genome.fa.s851.2.7.7.80.10.50.1000.24.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: VEPZ01000851.1 Hibiscus syriacus cultivar Beakdansim tig00001644_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7304151

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   

This is table  24  of  31  ( 3618 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)
5624930--5625033	45	2.3	45	86	0	136	31	17	19	31	1.95
5625051--5625148	45	2.2	45	90	0	151	30	17	19	32	1.95
5624843--5625230	121	3.2	121	88	1	578	32	18	19	29	1.95
5625092--5625305	76	2.9	75	87	3	315	33	19	19	27	1.96
5625238--5625350	45	2.5	45	88	4	156	31	20	19	28	1.97
5625166--5625426	120	2.1	121	89	3	391	34	17	19	28	1.95
5624777--5625480	196	3.6	195	83	5	827	33	18	19	29	1.95
5625284--5625479	76	2.6	76	86	4	299	34	17	19	28	1.95
5626158--5626215	22	2.6	22	97	0	107	36	13	17	32	1.89
5626581--5626907	54	6.1	54	90	0	438	26	20	14	38	1.91
5629627--5629695	23	3.0	23	84	0	93	26	24	27	21	1.99
5629905--5629973	30	2.3	30	87	0	93	33	20	4	42	1.72
5630316--5630368	20	2.7	20	100	0	106	30	32	16	20	1.95
5630337--5630449	58	1.9	59	84	8	151	23	23	21	32	1.98
5632033--5632279	132	1.9	132	94	0	440	32	20	15	31	1.94
5634316--5634422	45	2.4	44	81	10	128	64	6	10	18	1.46
5636751--5636775	2	12.5	2	100	0	50	52	0	0	48	1.00
5637331--5637380	23	2.2	22	83	13	66	48	2	2	48	1.24
5637611--5637662	2	26.0	2	96	0	95	48	0	0	51	1.00
5637977--5638022	2	23.0	2	100	0	92	50	0	0	50	1.00
5657418--5657446	2	14.5	2	100	0	58	48	0	0	51	1.00
5660383--5660481	29	3.4	29	77	12	89	74	3	7	15	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5660402--5660478	28	2.7	27	80	11	84	75	2	6	15	1.12
5660440--5660496	6	9.0	6	80	17	53	75	0	3	21	0.95
5660403--5660494	19	4.8	19	70	16	64	75	2	5	17	1.10
5660701--5660771	17	3.8	19	69	14	58	69	2	1	26	1.11
5660657--5660773	9	12.8	9	69	21	57	67	3	2	26	1.19
5660682--5660763	21	3.9	22	75	9	73	69	3	2	24	1.17
5661954--5662026	2	38.0	2	79	17	84	47	1	1	49	1.18
5663359--5663619	39	7.2	37	75	13	193	36	13	19	30	1.90
5663341--5663541	102	2.0	102	91	0	330	36	11	19	31	1.88
5663370--5663454	37	2.3	37	87	2	118	41	14	20	24	1.89
5663504--5663622	39	3.1	39	93	0	202	34	16	18	30	1.93
5668013--5668043	16	1.9	16	100	0	62	12	9	0	77	0.99
5668878--5668915	20	1.9	19	89	5	58	15	18	0	65	1.27
5671055--5671105	24	2.1	24	85	7	68	21	1	15	60	1.44
5678888--5678925	20	1.9	19	94	5	67	21	42	23	13	1.88
5679700--5679879	88	2.0	88	87	2	254	30	20	15	33	1.93
5684697--5684743	2	25.0	2	80	20	57	51	2	0	46	1.13
5689855--5689900	16	2.8	17	78	21	62	52	23	6	17	1.68
5690064--5690155	32	2.9	31	76	10	96	40	25	9	25	1.86
5691377--5691419	2	22.0	2	95	4	79	48	0	0	51	1.00
5694887--5694943	28	2.2	24	85	14	71	47	7	1	43	1.40
5697124--5697170	3	15.3	3	82	12	60	65	2	0	31	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5697411--5697702	51	5.5	51	82	8	327	27	25	14	32	1.94
5697392--5697831	55	8.2	54	79	8	393	30	23	13	32	1.94
5711078--5711103	4	6.5	4	100	0	52	76	0	0	23	0.78
5712629--5712681	3	17.3	3	81	11	63	64	1	0	33	1.05
5714537--5714582	2	23.0	2	100	0	92	50	0	0	50	1.00
5716181--5716216	2	18.0	2	100	0	72	50	0	0	50	1.00
5717013--5717125	57	2.0	58	92	1	192	29	13	19	38	1.90
5722360--5722413	24	2.4	24	84	9	69	40	1	0	57	1.09
5722360--5722398	21	1.9	21	89	5	62	38	2	0	58	1.12
5727498--5727562	19	3.4	19	93	0	112	20	23	33	23	1.97
5727554--5727742	65	2.9	64	83	7	199	31	15	22	31	1.95
5727576--5727761	65	2.9	64	79	8	191	32	15	20	31	1.94
5729803--5729882	13	6.7	11	73	13	61	51	1	8	38	1.41
5729813--5729883	13	5.8	13	87	12	114	50	0	8	40	1.33
5729803--5729883	24	3.4	24	96	0	144	50	1	8	39	1.41
5730422--5730475	20	2.5	20	85	11	63	29	18	22	29	1.97
5730380--5730475	44	2.2	44	82	12	110	28	19	21	30	1.98
5734253--5734292	21	1.9	21	85	10	55	35	7	2	55	1.42
5736239--5736372	64	2.1	65	81	6	157	30	14	23	31	1.95
5736275--5736395	65	1.9	64	85	1	170	29	13	23	33	1.92
5739037--5739117	23	3.6	23	72	11	69	28	19	24	27	1.99
5739041--5739137	44	2.2	44	83	10	119	28	19	22	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5761040--5761330	43	6.8	44	89	3	382	32	23	26	17	1.96
5764153--5764192	18	2.2	18	90	0	62	12	15	55	17	1.70
5764135--5764179	23	2.0	23	86	0	63	11	13	53	22	1.71
5766143--5766433	43	6.8	43	88	0	404	32	21	27	18	1.97
5769258--5769319	13	4.4	13	74	18	61	16	20	45	17	1.86
5769241--5769319	31	2.5	31	85	4	115	16	20	45	17	1.85
5769270--5769311	18	2.3	18	87	0	57	14	21	45	19	1.85
5771353--5771382	14	2.1	14	93	0	51	43	0	16	40	1.48
5771993--5772060	33	2.1	33	91	0	109	14	13	20	51	1.76
5786480--5786573	40	2.3	40	94	0	161	35	17	10	37	1.84
5786500--5786567	20	3.4	20	72	8	75	39	16	10	33	1.82
5791178--5791226	23	2.1	23	81	7	55	22	4	14	59	1.52
5794360--5795832	744	2.0	737	98	0	2856	30	16	20	31	1.95
5796130--5796183	27	2.0	27	85	7	74	37	25	18	18	1.94
5802240--5802288	23	2.1	23	85	7	64	26	2	14	57	1.48
5802780--5802815	11	3.3	11	92	0	54	22	11	2	63	1.39
5804800--5804853	2	27.0	2	92	0	90	50	3	0	46	1.19
5814956--5814994	16	2.3	17	86	8	53	33	15	0	51	1.44
5817690--5817740	22	2.3	22	96	0	93	37	23	15	23	1.93
5822676--5822718	22	2.0	22	100	0	86	39	4	13	41	1.66
5824944--5825222	30	9.3	30	97	0	506	30	24	22	22	1.99
5825208--5825272	31	2.1	31	85	5	87	35	23	20	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5825768--5825802	2	17.5	2	100	0	70	48	0	0	51	1.00
5826359--5826403	21	2.1	21	87	0	63	15	24	28	31	1.96
5829100--5829378	30	9.3	30	96	0	497	30	24	22	22	1.99
5829364--5829428	31	2.1	31	85	5	87	35	23	20	21	1.96
5830497--5830541	21	2.1	21	87	0	63	15	24	28	31	1.96
5831942--5832040	24	4.2	24	80	12	118	19	20	18	42	1.90
5831952--5832060	24	4.7	24	86	6	136	20	20	17	42	1.90
5831952--5832043	22	4.0	23	90	4	141	18	20	18	42	1.90
5836788--5836813	11	2.4	11	100	0	52	61	0	0	38	0.96
5837698--5837757	26	2.3	26	80	8	70	55	3	3	38	1.33
5838894--5838998	55	1.9	55	86	0	147	34	26	10	28	1.90
5840629--5840682	20	2.7	19	73	18	56	33	31	18	16	1.93
5840629--5840723	21	4.6	21	67	18	56	33	27	18	20	1.96
5840714--5840763	20	2.5	20	90	6	75	42	26	20	12	1.86
5840772--5840961	40	4.7	41	88	1	276	39	23	17	19	1.92
5840772--5840940	20	8.4	20	78	4	178	38	24	17	19	1.93
5840772--5840961	20	9.4	20	73	13	120	39	23	17	19	1.92
5840772--5840983	40	5.3	39	85	5	228	40	23	17	18	1.92
5840711--5840984	81	3.4	81	80	6	238	39	23	18	18	1.92
5840892--5841034	20	7.4	20	75	13	95	45	19	19	15	1.85
5842907--5843018	42	2.7	42	79	5	129	23	18	37	20	1.94
5843506--5843564	20	3.0	20	94	0	100	37	20	20	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5843598--5843642	19	2.4	19	88	0	63	13	15	26	44	1.83
5843644--5843715	17	3.8	19	76	10	67	12	19	19	48	1.80
5843779--5844158	94	4.1	94	93	1	611	48	17	12	21	1.80
5845830--5845956	19	6.8	19	77	12	120	44	20	20	14	1.86
5845968--5846045	20	3.8	20	78	9	86	11	16	19	52	1.74
5846605--5846760	20	7.7	20	71	13	122	19	16	22	41	1.90
5846627--5846799	20	8.6	20	69	11	102	20	15	23	40	1.91
5846749--5846803	21	2.6	21	85	5	67	21	12	25	40	1.89
5846606--5846799	40	4.8	42	83	4	247	20	15	23	41	1.90
5846788--5846837	20	2.5	20	83	6	66	14	16	24	46	1.83

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31