genome.fa.s9614.2.7.7.80.10.50.1000.5.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: VEPZ01009614.1 Hibiscus syriacus cultivar Beakdansim tig00117000_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2129691

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  5  of  10  ( 1149 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)
855231--855265	5	6.6	5	96	3	52	25	54	20	0	1.45
855750--855785	6	6.0	6	96	0	63	0	19	47	33	1.50
855742--855785	18	2.6	18	85	7	65	0	22	43	34	1.54
857184--857223	20	2.0	20	95	0	71	45	10	7	37	1.66
858965--859185	122	1.8	119	88	2	334	33	5	11	50	1.61
859231--859325	42	2.3	42	87	3	129	20	17	15	46	1.84
859524--859601	23	3.5	21	74	17	61	48	1	0	50	1.09
860677--860715	15	2.6	16	92	8	64	61	23	5	10	1.48
862235--862311	23	3.3	23	89	3	111	27	19	32	20	1.97
862218--862322	23	4.7	23	83	6	110	24	21	29	23	1.99
866184--866405	117	1.9	117	82	5	279	28	14	9	47	1.75
867610--867659	24	2.1	24	85	7	66	60	14	2	24	1.45
877768--877817	24	2.1	24	85	7	66	60	14	2	24	1.45
882107--882156	24	2.1	24	85	7	66	60	14	2	24	1.45
883880--883916	17	2.1	18	95	5	67	48	5	5	40	1.49
883907--883987	19	4.3	19	72	14	62	49	2	1	46	1.23
883982--884026	23	2.0	23	81	0	54	51	2	4	42	1.34
884160--884201	22	1.9	22	85	9	59	52	0	2	45	1.13
884373--884431	14	4.1	14	80	4	73	35	18	6	38	1.78
884371--884429	29	2.0	29	93	0	100	32	18	8	40	1.81
885608--885643	18	2.0	18	94	0	63	47	0	0	52	1.00
887572--887651	37	2.2	37	93	0	133	48	7	11	32	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
887737--887787	26	2.0	25	92	3	84	35	7	23	33	1.84
904447--904504	28	2.1	28	100	0	116	32	17	29	20	1.95
909912--909949	19	2.0	20	84	5	51	23	10	18	47	1.79
911763--911835	23	3.3	23	82	3	96	31	23	21	23	1.98
911942--911995	18	3.0	18	97	0	99	35	33	20	11	1.88
911838--912098	139	1.9	139	94	1	461	36	24	14	24	1.92
911978--912203	103	2.2	103	95	0	416	37	24	12	25	1.90
913381--913425	21	2.1	21	87	0	63	15	24	28	31	1.96
917360--917420	23	2.7	23	80	10	79	27	27	24	19	1.99
917531--917566	18	2.0	18	100	0	72	33	33	22	11	1.89
917427--917790	121	3.0	121	97	0	665	36	24	14	24	1.93
917655--917691	18	2.1	18	95	5	67	35	35	16	13	1.88
918970--919014	21	2.1	21	87	0	63	15	24	28	31	1.96
920809--920862	26	2.1	26	89	0	81	38	20	11	29	1.87
925738--925792	25	2.2	26	75	21	64	30	1	1	65	1.13
925727--925788	21	3.0	20	76	21	56	33	1	1	62	1.14
929587--929617	14	2.2	14	94	0	53	61	6	0	32	1.21
929612--929661	19	2.6	19	73	17	50	52	4	0	44	1.20
929791--929840	21	2.5	21	90	6	77	70	4	0	26	1.05
929845--929875	16	2.0	16	93	6	55	64	0	3	32	1.09
929845--929889	15	2.9	15	83	6	54	66	0	2	31	1.04
930166--930251	29	2.9	30	87	3	122	15	32	29	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
935748--935800	18	3.0	19	79	15	53	58	0	3	37	1.16
935752--935779	13	2.2	13	100	0	56	60	0	7	32	1.24
935758--935835	16	4.7	17	76	19	60	56	1	2	39	1.21
937113--937145	14	2.3	15	89	5	50	42	0	9	48	1.35
940110--940282	7	24.6	7	71	8	73	47	30	0	22	1.52
940110--940199	35	2.5	35	81	10	112	48	32	0	18	1.49
940108--940282	21	8.3	21	70	10	106	46	30	0	22	1.52
940111--940276	63	2.6	63	83	4	199	47	30	0	22	1.51
940402--940439	15	2.7	14	84	11	51	52	2	2	42	1.29
940547--940587	14	3.1	14	76	20	52	41	0	4	53	1.22
945076--945104	12	2.3	13	94	5	51	48	0	31	20	1.50
945853--945893	2	21.0	2	95	5	75	48	0	0	51	1.00
947573--947599	8	3.4	8	100	0	54	77	0	22	0	0.76
948885--949209	162	2.0	162	100	0	650	31	26	15	27	1.96
953061--953096	2	18.0	2	100	0	72	50	0	0	50	1.00
957670--957761	13	7.2	13	73	10	66	80	5	3	10	0.99
957675--957776	8	12.1	8	75	19	68	81	3	4	9	0.97
957657--957775	18	6.9	17	75	15	61	78	4	5	10	1.05
957682--957776	26	3.5	26	77	12	86	81	4	5	9	0.98
957852--957894	14	3.2	13	86	6	50	76	0	2	20	0.89
958997--959023	4	6.8	4	100	0	54	77	0	0	22	0.76
959021--959046	13	2.0	13	100	0	52	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
959114--959411	36	8.2	36	71	19	187	44	6	3	45	1.47
959114--959284	38	4.5	39	81	10	192	45	5	3	45	1.43
959114--959284	75	2.2	76	84	10	215	45	5	3	45	1.43
959242--959298	27	2.0	27	83	6	69	45	5	5	43	1.49
959168--959369	37	5.9	35	75	18	133	46	5	3	45	1.43
959169--959381	100	2.1	99	88	5	313	45	5	3	45	1.45
959141--959408	137	1.9	140	83	10	356	45	6	3	44	1.47
959271--959413	39	3.9	37	82	9	152	43	7	4	44	1.52
959396--959425	2	15.5	2	93	6	53	46	0	0	53	1.00
961440--961478	12	3.2	13	82	10	55	76	0	0	23	0.78
963687--963798	57	2.0	57	100	0	224	30	29	10	29	1.91
966307--966331	7	3.6	7	100	0	50	24	0	0	76	0.80
969290--969657	140	2.6	143	81	6	417	45	7	8	38	1.64
971170--971233	3	21.0	3	81	9	76	60	1	0	37	1.06
971170--971217	11	4.5	11	89	10	73	62	2	0	35	1.07
971403--972217	76	10.9	76	94	3	1433	34	21	19	23	1.96
972634--972685	22	2.4	22	90	0	77	40	11	9	38	1.74
975231--975566	115	3.0	114	89	3	495	31	20	15	32	1.94
976392--976477	43	2.0	43	100	0	172	18	20	23	37	1.94
977595--977624	15	1.9	16	93	6	53	0	20	0	80	0.72
978347--978390	19	2.3	19	100	0	88	36	20	4	38	1.73
982083--982149	15	4.3	15	77	15	57	71	0	2	25	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
982075--982149	31	2.4	32	79	18	79	70	0	2	26	1.00
982075--982122	15	3.1	15	84	3	60	72	0	0	27	0.84
984457--984525	3	22.3	3	82	5	84	59	1	0	39	1.06
984798--985112	157	2.0	157	100	0	630	41	12	13	32	1.82
987223--987279	17	3.4	17	90	0	78	33	15	12	38	1.85
987286--987344	17	3.5	17	68	13	50	30	13	8	47	1.73
992455--992497	22	2.0	23	86	9	63	20	4	0	74	1.00
992462--992546	17	4.8	17	71	17	50	22	2	2	72	1.07
992470--992541	8	9.1	8	74	21	55	22	2	2	72	1.11
996104--996148	21	2.1	21	91	0	72	33	28	22	15	1.95
996572--996628	20	2.7	22	78	15	66	43	5	14	36	1.67
997156--997342	31	6.0	31	97	1	340	19	19	22	38	1.93
1000359--1000403	21	2.1	21	87	0	63	31	28	24	15	1.96
1000831--1000887	20	2.7	22	78	15	66	43	5	14	36	1.67
1001417--1001572	31	5.0	31	96	1	278	19	19	23	38	1.93
1003243--1004646	165	8.5	164	79	5	1225	30	24	19	25	1.98
1003243--1004448	249	4.8	249	85	2	1462	30	24	19	25	1.98
1003243--1004643	414	3.4	413	85	3	1695	30	24	19	25	1.98
1003243--1004646	249	5.6	247	84	3	1412	30	24	19	25	1.98
1006112--1006193	27	3.1	26	68	25	64	20	2	2	74	1.05
1013726--1013804	41	1.9	41	92	0	131	53	0	12	34	1.39
1018568--1018678	48	2.3	48	84	9	138	20	14	15	49	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1018568--1018678	24	4.6	24	80	6	111	20	14	15	49	1.79
1018610--1018673	12	5.3	12	72	7	58	15	14	17	53	1.74
1022375--1022452	24	3.3	23	77	8	77	37	1	3	57	1.25
1022427--1022485	19	3.3	19	68	20	54	42	0	1	55	1.09
1022611--1022659	24	2.0	25	88	7	75	40	0	2	57	1.10
1029853--1030062	35	5.8	36	82	13	245	48	4	4	43	1.42
1030028--1030092	24	2.5	26	75	12	71	44	0	4	50	1.22
1030028--1030082	24	2.3	24	80	0	74	43	0	3	52	1.18
1030109--1030148	4	10.5	4	89	10	66	22	0	0	77	0.77
1031302--1031355	24	2.2	24	87	6	74	24	7	3	64	1.35

Tables:   1   2   3   4   5   6   7   8   9   10