genome.fa.s9344.2.7.7.80.10.50.1000.20.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: VEPZ01009344.1 Hibiscus syriacus cultivar Beakdansim tig00113124_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4287485

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   

This is table  20  of  24  ( 2784 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)
3479659--3479688	13	2.2	14	94	5	53	23	43	23	10	1.83
3479688--3479720	7	4.9	7	92	7	59	15	27	30	27	1.96
3479690--3479716	13	2.1	13	100	0	54	14	29	29	25	1.95
3486828--3486914	9	9.1	9	79	12	93	14	26	28	29	1.95
3486828--3486914	19	4.6	19	84	11	92	14	26	28	29	1.95
3488800--3488846	24	2.0	24	91	0	76	19	53	8	19	1.70
3490103--3490174	20	3.6	20	78	10	76	41	13	19	25	1.88
3490089--3490177	40	2.2	40	88	4	135	39	17	20	22	1.92
3490169--3490236	20	3.4	20	93	0	109	41	26	19	13	1.88
3490124--3490260	40	3.4	39	77	9	116	42	20	19	17	1.90
3490281--3490334	19	2.8	20	77	2	56	27	22	11	38	1.88
3490308--3490375	20	3.4	20	79	0	82	32	20	11	35	1.89
3490287--3490375	40	2.2	40	82	5	110	32	20	11	35	1.88
3490532--3490569	16	2.5	15	84	12	51	28	5	0	65	1.14
3493340--3493387	20	2.4	20	85	0	60	18	18	20	41	1.90
3495100--3495228	7	18.1	7	79	9	136	65	0	31	3	1.11
3495108--3495216	24	4.6	24	77	11	66	64	0	32	3	1.11
3496476--3497171	6	118.0	6	93	5	1219	33	0	17	49	1.47
3501918--3501998	25	3.2	25	63	22	60	37	14	14	33	1.88
3501873--3502028	51	3.1	51	93	0	267	32	17	13	36	1.89
3514801--3515097	149	2.0	149	100	0	594	27	24	17	29	1.97
3515761--3515946	43	4.4	43	80	2	196	29	19	17	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3516555--3516601	16	2.8	16	87	6	58	46	2	2	48	1.25
3517867--3517892	13	2.0	13	100	0	52	23	15	23	38	1.92
3518654--3518781	64	2.0	65	84	4	170	33	17	17	31	1.93
3520497--3520574	39	2.0	39	95	5	140	34	7	25	32	1.84
3520706--3520787	23	3.6	22	73	14	69	26	21	24	26	2.00
3530850--3530888	16	2.5	16	87	4	53	30	23	10	35	1.88
3531020--3531062	15	2.8	16	92	3	70	37	16	0	46	1.47
3531014--3531069	15	3.7	15	72	13	60	42	14	0	42	1.45
3561011--3561063	27	2.0	27	96	0	97	28	15	15	41	1.87
3565378--3565407	7	4.4	7	95	4	53	16	0	26	56	1.40
3569513--3569568	3	18.7	3	96	0	103	33	1	0	64	1.04
3574505--3574543	2	19.5	2	100	0	78	51	0	0	48	1.00
3577104--3577542	55	8.3	55	86	6	298	29	26	15	28	1.96
3577168--3577542	51	7.1	51	89	4	437	29	27	15	28	1.96
3577104--3577542	106	4.1	106	85	5	491	29	26	15	28	1.96
3577168--3577559	157	2.5	154	81	4	374	28	27	15	28	1.96
3578837--3578986	8	19.9	7	69	18	54	8	18	0	73	1.11
3578892--3578942	19	2.7	19	82	14	61	5	19	1	72	1.15
3578867--3579005	54	2.6	54	80	12	135	7	18	0	72	1.13
3578910--3579001	9	9.9	9	68	15	53	7	15	0	77	0.98
3588629--3588717	45	1.9	47	93	4	155	37	23	11	28	1.89
3600528--3600577	23	2.1	24	85	7	66	24	18	24	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3601159--3601206	19	2.5	19	96	0	87	20	6	16	56	1.62
3603540--3603580	2	20.5	2	100	0	82	51	0	0	48	1.00
3609657--3609723	24	2.8	24	86	6	82	20	25	22	31	1.98
3609707--3609778	25	2.9	25	89	0	117	25	29	22	23	1.99
3612926--3612968	22	2.0	22	81	9	52	30	27	25	16	1.97
3614669--3614735	25	2.7	25	75	6	66	25	22	22	29	1.99
3619681--3619738	29	2.0	29	100	0	116	27	24	20	27	1.99
3621728--3621791	7	8.9	7	76	19	51	85	9	0	4	0.72
3621727--3621790	17	3.8	16	83	4	65	85	9	0	4	0.72
3621727--3621791	12	5.5	11	84	13	69	86	9	0	4	0.71
3621752--3621789	17	2.2	17	100	0	76	84	15	0	0	0.63
3621857--3621888	13	2.3	15	89	10	50	81	3	15	0	0.82
3625106--3625139	3	11.3	3	100	0	68	32	0	0	67	0.91
3625158--3625200	18	2.4	18	80	3	52	20	11	0	67	1.22
3625227--3625265	12	3.2	12	81	0	51	35	12	2	48	1.55
3625297--3625395	2	49.5	2	97	0	189	48	0	1	50	1.07
3627605--3627654	3	16.0	3	87	8	73	66	0	2	32	1.03
3627605--3627653	19	2.6	19	93	0	89	67	0	2	30	1.02
3627763--3627917	36	4.3	36	79	6	125	49	5	3	41	1.43
3627726--3627917	72	2.8	72	78	14	199	48	5	3	42	1.43
3627853--3627977	63	2.0	63	89	6	191	48	7	3	41	1.47
3627889--3627953	27	2.5	27	85	5	89	49	6	1	43	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3627781--3627977	36	5.8	34	76	16	167	47	7	3	42	1.46
3627916--3627989	36	2.1	35	82	2	85	47	12	1	39	1.49
3628051--3628092	2	21.0	2	95	0	75	50	2	0	47	1.14
3628677--3629533	248	3.5	245	88	2	1018	24	20	25	29	1.99
3628877--3629369	165	3.0	165	90	1	731	24	20	25	29	1.99
3628651--3629539	413	2.2	413	92	0	1494	24	19	25	30	1.98
3632974--3633018	19	2.4	19	96	3	83	68	8	11	11	1.39
3633629--3633661	17	1.9	17	93	0	57	72	9	12	6	1.26
3634851--3634885	4	9.0	4	87	6	54	74	0	0	25	0.82
3634827--3634882	19	2.9	19	86	2	67	76	0	7	16	0.99
3634924--3634971	20	2.4	21	79	6	55	58	6	6	29	1.47
3636095--3636123	10	3.0	10	95	5	51	68	0	0	31	0.89
3636094--3636122	13	2.1	14	93	6	51	72	0	0	27	0.85
3636207--3636604	36	10.9	36	79	12	254	46	4	4	44	1.42
3636256--3636617	36	9.8	36	83	7	379	46	5	3	43	1.44
3636253--3636375	41	3.1	41	88	6	191	47	2	3	46	1.31
3636268--3636617	74	4.7	73	89	6	431	47	5	3	43	1.44
3636545--3636569	11	2.3	11	100	0	50	44	8	8	40	1.63
3636335--3636658	74	4.4	72	89	5	291	46	6	3	42	1.48
3638747--3638926	53	3.4	53	80	6	186	34	10	20	35	1.87
3644533--3644558	13	2.0	13	100	0	52	23	23	15	38	1.92
3646840--3647004	83	2.0	83	97	0	312	46	15	13	24	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3647262--3647308	7	6.7	7	76	9	51	82	4	0	12	0.80
3656310--3656353	20	2.3	19	82	17	56	61	2	0	36	1.09
3657082--3657125	21	2.1	21	86	0	61	34	4	18	43	1.70
3664619--3664730	50	2.3	50	90	1	172	17	30	37	14	1.90
3667149--3667216	2	34.0	2	100	0	136	50	0	0	50	1.00
3677103--3677158	14	4.3	14	78	17	75	53	26	12	7	1.64
3677101--3677151	24	2.1	24	96	0	93	56	23	9	9	1.61
3678151--3678175	8	3.1	8	100	0	50	24	0	76	0	0.80
3691765--3691799	18	1.9	18	88	0	52	31	0	2	65	1.07
3694679--3694705	12	2.2	12	100	0	54	29	22	7	40	1.81
3696238--3696360	65	1.9	65	100	0	246	35	23	14	26	1.93
3716235--3716308	37	2.0	37	100	0	148	35	29	13	21	1.92
3723027--3723081	16	3.4	16	74	18	51	74	0	7	18	1.04
3724654--3724713	12	4.8	12	71	15	50	46	11	1	40	1.50
3724600--3724844	37	6.8	36	81	13	247	44	8	2	44	1.47
3724600--3724845	76	3.4	71	79	13	254	43	8	2	45	1.47
3724767--3724922	85	1.8	85	85	8	219	39	7	6	46	1.58
3725505--3725742	85	2.8	85	82	5	309	26	18	19	35	1.95
3729970--3730030	21	2.7	23	76	20	67	31	24	19	24	1.98
3729970--3730031	23	2.8	23	77	20	69	30	24	20	24	1.99
3730179--3730215	15	2.5	15	91	4	58	35	18	8	37	1.81
3736415--3736462	19	2.5	19	78	15	53	75	2	8	14	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3737805--3737868	10	6.2	10	76	16	51	85	0	6	7	0.73
3737807--3737868	17	3.8	16	85	12	74	85	0	6	8	0.74
3737891--3737971	39	2.1	38	84	11	101	45	2	3	48	1.33
3737998--3738073	21	3.3	23	83	12	93	46	9	2	42	1.50
3738036--3738197	37	4.7	36	73	19	139	43	8	3	44	1.52
3738076--3738135	25	2.4	25	94	0	102	43	10	1	45	1.47
3738017--3738162	62	2.4	60	85	9	199	43	10	2	43	1.52
3745490--3745600	42	2.7	41	87	5	143	34	21	10	33	1.88
3755071--3755116	23	2.0	23	95	0	83	21	23	30	23	1.99
3755071--3755137	23	2.9	23	84	4	73	17	26	28	26	1.98

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