genome.fa.s8105.2.7.7.80.10.50.1000.25.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: VEPZ01008105.1 Hibiscus syriacus cultivar Beakdansim tig00110637_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5962497

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   

This is table  25  of  30  ( 3521 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)
4772837--4772966	64	2.0	64	100	0	260	29	11	26	33	1.91
4779236--4779262	4	6.8	4	100	0	54	48	0	25	25	1.52
4781152--4781195	18	2.4	18	88	3	61	63	4	18	13	1.46
4782745--4782806	17	3.6	17	95	0	115	20	17	40	20	1.92
4782858--4782908	25	2.0	25	92	0	84	27	13	21	37	1.91
4783595--4783675	38	2.1	38	86	0	108	29	12	19	38	1.89
4783838--4783971	38	3.3	38	81	13	160	23	9	26	40	1.85
4783840--4783978	45	3.2	45	80	13	157	22	9	28	40	1.85
4785895--4785985	31	3.0	30	83	4	119	35	5	13	46	1.66
4788206--4788243	16	2.3	17	86	4	51	36	0	0	63	0.95
4788448--4788506	31	1.9	31	89	3	93	42	5	15	37	1.69
4788831--4788873	4	10.8	4	82	9	52	20	0	4	74	1.00
4789875--4789914	2	20.0	2	100	0	80	50	0	0	50	1.00
4797203--4797239	19	1.9	19	88	0	56	13	27	35	24	1.93
4805451--4805493	14	3.1	15	83	12	56	46	4	13	34	1.65
4805957--4806005	20	2.5	20	86	0	71	20	18	36	24	1.94
4812733--4812799	20	3.2	20	76	15	64	49	13	13	23	1.77
4816912--4816942	15	2.1	15	93	0	53	6	22	3	67	1.28
4825189--4825218	2	15.0	2	92	0	51	46	0	3	50	1.18
4827278--4827318	3	14.0	3	89	5	66	0	29	0	70	0.87
4829568--4829622	28	1.9	29	85	10	78	54	5	3	36	1.41
4829956--4829999	23	2.0	22	86	4	61	52	4	4	38	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4832762--4832884	64	1.9	64	85	3	167	32	12	21	33	1.91
4835100--4835150	23	2.2	23	82	10	59	21	1	9	66	1.31
4835100--4835143	23	1.9	23	85	0	61	25	2	9	63	1.35
4841385--4841542	64	2.5	62	77	7	158	31	12	21	35	1.90
4842358--4842418	31	1.9	32	93	3	106	40	1	3	54	1.27
4842729--4842753	12	2.1	12	100	0	50	32	16	0	52	1.44
4845073--4845194	35	3.7	34	71	19	116	37	15	19	27	1.92
4845073--4845198	63	2.0	63	88	0	189	38	15	19	26	1.92
4845135--4845204	35	2.0	35	85	2	95	35	15	18	30	1.92
4846696--4846759	27	2.4	27	97	0	119	28	28	4	39	1.77
4850669--4850709	20	2.0	20	86	9	57	29	9	2	58	1.43
4856238--4856601	179	2.0	181	89	2	563	30	15	19	33	1.94
4860481--4860533	25	2.1	25	100	0	106	39	11	16	32	1.85
4861215--4861259	22	2.0	23	86	8	65	51	13	0	35	1.41
4865109--4865133	12	2.1	12	100	0	50	44	8	24	24	1.80
4867130--4867211	23	3.8	22	84	6	96	23	32	25	18	1.97
4869446--4869480	18	2.1	17	89	10	54	34	0	42	22	1.54
4872661--4872773	58	1.9	58	87	0	163	26	23	11	38	1.88
4878965--4879162	22	8.6	22	71	23	124	45	1	7	44	1.41
4878977--4879123	21	6.6	21	70	22	86	46	2	8	43	1.45
4879035--4879082	17	2.7	18	83	9	62	50	2	8	39	1.44
4879056--4879106	27	1.9	26	92	4	84	47	3	3	45	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4878969--4879136	45	3.8	44	74	18	150	45	1	8	44	1.44
4878969--4879162	43	4.2	46	75	13	177	45	1	7	44	1.41
4879103--4879171	27	2.4	30	79	13	83	42	0	7	50	1.30
4885794--4886075	143	2.0	144	85	2	379	31	14	17	36	1.90
4885794--4886058	72	3.7	72	84	6	304	31	14	17	36	1.90
4887223--4887272	21	2.4	21	93	0	82	26	22	12	40	1.88
4888583--4888612	14	2.1	14	100	0	60	46	20	13	20	1.83
4889741--4889956	48	4.8	45	80	9	242	40	7	18	32	1.79
4889741--4889943	91	2.2	91	97	0	379	40	7	18	33	1.79
4896692--4896907	48	4.7	46	79	9	237	40	7	18	33	1.78
4896692--4896892	91	2.2	91	95	0	366	40	7	17	33	1.79
4898104--4898137	17	2.1	17	88	5	52	58	2	0	38	1.13
4901412--4901462	18	2.8	19	85	8	70	52	0	35	11	1.38
4911626--4911659	17	2.0	17	100	0	68	47	0	41	11	1.40
4912909--4912947	2	19.5	2	100	0	78	48	0	0	51	1.00
4912947--4912976	2	15.0	2	100	0	60	0	0	50	50	1.00
4912992--4913028	16	2.3	16	90	0	56	5	18	45	29	1.72
4913213--4913237	2	12.5	2	100	0	50	48	0	0	52	1.00
4919525--4919563	14	2.8	14	85	11	53	23	7	28	41	1.82
4923570--4923601	2	16.5	2	93	6	57	0	46	0	53	1.00
4923570--4923599	15	2.0	15	100	0	60	0	46	0	53	1.00
4923738--4923925	95	2.0	95	88	0	277	35	8	12	43	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4927066--4927091	13	2.0	13	100	0	52	53	0	7	38	1.30
4927490--4927602	36	3.1	36	67	16	97	39	13	16	30	1.87
4927436--4927761	73	4.5	73	92	0	501	39	11	17	31	1.85
4929119--4929168	23	2.1	24	85	10	68	32	30	10	28	1.89
4929241--4929488	52	4.8	51	86	2	309	22	23	17	36	1.95
4930974--4931088	5	23.2	5	74	13	80	1	20	0	78	0.84
4930972--4931055	7	12.6	7	81	8	70	0	20	0	79	0.73
4930971--4931090	28	4.4	26	72	18	100	1	20	0	78	0.84
4930971--4931082	23	4.9	23	73	14	72	1	19	0	78	0.84
4930973--4931055	6	13.8	6	85	9	84	0	20	0	79	0.73
4931046--4931090	9	4.8	10	81	13	51	4	17	0	77	0.92
4930971--4931085	47	2.5	46	80	8	112	1	19	0	79	0.83
4933788--4933868	42	1.9	42	94	0	144	19	19	11	49	1.78
4934160--4934198	20	2.0	20	89	0	60	48	10	23	17	1.78
4937450--4937486	16	2.3	16	90	0	56	37	2	21	37	1.68
4937460--4937492	16	2.1	16	94	0	57	33	6	21	39	1.78
4938073--4938160	39	2.3	38	90	3	142	37	37	12	12	1.81
4938320--4938404	38	2.3	38	89	6	129	37	40	9	12	1.76
4938590--4938656	28	2.4	28	95	2	118	43	34	8	13	1.75
4938024--4938868	249	3.4	242	84	11	977	37	27	11	23	1.90
4941709--4941750	2	21.0	2	100	0	84	50	0	0	50	1.00
4944899--4944978	21	3.8	21	77	0	88	28	10	17	43	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4947150--4947303	77	2.0	77	97	0	290	46	7	24	22	1.76
4948381--4948430	19	2.6	19	100	0	100	30	16	32	22	1.95
4949142--4949199	21	2.8	20	78	5	62	27	12	20	39	1.88
4952187--4952376	43	4.4	43	78	6	177	34	18	20	26	1.96
4955465--4955590	47	2.8	45	89	5	191	38	7	23	30	1.83
4958300--4958627	42	7.9	42	79	4	324	28	23	16	31	1.96
4958308--4958627	126	2.6	126	88	1	473	29	23	16	30	1.96
4959709--4959799	23	4.0	23	81	4	87	34	24	25	16	1.95
4966511--4966630	23	5.3	23	77	8	97	34	23	25	17	1.96
4969154--4969187	15	2.3	15	90	5	52	67	0	17	14	1.23
4969368--4969403	17	2.1	17	94	0	63	27	25	30	16	1.97
4969362--4969406	22	2.0	23	86	8	65	28	22	31	17	1.97
4970100--4970152	21	2.5	21	84	6	72	24	26	15	33	1.95
4970161--4970275	20	5.7	20	80	6	115	33	25	18	23	1.97
4970159--4970292	41	3.3	41	82	6	173	35	24	17	23	1.95
4970462--4970505	22	2.0	22	90	0	70	20	43	15	20	1.88
4970754--4970812	20	3.0	20	87	0	73	15	18	22	44	1.87
4970949--4971003	25	2.2	24	78	15	58	20	9	18	52	1.71
4972132--4972179	18	2.7	18	93	0	87	27	45	12	14	1.81
4972759--4972841	19	4.6	19	78	14	104	46	20	19	13	1.82
4972730--4972827	33	2.7	35	77	17	103	44	20	20	14	1.86
4972853--4972911	14	3.9	14	76	20	64	10	16	23	49	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4972837--4972927	33	2.8	33	94	3	157	12	17	23	47	1.81
4972900--4973006	20	5.4	20	85	1	126	16	20	25	37	1.93
4973353--4973432	42	1.9	42	92	0	133	22	42	15	20	1.88
4974851--4974889	14	2.8	14	84	0	51	35	0	17	46	1.49
4975029--4975112	19	4.7	19	82	11	115	47	17	19	15	1.83
4975131--4975206	20	3.8	20	96	0	134	14	22	23	39	1.91
4975126--4975225	40	2.8	34	77	16	110	14	24	24	38	1.92
4975757--4975864	20	5.4	20	88	0	135	27	16	28	26	1.97
4975832--4975909	41	1.9	41	89	5	122	20	15	25	38	1.92
4975830--4975909	20	4.0	20	75	3	70	21	15	26	37	1.92

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