genome.fa.s8539.2.7.7.80.10.50.1000.20.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: VEPZ01008539.1 Hibiscus syriacus cultivar Beakdansim tig00111427_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6067759

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  20  of  31  ( 3630 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)
3694659--3694815	64	2.5	63	82	7	181	33	19	24	23	1.97
3694803--3694860	20	2.7	20	81	10	62	31	17	22	29	1.96
3696351--3696410	23	2.6	23	78	0	66	18	23	25	33	1.97
3697290--3697366	21	3.7	21	85	0	109	19	22	23	35	1.96
3697398--3697435	20	1.9	20	88	0	58	26	26	15	31	1.96
3697913--3698010	43	2.3	43	83	1	115	25	15	21	37	1.92
3698177--3698207	16	1.9	16	93	0	53	32	25	9	32	1.88
3698926--3698965	16	2.5	16	83	0	53	50	35	12	2	1.54
3699670--3699711	14	2.9	15	89	3	59	35	0	0	64	0.94
3699789--3699833	23	2.0	23	86	8	65	42	46	11	0	1.39
3700683--3700743	31	2.0	30	93	3	104	34	6	16	42	1.74
3700823--3700880	21	2.8	21	89	0	89	22	41	15	20	1.90
3700942--3701015	20	3.7	20	80	7	87	18	25	24	31	1.98
3700942--3700997	21	2.8	20	88	2	76	19	26	25	28	1.99
3700942--3701024	41	2.0	41	88	9	125	19	25	26	28	1.98
3704268--3704328	31	2.0	31	96	3	115	32	6	18	42	1.76
3704408--3704527	21	5.7	21	78	3	125	25	30	20	24	1.98
3704439--3704484	13	3.9	13	73	26	57	23	32	19	23	1.97
3706191--3706281	2	45.5	2	95	0	164	47	0	2	50	1.13
3706638--3707801	391	3.0	391	95	1	2082	32	15	13	38	1.86
3708850--3708963	31	3.7	31	96	0	201	20	16	15	47	1.83
3710874--3710919	21	2.2	22	80	11	60	39	6	23	30	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3710880--3710920	21	2.0	21	90	0	64	36	7	24	31	1.83
3713562--3713644	3	27.7	3	79	16	84	62	1	1	34	1.11
3713963--3714326	122	3.0	123	90	2	581	26	18	14	40	1.89
3713992--3714543	122	4.7	113	84	7	544	27	19	13	40	1.89
3714237--3714543	113	2.7	113	86	6	442	28	19	13	39	1.89
3715689--3715766	19	3.9	19	80	13	79	57	5	7	29	1.48
3716098--3716187	8	11.0	8	80	9	101	3	14	0	82	0.80
3716098--3716187	17	5.5	16	81	9	101	3	14	0	82	0.80
3716104--3716168	25	2.6	25	92	0	103	0	15	0	84	0.62
3726819--3726862	20	2.2	20	84	8	54	65	0	2	31	1.05
3726840--3726883	13	3.4	13	84	6	54	70	0	0	29	0.88
3729013--3729095	33	2.5	32	83	12	98	62	1	1	34	1.11
3729013--3729094	3	27.7	3	78	14	82	63	1	1	34	1.10
3731908--3731945	11	3.5	11	88	0	58	39	21	5	34	1.76
3735662--3735752	14	6.5	14	70	0	56	24	2	30	42	1.66
3735662--3735752	28	3.2	28	75	3	94	24	2	30	42	1.66
3735857--3735919	11	5.9	11	71	14	51	39	3	1	55	1.25
3736975--3737004	2	15.0	2	92	0	51	46	3	0	50	1.18
3738660--3738762	24	4.3	24	90	1	136	41	16	17	24	1.89
3747328--3747426	44	2.2	45	82	5	112	37	23	12	27	1.90
3748081--3748138	23	2.5	23	82	0	62	25	22	20	31	1.98
3753691--3753715	10	2.5	10	100	0	50	0	28	0	72	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3754698--3754757	31	2.0	30	83	9	77	36	3	23	36	1.71
3754963--3755017	23	2.4	23	84	0	65	20	25	23	30	1.98
3754974--3755022	23	2.2	22	88	3	71	20	20	24	34	1.96
3754984--3755028	23	2.0	23	86	8	65	20	20	26	33	1.97
3764487--3764532	24	1.9	24	86	0	65	32	28	13	26	1.93
3764944--3764982	16	2.4	16	86	0	51	56	15	5	23	1.59
3765442--3765478	19	2.0	19	89	5	58	59	0	2	37	1.12
3765706--3765781	32	2.4	32	77	0	80	39	15	13	31	1.86
3767779--3768097	5	63.8	5	67	23	142	55	5	1	37	1.32
3767792--3768094	17	17.7	17	69	18	118	55	5	1	37	1.32
3767771--3768032	30	8.4	30	76	16	182	56	4	1	37	1.29
3767773--3768041	58	4.6	58	74	16	191	56	4	1	37	1.30
3767822--3768053	104	2.3	102	78	17	234	55	5	1	37	1.32
3768018--3768075	28	2.1	28	87	6	82	51	5	1	41	1.34
3768018--3768096	28	2.8	27	80	14	70	53	6	1	39	1.35
3781054--3781327	5	54.2	5	69	17	122	54	5	2	38	1.36
3781096--3781327	2	122.0	2	66	27	89	53	5	2	39	1.37
3781530--3781574	13	3.7	13	77	17	51	62	26	6	4	1.39
3781524--3781574	23	2.2	23	92	0	84	60	25	7	5	1.47
3784044--3784085	18	2.2	20	83	8	52	35	7	47	9	1.64
3788348--3788429	40	2.0	40	95	4	148	24	15	26	32	1.95
3788867--3788892	11	2.4	11	100	0	52	34	0	11	53	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3791474--3791503	11	2.7	11	89	0	51	40	13	33	13	1.83
3797498--3797580	30	2.8	30	88	0	130	59	10	12	18	1.61
3798913--3798967	3	18.0	3	92	3	92	65	0	0	34	0.93
3799477--3799610	36	3.6	37	80	5	155	36	14	19	29	1.92
3799477--3799608	37	3.6	37	82	5	142	36	15	18	29	1.92
3805922--3805996	32	2.3	32	86	0	96	30	28	24	17	1.97
3807631--3807676	21	2.2	21	84	3	58	10	17	30	41	1.84
3811391--3811467	30	2.6	29	79	8	73	25	12	10	50	1.72
3812381--3812434	2	27.0	2	100	0	108	50	0	0	50	1.00
3814278--3814323	20	2.3	20	92	0	83	41	8	8	41	1.67
3814278--3814329	20	2.6	20	87	0	68	38	11	7	42	1.70
3828766--3828840	25	3.0	25	84	7	98	49	16	2	32	1.59
3835886--3835935	25	2.0	25	84	0	64	46	22	6	26	1.74
3835967--3836075	31	3.5	31	71	10	96	32	30	22	14	1.94
3843640--3843717	39	2.0	39	90	2	122	30	19	16	33	1.94
3844717--3844817	49	2.1	48	85	5	132	37	8	1	51	1.45
3847870--3847921	21	2.5	20	84	3	59	38	19	23	19	1.93
3847911--3848003	20	4.7	20	94	0	159	27	29	19	23	1.98
3848190--3848233	22	2.0	22	90	0	70	22	43	15	18	1.88
3848476--3848535	20	3.0	21	82	7	70	15	20	20	45	1.86
3848672--3848726	25	2.2	24	78	15	58	20	9	18	52	1.71
3849843--3849920	20	4.3	18	73	25	67	43	17	21	16	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3849843--3849896	20	2.8	20	85	2	74	42	16	22	18	1.89
3849887--3849945	14	3.9	14	76	20	64	49	23	16	10	1.77
3849871--3849962	33	2.8	33	96	0	166	47	20	18	13	1.81
3849851--3849963	19	6.4	19	72	20	93	45	19	20	15	1.86
3849957--3850028	14	4.7	15	71	20	60	12	18	20	48	1.80
3849985--3850043	19	3.4	19	66	22	56	16	18	16	47	1.83
3849964--3850043	33	2.4	33	95	0	142	13	18	20	47	1.82
3850028--3850082	20	2.8	20	91	2	85	18	29	21	30	1.97
3850446--3850535	42	2.2	42	82	4	112	23	38	14	23	1.91
3851938--3851976	14	2.8	14	84	0	51	35	0	17	46	1.49
3852116--3852180	19	3.7	19	76	15	77	47	20	20	12	1.81
3852199--3852274	20	3.8	20	92	0	125	14	21	23	40	1.90
3852497--3852573	20	3.8	20	91	0	109	27	19	27	25	1.99
3852541--3852618	41	1.9	41	91	0	129	19	16	25	38	1.92
3852515--3852615	20	5.0	20	83	7	105	22	16	27	32	1.96
3852541--3852636	41	2.3	41	83	3	113	20	18	23	36	1.95
3852604--3852655	20	2.5	21	87	3	70	21	23	17	38	1.93
3852902--3853167	132	2.0	132	98	0	514	28	19	14	37	1.91
3854310--3854389	3	27.0	3	92	7	137	66	0	0	33	0.92
3858831--3859000	84	2.0	83	92	2	279	29	1	11	57	1.43
3860423--3860482	23	2.7	23	97	2	113	28	21	23	26	1.99
3868043--3868086	17	2.6	17	100	0	88	4	27	0	68	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3868132--3868212	41	2.0	42	85	2	110	51	7	17	23	1.70
3868137--3868266	69	1.9	69	81	10	158	48	8	17	25	1.75
3877952--3877990	21	1.9	20	84	5	51	30	12	20	35	1.90
3881275--3881439	82	2.0	80	84	7	210	31	1	10	55	1.45
3884788--3884840	16	3.1	18	75	10	56	18	22	20	37	1.94
3887839--3887968	58	2.2	60	81	8	151	33	17	17	31	1.94
3893477--3893914	43	10.2	42	85	2	561	31	20	23	24	1.98
3896553--3896760	75	2.8	74	85	5	249	24	31	23	20	1.98
3903525--3903575	9	6.2	8	76	19	52	13	0	27	58	1.36
3903527--3903570	17	2.6	17	85	7	63	13	0	29	56	1.38

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