genome.fa.s9584.2.7.7.80.10.50.1000.4.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: VEPZ01009584.1 Hibiscus syriacus cultivar Beakdansim tig00116961_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2003061

Tables:   1   2   3   4   5   6   7   8   

This is table  4  of  8  ( 921 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)
848765--848802	19	2.0	19	89	0	58	31	0	18	50	1.47
848734--848941	75	2.8	73	78	10	217	30	2	12	54	1.51
848844--848880	19	1.9	19	88	0	56	37	2	16	43	1.62
848759--848945	75	2.5	74	82	5	220	30	1	14	52	1.51
849597--849665	14	4.8	14	69	23	54	20	7	0	72	1.08
850635--850679	13	3.5	13	96	0	81	28	22	17	31	1.97
850635--850686	13	4.0	13	94	0	77	26	25	17	30	1.97
850858--850920	2	31.5	2	100	0	126	49	0	0	50	1.00
853857--853891	16	2.2	16	89	0	52	31	20	17	31	1.95
853960--854019	2	30.0	2	100	0	120	50	0	0	50	1.00
855639--855667	15	1.9	15	100	0	58	34	44	20	0	1.52
868955--869059	24	4.2	25	79	14	112	82	0	14	2	0.77
868955--869075	42	2.8	43	85	8	149	80	0	15	3	0.83
868958--869051	18	5.3	18	77	11	95	82	0	13	3	0.78
868955--869033	1	79.0	1	73	0	50	84	0	12	2	0.71
868955--869051	8	11.6	8	77	20	101	83	0	13	3	0.76
869029--869077	12	3.8	12	77	15	53	73	0	22	4	1.00
868968--869059	26	3.5	28	76	12	56	81	0	15	3	0.81
870392--871204	54	15.1	54	84	1	909	32	19	24	23	1.97
878395--878438	22	2.1	20	83	8	52	54	4	2	38	1.33
889384--889427	22	2.0	22	86	0	61	11	15	40	31	1.83
889569--889622	3	18.0	3	100	0	108	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
901964--902008	23	2.0	23	90	0	72	2	13	4	80	0.97
902865--903221	134	2.7	132	77	7	346	23	18	30	27	1.98
903233--903567	131	2.5	131	79	6	338	41	13	18	26	1.87
903226--903580	196	1.8	196	84	3	491	40	13	19	26	1.88
903226--903612	65	5.9	65	78	6	347	41	13	18	26	1.87
903589--903649	30	2.0	30	87	6	88	36	14	11	37	1.83
909609--909660	22	2.5	20	79	11	59	0	13	7	78	0.94
910297--910359	2	31.5	2	100	0	126	50	0	0	49	1.00
911640--911683	22	2.0	22	86	4	63	43	9	13	34	1.76
919830--919862	16	2.1	16	100	0	66	33	6	24	36	1.80
923041--923085	13	3.6	13	79	11	58	0	15	4	80	0.87
923035--923085	24	2.2	22	86	10	75	0	13	3	82	0.81
924013--924295	134	2.1	134	83	3	347	24	18	29	28	1.98
924302--924671	65	5.6	65	78	6	354	41	14	18	25	1.88
931960--931984	11	2.3	11	100	0	50	20	8	44	28	1.79
932130--932176	3	15.7	3	95	0	85	63	0	0	36	0.94
942330--942374	20	2.2	20	100	0	90	46	35	4	13	1.63
943965--944043	25	3.2	25	98	0	149	53	7	7	31	1.57
947126--947162	19	1.9	19	94	0	65	21	37	16	24	1.93
947126--947269	65	2.2	64	81	6	166	29	27	15	27	1.96
947241--947289	19	2.6	19	84	9	57	24	30	18	26	1.98
969888--971004	55	20.7	55	82	7	269	28	27	13	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
969949--971012	108	9.8	107	92	1	1634	28	27	13	30	1.94
972328--972553	124	1.8	124	86	1	328	23	25	18	33	1.97
976203--976227	6	4.2	6	100	0	50	52	16	16	16	1.76
983526--983715	76	2.6	74	86	10	257	30	1	12	56	1.43
984306--984347	17	2.4	18	88	4	59	23	4	0	71	1.05
984372--984448	23	3.7	20	72	13	55	24	7	0	67	1.17
984391--984443	23	2.3	24	83	6	65	22	7	0	69	1.13
987330--987468	27	5.1	27	98	0	260	33	11	25	29	1.91
989998--990048	21	2.4	21	83	9	59	19	11	1	66	1.33
990015--990050	10	3.5	10	85	7	54	16	8	2	72	1.21
990072--990119	20	2.4	20	93	6	80	22	4	0	72	1.01
990215--990285	30	2.4	30	87	0	97	49	15	18	16	1.80
992034--992062	12	2.3	13	94	5	51	44	0	3	51	1.18
996969--997012	22	2.1	20	83	8	52	54	6	2	36	1.40
998034--998094	22	2.7	23	85	9	81	3	13	4	78	1.03
998719--998766	3	16.0	3	93	0	78	68	0	2	29	1.01
998952--999311	133	2.7	134	79	2	420	25	17	30	26	1.97
999313--999628	65	4.8	67	83	7	369	41	12	19	26	1.87
999314--999641	132	2.5	131	88	6	450	42	12	18	26	1.86
999314--999658	67	5.2	65	79	6	365	41	12	18	27	1.86
1000940--1001000	2	30.5	2	93	0	104	49	3	0	47	1.18
1003006--1003042	14	2.6	14	100	0	74	54	8	18	18	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1004444--1004515	18	4.0	18	96	0	135	48	5	5	40	1.50
1006851--1006887	3	12.3	3	100	0	74	67	0	0	32	0.91
1012291--1012399	24	4.5	24	73	12	80	52	14	11	21	1.73
1014243--1014276	11	3.1	11	100	0	68	17	20	35	26	1.95
1022072--1022110	12	3.2	12	88	0	60	25	5	17	51	1.66
1022133--1022162	15	1.9	16	93	6	53	6	16	20	56	1.62
1023388--1023437	26	1.9	26	87	0	73	32	18	20	30	1.96
1031788--1031826	11	3.5	11	89	0	60	30	25	12	30	1.93
1032245--1032386	59	2.4	59	83	6	164	31	22	10	35	1.88
1032358--1032504	59	2.5	59	90	6	235	27	23	10	38	1.88
1032270--1032634	59	6.2	58	79	8	215	30	22	10	36	1.89
1032299--1032633	177	1.9	176	81	5	408	30	21	10	37	1.88
1032976--1033136	63	2.5	62	79	11	175	25	22	19	32	1.97
1038988--1039026	11	3.5	11	85	0	60	30	25	15	28	1.96
1039468--1039580	59	1.9	59	89	3	174	33	19	12	34	1.89
1039524--1039819	59	5.0	59	79	6	205	29	21	10	37	1.88
1044013--1044074	19	3.2	19	71	11	54	19	24	6	50	1.71
1044123--1044904	136	5.8	136	88	1	1081	26	21	17	34	1.96
1044938--1045201	90	2.9	90	96	1	478	33	23	18	24	1.97
1045467--1045659	96	2.0	96	96	0	359	31	9	17	42	1.80
1054990--1055029	3	12.3	3	85	15	53	62	0	0	37	0.95
1063955--1063980	13	2.0	13	100	0	52	7	7	7	76	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1069008--1069176	87	1.9	87	90	0	266	28	19	20	31	1.97
1069132--1069463	120	2.8	120	84	2	416	28	19	21	31	1.97
1069867--1069984	37	3.2	37	82	5	132	35	15	17	31	1.91
1069942--1070102	68	2.4	68	87	4	220	38	14	18	28	1.90
1070095--1070346	65	3.7	65	82	9	256	37	11	23	27	1.89
1070219--1070591	36	10.5	36	81	7	395	38	12	23	26	1.90
1070477--1070606	65	2.0	65	87	0	188	38	13	20	27	1.90
1075780--1075848	32	2.1	34	84	10	90	21	1	10	66	1.29
1076596--1076668	19	3.7	20	77	14	71	24	6	0	68	1.14
1083833--1083869	19	1.9	19	88	0	56	37	2	16	43	1.62
1083747--1083937	76	2.6	74	82	5	226	30	1	13	55	1.45
1085501--1085632	59	2.2	59	86	0	174	31	25	15	28	1.96
1093829--1093885	23	2.5	23	80	11	55	5	14	3	77	1.08
1093820--1093885	12	5.4	11	76	18	51	6	15	3	75	1.11
1094670--1095074	134	3.0	134	82	2	440	25	16	30	27	1.97
1095107--1095265	50	3.1	50	83	7	187	42	11	20	25	1.85
1095255--1095365	36	3.2	36	70	18	108	39	17	18	24	1.92
1095208--1095402	67	2.9	65	83	4	230	41	15	17	26	1.89
1099568--1099613	19	2.3	19	85	7	56	43	6	6	43	1.56
1105854--1105888	17	2.0	18	88	5	54	0	11	14	74	1.08
1119772--1119845	16	4.7	15	75	14	60	36	2	1	59	1.20
1119848--1119879	15	2.1	15	94	0	55	12	9	0	78	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1119849--1119902	21	2.6	20	80	13	56	14	5	5	74	1.19
1119875--1119951	32	2.4	32	81	12	95	22	1	6	70	1.18
1130683--1130728	20	2.3	20	96	0	83	21	32	10	34	1.88
1131550--1131753	110	1.9	110	89	2	320	36	22	18	22	1.95
1133296--1133369	16	4.7	15	75	14	60	35	2	1	60	1.19
1138412--1138446	18	1.9	18	88	0	52	25	17	0	57	1.40
1142045--1142161	46	2.6	43	85	9	162	37	8	23	30	1.85
1142045--1142169	44	2.8	45	88	7	182	37	8	24	30	1.84
1143451--1143487	18	2.1	18	89	0	56	45	0	16	37	1.47
1150371--1150597	55	4.1	55	76	1	213	30	24	18	25	1.98

Tables:   1   2   3   4   5   6   7   8