genome.fa.s7963.2.7.7.80.10.50.1000.5.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: VEPZ01007963.1 Hibiscus syriacus cultivar Beakdansim tig00110392_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1627826

Tables:   1   2   3   4   5   6   7   

This is table  5  of  7  ( 819 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)
840438--840503	18	3.5	18	76	11	78	27	3	1	68	1.13
840434--840541	39	3.0	37	85	11	136	28	1	0	68	1.06
840492--840584	43	2.1	43	83	13	111	24	3	1	70	1.08
840455--840584	46	2.9	44	80	11	115	25	3	1	70	1.11
840749--840811	25	2.5	26	75	12	69	14	4	6	74	1.18
844717--844763	19	2.5	19	100	0	94	25	14	4	55	1.58
859205--859353	80	1.9	80	83	5	194	39	2	8	49	1.46
865336--865409	25	2.9	25	83	4	76	55	10	18	14	1.68
866532--866603	36	2.0	36	100	0	144	44	2	13	38	1.59
877647--877681	17	2.1	17	100	0	70	37	11	5	45	1.64
887187--887230	2	22.5	2	86	4	54	52	6	0	40	1.28
887621--887989	20	18.5	20	85	4	458	34	26	18	20	1.96
888798--889066	19	15.4	19	77	18	300	46	18	20	13	1.83
888826--889078	52	4.9	51	81	12	293	46	17	21	13	1.83
888865--889033	71	2.4	71	97	0	320	46	17	20	14	1.83
889026--889078	14	3.4	14	77	22	61	47	20	20	11	1.81
888798--889078	33	8.2	33	80	15	217	46	18	20	13	1.83
889076--889268	20	9.6	20	82	5	219	19	19	25	35	1.95
889076--889268	60	3.2	60	83	0	251	19	19	25	35	1.95
889324--889375	20	2.6	20	96	0	95	21	13	26	38	1.90
890981--891080	34	2.9	34	92	1	155	32	32	2	34	1.69
891185--891209	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
897808--898000	49	3.8	49	72	16	151	47	30	13	8	1.73
897825--898000	53	3.4	50	75	14	162	48	30	13	8	1.71
904339--904639	162	1.9	160	83	2	397	37	19	9	32	1.85
907732--907770	16	2.5	16	91	4	62	38	5	20	35	1.75
915264--915329	30	2.2	30	86	0	87	25	16	7	50	1.72
915839--915883	20	2.2	21	84	4	56	44	6	11	37	1.66
920007--920033	2	13.5	2	100	0	54	51	0	48	0	1.00
921848--921880	14	2.3	15	89	5	50	36	0	3	60	1.12
922237--922382	43	3.4	42	86	2	186	28	23	15	32	1.95
923244--923759	39	13.6	39	79	6	438	15	43	16	23	1.86
923548--923643	32	3.0	32	90	0	147	13	40	21	23	1.89
924882--924987	18	5.9	18	85	0	131	27	32	20	19	1.97
924882--924973	36	2.6	36	91	0	148	25	29	22	22	1.99
930457--931036	188	3.1	191	80	8	525	40	10	15	33	1.82
931748--931871	61	2.0	61	98	0	239	44	14	4	37	1.64
936465--936568	41	2.6	41	95	3	185	11	22	13	52	1.72
943471--943542	32	2.2	32	92	0	117	50	2	13	33	1.57
943640--943713	32	2.3	32	92	0	121	36	2	21	39	1.68
952392--952422	15	2.0	16	93	6	55	41	6	6	45	1.55
960829--960881	21	2.5	22	77	20	60	28	5	1	64	1.27
963530--963562	16	2.1	16	100	0	66	45	18	0	36	1.49
965406--965454	24	2.0	24	88	7	73	38	4	4	53	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
965625--965663	20	2.0	20	84	0	51	23	5	23	48	1.70
965863--965900	20	1.9	20	88	0	58	13	26	36	23	1.91
971701--971750	25	2.0	25	100	0	100	56	24	4	16	1.57
974135--974364	83	2.8	82	83	5	290	45	11	3	40	1.55
976276--976345	38	1.9	36	91	8	115	61	4	1	32	1.24
976308--976384	26	2.7	27	90	9	111	62	3	1	32	1.22
977147--977200	17	3.3	17	76	10	58	33	3	12	50	1.59
984259--984492	114	2.1	114	95	0	414	30	21	18	29	1.97
985435--985714	114	2.5	114	82	1	337	28	32	14	23	1.94
990333--990360	4	7.0	4	100	0	56	25	0	25	50	1.50
990604--990672	27	2.6	27	100	0	138	40	26	17	15	1.89
990969--991085	33	3.5	33	89	0	171	29	18	33	17	1.95
991625--991981	57	6.1	58	77	6	319	47	15	22	13	1.81
991627--991980	117	3.0	113	79	6	343	48	15	22	13	1.80
993864--993900	19	1.9	19	88	0	56	16	8	2	72	1.19
1004936--1004971	16	2.2	17	90	5	56	27	5	13	52	1.63
1007468--1007534	37	1.9	36	85	14	97	61	4	2	31	1.31
1009930--1009996	33	2.0	33	97	0	125	32	28	2	35	1.72
1015531--1015575	24	1.9	24	90	4	74	11	20	17	51	1.75
1022257--1022735	237	2.0	240	97	2	903	30	13	17	38	1.88
1023952--1024043	27	3.3	26	75	14	94	11	46	16	25	1.81
1023981--1024253	30	9.2	30	77	13	228	12	48	14	24	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1025155--1025180	2	13.0	2	100	0	52	50	0	0	50	1.00
1033532--1033607	31	2.3	34	76	15	88	25	25	21	28	1.99
1036588--1036638	21	2.4	21	90	3	84	33	17	17	31	1.94
1036726--1036770	20	2.2	21	80	8	56	51	11	13	24	1.73
1036735--1036781	20	2.3	20	92	0	76	46	14	17	21	1.83
1036973--1037035	28	2.2	28	91	0	99	19	25	20	34	1.96
1037204--1037298	36	2.6	36	91	0	145	31	23	25	20	1.98
1039683--1039725	20	2.2	20	86	0	59	41	18	13	25	1.88
1039719--1039785	21	3.2	21	79	6	64	32	29	11	25	1.92
1039824--1039869	20	2.3	20	100	0	92	36	15	17	30	1.91
1039862--1039976	20	5.8	20	94	2	180	26	20	17	35	1.95
1040011--1040051	20	2.0	20	95	0	73	26	12	19	41	1.87
1040146--1040188	20	2.2	20	91	4	70	23	27	23	25	2.00
1040223--1040256	11	2.8	13	82	17	54	23	0	0	76	0.79
1040230--1040257	11	2.5	11	100	0	56	25	0	0	75	0.81
1040645--1040729	32	2.7	31	75	8	82	43	2	3	50	1.32
1040943--1040988	21	2.1	22	84	4	58	54	0	8	36	1.32
1042334--1043630	228	5.7	227	88	1	1652	28	23	26	22	1.99
1044192--1044263	29	2.4	30	83	2	92	27	2	11	58	1.46
1044318--1044368	23	2.2	23	89	0	75	33	1	7	56	1.39
1045320--1045366	23	2.0	23	95	0	85	36	0	23	40	1.55
1052959--1052994	10	3.6	10	92	0	63	33	19	8	38	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1055183--1055237	22	2.4	24	80	14	64	50	1	1	45	1.22
1073366--1073467	18	5.7	17	72	19	75	54	1	1	41	1.22
1079702--1079767	28	2.4	28	89	5	98	15	9	28	46	1.76
1080417--1080493	21	3.6	22	81	6	97	19	24	18	37	1.94
1081027--1081098	20	3.6	19	79	5	72	52	18	15	13	1.74
1081042--1081105	21	3.1	21	80	6	69	53	17	18	10	1.72
1081082--1081162	33	2.5	33	89	0	117	46	20	19	12	1.82
1081163--1081251	20	4.8	20	73	18	77	12	22	19	46	1.83
1083054--1083403	94	3.7	94	94	0	603	20	11	19	48	1.80
1082944--1083403	188	2.5	179	89	5	678	21	12	19	47	1.81
1083485--1083605	20	6.2	19	87	4	161	50	22	19	7	1.72
1083485--1083615	39	3.4	38	87	4	172	48	22	19	9	1.76
1083485--1083605	58	2.1	59	87	4	174	50	22	19	7	1.72
1083612--1083718	19	5.8	19	70	12	89	13	21	19	45	1.84
1084119--1084207	42	2.1	42	78	0	97	22	38	15	23	1.93
1085590--1085625	14	2.6	14	95	0	63	33	0	22	44	1.53
1085763--1085801	19	2.1	19	95	0	69	51	25	12	10	1.71
1085807--1085932	33	3.8	33	92	0	207	12	22	18	46	1.82
1085874--1085932	19	3.4	19	66	22	56	13	20	18	47	1.82
1085905--1085959	20	2.8	19	83	2	65	18	21	21	38	1.94
1089342--1089429	20	4.3	20	88	7	124	35	18	19	27	1.95
1089353--1089479	21	6.5	21	76	14	110	37	17	21	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1089378--1089484	56	1.9	55	86	1	151	37	16	23	22	1.94
1097140--1097196	21	2.7	21	94	0	96	45	7	12	35	1.69
1106030--1106067	20	2.0	19	85	10	51	50	10	13	26	1.73
1106373--1106427	19	2.8	18	77	17	56	61	1	1	34	1.17
1106375--1106431	21	2.6	21	81	13	62	61	1	1	35	1.17
1107521--1107589	28	2.6	25	79	16	77	40	2	1	55	1.24
1107533--1107586	18	2.9	18	76	15	56	37	3	0	59	1.15
1112115--1112226	58	1.9	58	94	0	197	39	23	12	25	1.89
1118837--1118868	2	16.0	2	100	0	64	50	0	0	50	1.00
1119635--1119687	20	2.7	20	100	0	106	49	0	3	47	1.19

Tables:   1   2   3   4   5   6   7