genome.fa.s426.2.7.7.80.10.50.1000.5.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: VEPZ01000426.1 Hibiscus syriacus cultivar Beakdansim tig00000778_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3165331

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  5  of  15  ( 1749 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)
881995--882045	7	7.4	7	86	4	77	17	27	27	27	1.98
884255--884324	30	2.3	30	82	2	77	47	24	11	17	1.80
885340--885374	13	2.8	13	95	4	63	31	17	37	14	1.89
886952--886982	15	2.1	15	100	0	62	19	6	25	48	1.72
887362--887408	18	2.7	18	93	3	78	29	31	6	31	1.83
893275--893330	27	2.1	27	100	0	112	23	10	32	33	1.89
899791--899825	17	2.1	17	94	0	61	40	0	2	57	1.14
903071--903132	32	1.9	32	83	6	81	16	27	27	29	1.97
905445--905597	60	2.5	61	80	9	163	31	22	5	40	1.76
905720--905862	60	2.4	61	83	4	166	38	6	23	31	1.81
909441--909478	2	19.0	2	88	0	58	44	0	55	0	0.99
921745--921784	2	20.0	2	100	0	80	50	0	0	50	1.00
923157--923218	32	1.9	32	100	0	124	25	12	20	40	1.89
923346--923387	2	21.0	2	100	0	84	50	0	0	50	1.00
924624--924651	11	2.5	11	100	0	56	57	0	0	42	0.99
937441--937479	2	19.5	2	100	0	78	48	0	0	51	1.00
938872--938933	31	2.0	31	90	0	97	40	12	25	20	1.89
944815--944846	2	16.0	2	100	0	64	50	0	0	50	1.00
947053--947132	36	2.3	35	87	6	117	45	20	5	30	1.72
955163--955199	11	3.2	12	88	7	51	59	8	16	16	1.59
955162--955195	17	2.0	17	88	0	50	58	5	17	17	1.57
963188--963220	4	8.2	4	100	0	66	51	24	0	24	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
963804--964630	391	2.1	391	92	0	1375	36	14	13	35	1.86
970609--970669	32	1.9	32	96	0	113	40	18	21	19	1.91
970866--970894	2	14.5	2	100	0	58	51	0	0	48	1.00
972377--972435	27	2.2	27	96	0	109	22	10	28	38	1.86
977117--977183	15	4.5	15	87	7	84	65	4	0	29	1.12
977142--977185	14	3.1	15	87	9	65	70	4	0	25	1.06
978227--978331	53	2.0	54	96	1	194	39	2	7	50	1.46
986999--987023	2	12.5	2	100	0	50	52	0	0	48	1.00
989261--989306	25	2.0	24	83	12	60	19	4	10	65	1.41
992899--992948	17	2.9	18	72	19	52	40	22	2	36	1.65
994037--994079	20	2.2	20	88	12	63	27	4	2	65	1.25
1006518--1006550	17	2.1	16	88	11	50	36	6	0	57	1.23
1007968--1008024	21	2.7	21	88	0	87	54	3	0	42	1.17
1010604--1010653	2	25.0	2	100	0	100	50	0	0	50	1.00
1017170--1017616	217	2.0	225	87	6	651	20	11	13	54	1.70
1018526--1018552	2	13.5	2	100	0	54	51	0	0	48	1.00
1020577--1020606	2	15.0	2	100	0	60	50	0	0	50	1.00
1039303--1039329	2	13.5	2	100	0	54	51	0	0	48	1.00
1049430--1049501	2	39.0	2	81	15	84	45	0	0	54	0.99
1051690--1051753	18	3.6	17	81	6	83	29	26	7	35	1.85
1061901--1061952	3	17.3	3	100	0	104	67	0	32	0	0.91
1068717--1068742	5	5.2	5	100	0	52	23	57	19	0	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1083868--1083909	20	2.0	21	86	9	59	61	0	0	38	0.96
1085264--1085326	28	2.2	28	94	0	108	41	19	6	33	1.76
1088668--1088766	37	2.7	38	82	7	114	44	6	11	38	1.65
1088766--1088792	2	13.5	2	100	0	54	51	0	0	48	1.00
1088827--1088932	16	7.0	16	73	22	79	35	0	1	62	1.06
1088819--1088926	41	2.6	43	80	15	120	37	0	1	59	1.15
1088858--1088944	32	2.7	31	84	8	86	32	1	2	64	1.13
1090141--1090272	45	3.2	38	77	19	124	24	10	0	64	1.30
1090185--1090270	45	1.9	45	95	0	154	26	8	1	63	1.29
1090280--1090327	13	3.7	13	78	15	55	18	6	2	72	1.15
1096447--1096691	126	1.9	127	89	4	379	33	15	22	28	1.94
1097554--1097639	32	2.7	32	78	3	93	30	12	16	40	1.86
1098022--1098047	5	5.2	5	100	0	52	42	0	0	57	0.98
1098326--1098367	22	1.9	22	85	0	57	61	2	0	35	1.09
1098735--1098773	16	2.4	16	86	0	60	15	12	20	51	1.76
1099696--1099935	126	1.9	126	90	1	383	33	15	22	27	1.95
1100711--1100751	17	2.4	17	91	0	64	14	17	34	34	1.90
1101765--1101813	21	2.3	21	82	3	53	48	12	36	2	1.52
1101764--1101818	12	4.8	12	76	13	62	49	12	36	1	1.52
1105695--1105732	16	2.3	16	95	4	67	26	7	28	36	1.84
1112164--1112190	12	2.2	12	100	0	54	33	0	14	51	1.43
1115673--1115728	8	7.5	8	75	22	59	78	0	8	12	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1115673--1115732	9	6.8	9	82	16	72	76	0	10	13	1.01
1116721--1117059	166	2.0	165	92	1	563	30	13	28	28	1.94
1116721--1117059	55	6.1	55	89	0	507	30	13	28	28	1.94
1120483--1120520	16	2.4	16	90	0	58	18	10	21	50	1.76
1121478--1121727	129	1.9	129	91	1	412	34	14	23	28	1.93
1122930--1122974	17	2.6	17	80	13	56	20	17	31	31	1.96
1129278--1129527	129	1.9	129	93	1	430	34	14	23	27	1.94
1130374--1130414	17	2.4	17	87	0	55	17	17	34	31	1.93
1131377--1131453	21	3.7	21	85	3	84	48	12	36	2	1.56
1131376--1131469	12	7.8	12	68	17	61	47	12	37	2	1.54
1133653--1133902	129	1.9	129	90	1	403	34	14	22	28	1.93
1134790--1134875	32	2.7	32	78	3	84	30	12	16	40	1.86
1136004--1136042	16	2.4	16	86	0	60	15	12	20	51	1.76
1136973--1137222	129	1.9	129	92	1	421	34	14	23	27	1.94
1138073--1138108	17	2.1	17	94	0	63	13	16	33	36	1.89
1139078--1139133	21	2.7	21	97	0	103	46	12	37	3	1.59
1139063--1139139	12	7.0	11	72	18	63	48	12	36	2	1.56
1139510--1139622	42	2.7	41	78	10	113	32	24	19	23	1.97
1140303--1140351	16	3.1	15	80	11	53	18	8	20	53	1.70
1140906--1141155	129	1.9	129	91	1	412	34	16	24	25	1.95
1142710--1142755	6	7.7	6	97	0	83	30	52	17	0	1.45
1144065--1144113	21	2.3	21	82	3	53	48	12	36	2	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1144064--1144118	12	4.8	12	76	13	62	49	12	36	1	1.52
1145296--1145343	16	3.0	16	84	0	60	16	10	18	54	1.70
1146292--1146541	129	1.9	129	92	1	421	34	14	23	27	1.94
1147428--1147513	32	2.7	32	78	3	84	30	12	16	40	1.86
1148644--1148682	16	2.4	16	86	0	60	15	12	20	51	1.76
1150940--1150994	13	4.2	13	72	22	53	32	1	0	65	1.03
1151174--1151421	137	1.8	136	91	2	410	25	11	4	58	1.53
1162060--1162179	60	2.0	62	85	6	165	49	12	26	11	1.75
1162916--1163469	105	5.3	104	91	3	823	34	24	18	23	1.96
1164775--1164829	13	4.2	13	72	22	53	32	1	0	65	1.03
1164927--1165002	38	2.0	37	82	12	93	21	9	1	68	1.25
1164986--1165267	142	2.0	142	92	0	467	26	11	4	58	1.51
1166803--1166835	17	1.9	17	93	0	57	15	12	33	39	1.84
1167853--1167929	21	3.7	21	85	3	84	48	12	36	2	1.56
1167852--1167945	12	7.8	12	68	17	61	47	12	37	2	1.54
1169119--1169166	16	3.0	16	84	0	60	16	10	18	54	1.70
1169829--1170078	129	1.9	129	91	1	412	34	15	23	26	1.94
1170978--1171050	32	2.3	32	80	4	85	34	12	13	39	1.82
1172184--1172222	16	2.4	16	86	0	60	15	12	20	51	1.76
1174478--1174532	13	4.2	13	72	22	53	32	1	0	65	1.03
1174663--1174710	18	2.6	19	75	18	55	25	6	2	66	1.26
1174694--1174974	140	2.0	142	91	1	458	25	11	4	58	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1185614--1185733	60	2.0	62	85	6	165	49	12	26	11	1.75
1186470--1187023	105	5.3	104	91	3	823	34	24	18	23	1.96
1188334--1188391	21	3.0	20	72	10	57	31	3	1	63	1.21
1188501--1188548	18	2.6	19	75	18	55	25	6	2	66	1.26
1188532--1188812	140	2.0	142	92	1	467	25	11	4	58	1.51
1190349--1190381	17	1.9	17	93	0	57	15	12	33	39	1.84
1191399--1191475	21	3.7	21	85	3	84	48	12	36	2	1.56
1191398--1191491	12	7.8	12	68	17	61	47	12	37	2	1.54
1192663--1192710	16	3.0	16	84	0	60	16	10	18	54	1.70
1193375--1193624	129	1.9	129	91	1	412	34	15	23	26	1.94

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15