genome.fa.s8105.2.7.7.80.10.50.1000.19.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  19  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)
3474632--3474688	25	2.4	25	88	5	82	0	17	0	82	0.67
3474632--3474686	10	5.7	10	75	16	53	0	16	0	83	0.64
3474632--3474689	23	2.4	24	83	11	75	0	17	0	82	0.66
3478449--3478501	26	2.0	26	100	0	106	22	26	7	43	1.80
3481943--3481974	15	2.1	15	94	0	55	46	9	18	25	1.79
3487305--3487367	3	21.0	3	90	0	99	61	0	1	36	1.05
3487296--3487366	9	8.0	9	87	1	72	59	0	1	39	1.06
3488632--3488678	24	1.9	24	82	4	58	38	0	8	53	1.32
3493323--3493362	9	4.2	9	84	9	53	82	0	17	0	0.67
3493328--3493363	15	2.3	16	90	4	56	83	0	16	0	0.65
3493323--3493399	24	3.2	24	70	15	61	77	6	12	2	1.06
3497357--3497393	2	18.5	2	100	0	74	48	0	0	51	1.00
3506928--3506979	27	2.0	26	84	3	68	25	19	17	38	1.93
3507905--3507953	19	2.7	17	84	9	53	26	20	28	24	1.99
3507925--3508086	66	2.5	65	84	7	195	27	18	22	30	1.97
3510751--3510845	42	2.2	42	85	10	122	25	22	25	27	2.00
3510747--3510826	21	3.7	21	84	5	106	25	25	25	25	2.00
3510751--3510845	21	4.4	21	80	9	95	25	22	25	27	2.00
3519539--3519599	20	2.9	20	85	7	59	24	32	26	16	1.96
3521271--3521296	12	2.2	12	100	0	52	26	34	38	0	1.57
3533003--3533038	16	2.2	16	95	0	63	36	5	0	58	1.22
3533490--3533571	23	3.6	23	75	15	73	52	1	1	45	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3533850--3533883	14	2.4	14	90	0	50	44	0	2	52	1.16
3533888--3533959	36	2.0	36	100	0	144	33	25	5	36	1.79
3533967--3534005	5	7.8	5	100	0	78	61	0	38	0	0.96
3535090--3535271	93	2.0	93	85	2	249	9	26	19	44	1.81
3537574--3537916	159	2.1	160	84	5	451	30	17	5	45	1.72
3539391--3539437	22	2.1	22	88	0	67	36	25	10	27	1.89
3540599--3540662	17	3.8	17	76	12	60	37	0	1	60	1.06
3542727--3542770	6	7.2	6	92	2	70	18	0	79	2	0.83
3543379--3543490	39	2.9	38	76	6	111	43	1	7	47	1.41
3543379--3543484	37	2.8	39	78	5	110	40	1	7	50	1.42
3543508--3543724	33	6.4	34	74	19	159	44	2	8	44	1.48
3543575--3543654	38	2.0	41	88	9	121	47	2	7	42	1.45
3543507--3543689	74	2.7	67	78	17	187	45	3	7	43	1.48
3543757--3543786	6	5.0	6	91	0	51	46	0	0	53	1.00
3543784--3543813	5	6.0	5	100	0	60	20	0	0	80	0.72
3544028--3544058	16	2.0	15	93	6	53	19	41	25	12	1.87
3544663--3544729	29	2.3	29	100	0	134	22	14	32	29	1.94
3545202--3545234	2	16.5	2	100	0	66	48	0	0	51	1.00
3545252--3545280	13	2.1	14	93	6	51	17	6	0	75	1.01
3550425--3551537	165	6.7	165	85	3	1310	30	24	19	24	1.98
3550325--3551546	84	14.8	83	79	5	1147	30	24	19	24	1.98
3550321--3551537	249	4.9	248	84	3	1434	30	24	19	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3552195--3552266	37	1.9	37	83	5	92	43	2	4	50	1.36
3555661--3555707	22	2.1	22	92	0	76	63	6	0	29	1.19
3558158--3558234	41	1.9	40	87	12	113	29	11	29	28	1.92
3558158--3558234	20	3.8	21	78	15	81	29	11	29	28	1.92
3558219--3558348	54	2.4	53	84	5	163	27	20	22	29	1.99
3558741--3558812	21	3.4	21	94	0	108	37	6	25	30	1.82
3573834--3573860	14	1.9	14	100	0	54	29	22	18	29	1.97
3576669--3576748	20	3.9	21	78	15	87	30	13	28	27	1.94
3576718--3576860	54	2.7	52	84	6	162	29	18	22	29	1.98
3577254--3577304	21	2.4	21	93	6	86	37	7	23	31	1.83
3577438--3577486	21	2.3	21	93	6	82	22	8	30	38	1.83
3577438--3577494	21	2.7	21	86	5	80	21	12	29	36	1.90
3577491--3577515	12	2.1	12	100	0	50	24	32	24	20	1.98
3591175--3591215	18	2.2	19	83	12	50	17	17	7	58	1.60
3594021--3594134	16	6.9	16	76	20	85	75	0	21	2	0.92
3594011--3594132	46	2.6	46	85	8	167	74	0	22	3	0.96
3594012--3594134	33	3.8	32	71	23	59	74	0	21	3	0.95
3595974--3596120	60	2.4	61	83	7	174	28	21	14	35	1.93
3596925--3596977	19	2.8	19	100	0	106	16	16	33	32	1.92
3599666--3599714	20	2.5	20	93	0	80	26	14	30	28	1.95
3599747--3599777	14	2.1	15	94	5	55	35	16	16	32	1.91
3603241--3603279	17	2.3	17	100	0	78	23	15	20	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3603605--3603651	21	2.3	21	85	7	62	29	6	6	57	1.49
3605910--3606655	136	5.5	135	87	3	984	35	19	19	25	1.96
3605912--3606655	270	2.7	271	87	3	1025	35	19	19	25	1.96
3609217--3609253	16	2.3	17	81	13	51	56	5	5	32	1.45
3609712--3609737	2	13.0	2	100	0	52	50	0	0	50	1.00
3610251--3610300	15	3.2	16	75	13	50	66	2	10	22	1.32
3612961--3613113	3	51.0	3	89	10	242	67	0	32	0	0.91
3614220--3614281	29	2.1	30	87	3	90	32	1	8	58	1.37
3615125--3615178	3	18.0	3	81	7	65	38	1	0	59	1.08
3616778--3616830	23	2.3	24	81	12	67	41	3	0	54	1.18
3617323--3617364	19	2.2	18	84	16	50	28	2	2	66	1.16
3620639--3620670	15	2.1	15	94	0	55	28	18	6	46	1.73
3627973--3628010	13	2.8	14	84	4	51	84	0	15	0	0.63
3629985--3630738	113	6.6	113	85	5	904	37	12	19	30	1.89
3629985--3630721	229	3.2	227	85	5	952	37	12	19	30	1.89
3630973--3631050	3	26.0	3	79	10	88	39	1	0	58	1.06
3631210--3631250	16	2.6	16	100	0	82	24	21	26	26	2.00
3631486--3631532	21	2.2	21	77	7	51	55	25	17	2	1.53
3633852--3633887	18	2.0	18	94	0	63	16	47	11	25	1.79
3634003--3634033	2	15.5	2	100	0	62	0	48	0	51	1.00
3637063--3637153	25	3.6	25	96	0	164	32	19	14	32	1.92
3645695--3645829	32	4.2	32	74	11	114	28	17	24	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3647219--3647312	38	2.5	37	86	6	145	11	10	38	39	1.77
3647038--3647531	261	1.9	259	90	6	782	22	12	28	36	1.90
3648113--3648157	18	2.6	18	89	6	67	31	31	2	35	1.70
3648276--3648332	27	2.1	27	100	0	114	26	3	14	56	1.54
3648327--3648367	2	20.5	2	100	0	82	51	0	0	48	1.00
3649052--3649085	7	4.6	7	86	13	50	55	0	11	32	1.36
3649050--3649087	16	2.4	16	100	0	76	55	0	10	34	1.34
3649737--3650166	4	107.5	4	82	0	439	27	6	23	42	1.78
3649737--3650167	16	26.9	16	86	4	503	27	6	23	41	1.79
3658217--3658332	2	57.5	2	72	17	89	42	2	2	52	1.29
3658217--3658330	22	5.4	21	75	15	103	42	2	2	52	1.29
3659301--3659349	21	2.3	21	79	10	55	34	26	16	22	1.95
3659595--3659657	32	2.0	32	90	0	99	23	12	23	39	1.89
3659595--3659674	32	2.5	32	83	4	81	25	10	26	38	1.87
3659789--3659848	30	1.9	31	86	6	86	26	11	28	33	1.91
3660719--3660785	24	2.7	26	83	4	93	67	0	0	32	0.91
3662862--3663444	293	2.0	293	95	0	1040	21	17	21	39	1.92
3663578--3663606	6	4.8	6	100	0	58	17	17	65	0	1.27
3663630--3663661	13	2.5	13	100	0	64	15	53	15	15	1.74
3663706--3663770	24	2.6	26	79	16	75	55	0	0	44	0.99
3663724--3663763	19	2.1	19	85	0	53	55	0	0	45	0.99
3663768--3663809	12	3.6	12	90	6	68	30	47	11	9	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3671490--3671528	20	2.0	20	89	0	60	38	17	25	17	1.92
3672567--3672884	158	2.0	158	100	0	636	20	16	16	47	1.83
3674650--3674687	13	2.8	14	84	8	51	23	21	21	34	1.97
3674650--3674692	13	3.2	13	83	3	50	25	18	20	34	1.96
3679908--3679948	7	5.6	7	83	11	55	14	26	26	31	1.95
3679908--3679948	16	2.8	14	79	13	55	14	26	26	31	1.95
3693240--3693288	19	2.7	17	84	9	53	26	18	30	24	1.98
3693366--3693416	19	2.7	19	85	8	70	25	15	35	23	1.94
3693240--3693449	64	3.3	63	81	7	212	27	15	26	30	1.96
3695977--3696056	24	3.5	23	75	14	85	27	22	26	23	2.00

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