6	14	90	0	63	44	25	0	30	1.54
1132673--1132739	21	3.2	21	68	4	55	19	20	35	23	1.95
1132712--1132793	42	2.0	42	85	0	110	24	17	36	21	1.94
1134797--1134981	19	10.1	19	75	14	156	44	22	21	11	1.84
1134822--1134920	33	3.0	33	87	1	135	40	26	22	11	1.87
1134892--1134976	39	2.2	38	93	2	143	49	22	17	10	1.77
1134977--1135021	19	2.4	19	88	0	63	8	15	24	51	1.72
1135574--1135667	20	4.7	20	80	7	91	23	19	25	31	1.98
1135656--1135748	20	4.5	21	78	4	100	17	24	18	39	1.91
1135595--1135729	41	3.3	41	83	6	141	18	22	21	37	1.94
1135656--1135748	41	2.3	41	100	0	186	17	24	18	39	1.91
1136135--1136198	30	2.1	30	82	0	74	35	23	29	10	1.89
1140365--1140394	15	1.9	16	93	6	53	46	23	13	16	1.82
1142687--1142758	3	23.7	3	83	8	56	56	1	0	41	1.07
1142688--1142766	22	3.6	22	78	11	74	56	1	0	41	1.07
1142692--1142758	25	2.8	24	80	10	82	56	1	0	41	1.08
1143371--1143723	124	2.8	124	91	1	548	23	16	25	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1143641--1143781	58	2.4	58	88	2	194	26	18	23	31	1.97
1143515--1143846	182	1.8	182	90	0	529	23	16	26	34	1.95
1143986--1144089	34	3.2	34	60	15	83	25	12	23	38	1.90
1143934--1144420	64	7.6	64	92	0	785	30	12	21	35	1.91
1146305--1146349	7	6.1	7	92	7	72	33	13	26	26	1.93
1146305--1146349	15	3.1	15	96	3	83	33	13	26	26	1.93
1146305--1146350	22	2.0	23	95	4	85	34	13	26	26	1.92
1148192--1148232	21	2.0	21	85	9	57	26	14	21	36	1.93
1148448--1148521	3	24.7	3	87	5	96	62	1	0	36	1.04
1149277--1149317	22	1.9	21	85	5	55	68	2	2	26	1.15
1150801--1150895	48	2.0	49	87	2	138	56	15	13	13	1.67
1150801--1150875	24	3.1	24	98	1	141	56	16	16	12	1.68
1151101--1151138	14	2.7	14	100	0	76	63	15	7	13	1.51
1154691--1154736	2	23.0	2	100	0	92	50	0	0	50	1.00
1155094--1155127	14	2.4	14	100	0	68	55	0	0	44	0.99
1158570--1158613	3	14.7	3	100	0	88	65	0	0	34	0.93
1159092--1159128	10	3.9	10	79	13	51	56	0	0	43	0.99
1159085--1159131	25	2.0	23	87	8	67	57	0	0	42	0.98
1160361--1160394	17	2.1	17	88	5	52	11	8	32	47	1.71
1167770--1167974	94	2.2	96	86	4	283	34	16	21	27	1.95
1168329--1168591	55	4.8	55	86	4	345	30	19	20	29	1.97
1168323--1168591	110	2.4	109	89	0	394	30	19	19	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1169169--1169321	71	2.2	71	98	0	297	46	4	3	45	1.42
1170031--1170073	16	2.4	18	77	22	54	48	4	13	32	1.63
1170139--1170182	23	1.9	23	95	0	79	40	4	15	38	1.68
1170225--1170291	23	2.9	23	88	0	98	40	4	16	38	1.69
1170139--1170378	110	2.2	110	87	3	351	41	8	14	35	1.77
1170319--1170367	23	2.1	23	88	0	71	36	10	18	34	1.85
1170817--1171222	111	3.6	111	89	3	611	44	11	12	31	1.78
1171654--1172135	111	4.3	111	90	1	716	44	11	11	32	1.77
1171654--1172135	223	2.2	223	90	1	725	44	11	11	32	1.77
1182895--1182935	19	2.1	20	86	4	57	36	19	14	29	1.92

Tables:   1   2   3   4   5   6   7