genome.fa.s8323.2.7.7.80.10.50.1000.24.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: VEPZ01008323.1 Hibiscus syriacus cultivar Beakdansim tig00111027_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5101972

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   

This is table  24  of  26  ( 3017 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)
4783944--4784011	31	2.2	31	94	0	118	23	26	13	36	1.92
4785782--4785859	31	2.5	31	87	4	113	33	16	26	23	1.96
4790007--4790047	17	2.4	17	87	0	55	14	24	31	29	1.95
4791467--4791541	24	3.1	24	86	0	114	25	18	17	38	1.92
4796180--4796281	24	4.2	24	81	5	107	26	14	17	41	1.88
4800961--4801048	24	3.7	24	81	7	99	23	17	19	39	1.92
4800954--4801048	48	2.0	48	81	8	113	23	15	18	42	1.89
4804073--4804174	24	4.2	24	82	5	116	27	16	16	39	1.90
4808731--4808815	24	3.5	24	85	0	107	25	20	20	34	1.96
4808721--4808776	24	2.3	24	93	0	94	23	17	19	39	1.92
4808990--4809040	2	25.5	2	100	0	102	49	0	0	50	1.00
4813339--4813390	2	26.0	2	100	0	104	50	0	0	50	1.00
4814997--4815051	28	2.0	29	85	7	78	43	3	20	32	1.69
4818921--4819022	31	3.3	32	84	6	138	39	12	7	40	1.72
4819211--4819288	31	2.5	31	87	0	111	33	7	17	41	1.79
4822878--4822916	2	19.5	2	94	0	69	53	0	0	46	1.00
4823074--4823143	24	2.9	24	71	0	68	54	14	11	20	1.70
4827552--4827586	10	3.5	10	92	0	52	54	0	2	42	1.15
4827749--4827841	12	7.8	12	70	13	66	48	16	15	20	1.81
4827749--4827818	24	2.9	24	80	0	86	51	15	14	18	1.77
4827745--4827838	48	2.0	48	85	4	127	48	14	14	21	1.80
4827781--4827855	24	3.1	24	75	7	64	46	16	17	20	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4830328--4830352	13	1.9	13	100	0	50	20	24	40	16	1.91
4833240--4833289	16	3.2	16	75	11	50	60	4	8	28	1.43
4833404--4833505	13	7.2	13	73	16	69	49	4	3	42	1.43
4833403--4833438	18	1.9	19	94	5	65	50	5	0	44	1.25
4833408--4833448	18	2.2	18	86	8	55	51	4	0	43	1.23
4833433--4833612	15	12.7	15	66	23	61	50	2	3	44	1.31
4833404--4833504	28	3.5	28	80	9	98	48	4	3	42	1.43
4833426--4833505	13	5.8	13	76	11	70	48	5	5	41	1.46
4833513--4833593	14	5.9	13	76	20	60	49	1	1	48	1.17
4833542--4833664	2	65.5	2	66	23	63	47	0	4	46	1.29
4833521--4833601	41	2.1	36	82	11	90	49	1	1	48	1.17
4833509--4833615	55	1.9	58	90	5	175	49	0	1	47	1.18
4833595--4833662	36	1.9	34	85	5	91	47	1	7	44	1.40
4833910--4833995	25	3.3	26	79	11	77	46	8	8	37	1.63
4833946--4833990	13	3.3	13	85	11	63	51	11	0	37	1.38
4833941--4833981	15	2.7	15	92	3	64	48	7	2	41	1.44
4833946--4833990	15	3.1	15	84	12	67	51	11	0	37	1.38
4834182--4834289	2	53.0	2	78	10	103	48	3	3	44	1.38
4834314--4834404	21	4.3	20	71	16	67	38	6	7	47	1.58
4834371--4834636	65	4.0	66	77	13	255	42	4	4	48	1.43
4834380--4834672	31	9.3	30	73	19	106	43	4	3	48	1.39
4834357--4834520	21	7.6	21	65	21	61	41	6	4	47	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4834357--4834618	131	2.0	131	82	9	320	42	6	4	47	1.47
4834591--4834642	21	2.5	20	82	17	63	48	0	1	50	1.12
4834591--4834668	6	13.3	6	74	23	53	47	0	1	51	1.09
4834580--4834697	43	2.8	40	75	18	116	48	0	1	49	1.17
4834580--4834696	28	4.3	27	76	18	93	48	0	1	48	1.17
4834616--4834696	28	3.1	27	84	8	105	48	0	1	50	1.08
4835391--4835466	25	3.1	25	74	12	77	44	38	5	11	1.64
4835635--4835672	19	2.0	20	89	5	60	21	0	5	73	1.02
4837673--4837697	10	2.5	10	100	0	50	56	12	8	24	1.62
4843550--4843687	39	3.6	38	81	7	152	33	25	26	14	1.94
4843651--4843826	44	4.0	42	83	9	190	33	23	25	17	1.96
4843651--4843826	88	2.0	90	85	6	243	33	23	25	17	1.96
4846460--4846505	23	2.0	24	95	4	85	52	4	0	43	1.21
4846801--4846855	16	3.4	16	73	9	58	34	16	29	20	1.94
4851940--4851989	21	2.4	21	100	0	100	38	28	10	24	1.87
4852651--4853074	222	1.9	221	91	2	690	25	17	19	37	1.93
4856944--4856984	17	2.4	17	84	8	57	68	0	29	2	1.03
4868159--4868195	17	2.1	18	90	5	58	54	0	2	43	1.14
4868264--4868369	2	53.0	2	100	0	212	50	0	0	50	1.00
4882611--4882759	38	4.0	37	71	13	108	38	14	15	32	1.87
4882627--4882787	37	4.4	36	72	13	123	37	15	16	30	1.90
4888089--4888135	25	1.9	24	83	12	60	42	17	0	40	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4888564--4888606	20	2.1	20	86	4	59	74	6	0	18	1.04
4888731--4888824	37	2.6	36	78	15	104	69	4	4	22	1.24
4897720--4897761	21	2.0	21	90	0	66	30	21	11	35	1.90
4903081--4903153	35	2.1	36	85	12	98	31	27	13	27	1.94
4912999--4913082	31	2.7	32	79	3	100	28	29	26	15	1.96
4920146--4920192	20	2.4	19	82	10	67	53	10	17	19	1.72
4920155--4920197	20	2.3	19	88	11	63	51	11	16	20	1.75
4922422--4922486	21	3.1	21	80	6	69	40	15	29	15	1.88
4922519--4922584	33	2.0	33	87	0	96	27	0	48	24	1.51
4924375--4924414	19	2.2	19	90	4	64	30	2	10	57	1.45
4924535--4925490	198	4.8	199	96	1	1764	36	15	16	31	1.90
4924535--4925490	395	2.4	396	98	1	1837	36	15	16	31	1.90
4926957--4927015	12	4.9	12	93	0	73	35	6	33	23	1.82
4926969--4927028	3	20.0	3	85	0	84	36	3	33	26	1.73
4926954--4927027	18	4.1	18	87	0	85	37	5	33	22	1.77
4928450--4929677	183	6.8	183	94	2	2142	35	14	15	33	1.89
4928450--4929677	364	3.4	365	94	1	2131	35	14	15	33	1.89
4932436--4932490	23	2.4	23	90	0	83	36	7	18	38	1.78
4932680--4932728	24	2.0	24	88	7	73	34	8	18	38	1.80
4933222--4933307	39	2.2	39	93	2	147	47	20	13	17	1.82
4933701--4933772	23	3.2	22	90	4	99	34	4	22	38	1.73
4944263--4944419	57	2.8	55	84	7	201	31	8	14	45	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4945184--4945399	118	1.8	119	89	1	344	36	14	23	26	1.93
4945231--4945819	282	2.1	282	84	3	747	35	17	21	26	1.95
4948260--4948300	20	2.0	20	85	9	55	19	4	7	68	1.32
4955608--4955660	24	2.2	24	100	0	106	24	22	28	24	2.00
4955660--4955694	17	2.1	17	94	0	61	42	25	5	25	1.77
4955642--4955769	63	2.0	63	86	0	175	32	23	16	27	1.96
4955723--4955757	17	2.1	17	94	0	61	34	28	14	22	1.93
4957862--4957905	19	2.3	19	92	0	79	9	13	38	38	1.77
4958024--4958066	17	2.4	18	85	14	54	20	4	11	62	1.46
4958346--4958452	7	15.3	7	79	0	79	42	29	1	25	1.65
4958345--4958448	35	3.0	35	78	4	111	43	28	1	25	1.66
4958530--4958559	14	2.1	14	93	0	51	43	0	6	50	1.28
4958651--4958701	22	2.3	22	89	0	75	25	27	23	23	2.00
4958822--4958855	14	2.4	14	100	0	68	38	5	35	20	1.77
4961148--4961190	22	2.0	22	86	4	61	44	18	30	6	1.76
4959058--4961998	856	3.5	841	77	8	2874	43	15	14	26	1.84
4966044--4966070	12	2.2	12	100	0	54	44	0	7	48	1.31
4966044--4966081	18	2.1	19	85	5	51	44	2	7	44	1.47
4973167--4973203	16	2.2	18	85	9	51	35	2	13	48	1.57
4975193--4975245	18	2.9	18	94	0	88	26	33	20	18	1.96
4982253--4982302	24	2.1	24	85	7	66	60	14	2	24	1.45
4992498--4992547	24	2.1	24	85	7	66	60	14	2	24	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4994570--4994692	63	2.0	63	85	3	167	25	18	17	38	1.93
5000189--5000214	3	8.7	3	100	0	52	69	30	0	0	0.89
5000429--5000467	14	2.8	14	84	0	51	35	28	12	23	1.91
5002702--5002748	2	24.0	2	86	4	69	48	2	0	48	1.13
5004643--5004708	16	4.1	16	69	11	55	24	19	18	37	1.93
5004876--5004946	22	3.3	22	76	5	74	36	12	0	50	1.41
5004868--5004903	14	2.6	14	86	13	56	38	8	0	52	1.32
5004934--5004975	2	21.0	2	81	18	52	47	2	2	47	1.28
5004986--5005969	529	1.9	521	90	3	1540	48	5	13	32	1.67
5005977--5007180	6	206.5	6	91	8	2026	33	0	17	49	1.46

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