genome.fa.s7716.2.7.7.80.10.50.1000.14.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: VEPZ01007716.1 Hibiscus syriacus cultivar Beakdansim tig00109945_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4364108

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  14  of  17  ( 1966 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)
3478193--3478236	21	2.1	21	100	0	88	9	18	27	45	1.79
3483497--3483573	38	2.1	38	90	4	122	38	9	35	16	1.81
3484922--3484978	30	2.0	29	86	6	80	26	24	10	38	1.88
3496239--3496342	31	3.4	31	85	2	129	31	31	23	13	1.93
3502101--3502154	19	2.8	19	97	0	99	31	31	16	20	1.95
3502930--3502962	2	16.5	2	100	0	66	51	0	0	48	1.00
3508252--3508341	45	2.0	45	100	0	180	22	17	13	46	1.83
3508706--3508875	85	2.0	85	98	0	331	46	17	20	15	1.84
3510795--3510879	38	2.2	38	100	0	170	42	14	12	30	1.83
3518770--3518821	17	3.0	17	91	2	77	61	0	0	38	0.96
3526048--3526098	26	2.0	26	92	7	88	31	17	7	43	1.78
3527969--3528008	21	2.0	21	90	9	66	35	10	2	52	1.48
3531169--3531352	78	2.4	77	83	3	235	11	15	33	39	1.83
3535189--3535222	17	1.9	18	88	5	52	73	0	5	20	1.04
3535267--3535396	63	2.0	64	97	2	244	29	20	16	34	1.94
3535769--3535815	24	2.0	24	83	8	60	55	12	2	29	1.49
3537163--3537198	13	2.7	13	86	4	54	80	2	5	11	0.98
3542444--3542498	29	1.9	28	88	3	83	25	16	20	38	1.92
3542651--3542751	24	4.4	24	69	16	70	54	22	2	19	1.58
3543371--3543401	15	2.1	15	100	0	62	19	9	25	45	1.81
3546547--3546888	168	2.0	171	96	2	638	23	11	19	44	1.84
3548257--3548297	21	1.9	22	90	5	66	56	7	7	29	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3548701--3549367	333	2.0	333	97	0	1253	37	13	20	27	1.91
3549611--3549770	65	2.5	66	87	5	220	31	23	18	26	1.98
3555011--3555105	44	2.2	44	83	7	124	28	26	21	24	1.99
3555030--3555110	23	3.7	23	73	8	87	27	25	23	23	2.00
3555029--3555128	43	2.3	42	78	8	103	28	26	24	22	1.99
3557304--3557513	65	3.3	63	80	11	221	30	23	18	27	1.98
3557485--3557533	19	2.6	19	84	9	57	24	28	20	26	1.99
3560188--3560222	17	2.0	18	88	5	54	25	34	5	34	1.80
3562006--3562072	29	2.3	28	87	5	89	25	1	19	53	1.53
3562631--3562671	20	2.0	20	100	0	82	24	41	24	9	1.85
3564141--3564180	20	2.0	21	90	5	64	27	20	22	30	1.98
3565707--3565753	18	2.7	18	93	3	78	27	31	8	31	1.87
3570437--3570484	21	2.2	22	85	3	62	62	0	2	35	1.07
3572905--3573005	49	2.1	49	96	0	184	37	5	34	21	1.78
3573418--3573476	29	2.0	29	96	0	109	15	32	23	28	1.95
3576946--3576980	17	2.1	17	88	0	52	31	25	2	40	1.70
3580149--3580185	16	2.3	16	90	0	56	51	8	0	40	1.32
3580272--3580338	34	2.0	34	90	0	107	13	10	14	61	1.57
3583510--3583556	20	2.3	20	100	0	94	38	0	31	29	1.58
3592526--3592695	63	2.8	59	83	5	171	45	11	9	34	1.72
3592579--3592704	63	2.0	63	93	0	216	46	12	9	30	1.74
3600790--3600836	20	2.3	20	88	0	76	42	4	23	29	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3601882--3602045	85	1.9	85	80	4	188	31	18	19	31	1.96
3602030--3602072	13	3.3	13	80	0	50	34	13	20	30	1.92
3613253--3613296	22	2.0	21	91	4	70	38	13	20	27	1.90
3614017--3614122	54	1.9	55	84	1	142	30	16	17	35	1.92
3614020--3614137	54	2.2	54	81	0	137	27	16	17	37	1.92
3627431--3627624	97	2.0	97	100	0	388	25	26	15	31	1.96
3636251--3636277	3	9.0	3	100	0	54	0	33	0	66	0.92
3637913--3638013	31	3.2	32	75	12	93	30	16	15	36	1.91
3639643--3639692	26	1.9	26	84	8	66	40	0	24	36	1.55
3640665--3640822	64	2.5	64	79	6	167	31	18	24	25	1.98
3641780--3641882	31	3.3	31	73	8	100	33	16	15	34	1.90
3644342--3644370	15	1.9	15	100	0	58	0	34	0	65	0.93
3646350--3646402	27	2.0	27	92	0	88	37	16	15	30	1.90
3648058--3648091	11	3.0	11	86	4	50	58	0	0	41	0.98
3648108--3648275	85	2.0	85	82	6	207	33	16	19	30	1.94
3657100--3657127	14	2.0	14	100	0	56	50	7	0	42	1.30
3658077--3658132	27	2.1	27	100	0	112	44	32	17	5	1.72
3659579--3659618	18	2.2	19	90	4	64	20	5	0	75	0.99
3659579--3659631	18	2.9	18	83	8	54	16	5	3	73	1.17
3663395--3663631	95	2.5	97	84	4	284	34	16	17	31	1.93
3664955--3665124	65	2.6	65	86	2	225	31	20	11	36	1.89
3665020--3665281	102	2.6	102	79	1	267	29	19	11	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3665279--3665365	36	2.4	36	84	0	102	27	19	12	40	1.88
3665138--3665676	194	2.7	195	88	6	832	30	20	12	37	1.89
3665381--3665467	37	2.4	37	88	1	122	25	20	13	40	1.89
3665275--3665698	102	4.2	102	94	0	726	30	20	12	36	1.89
3665483--3665569	37	2.4	37	90	1	131	25	19	13	41	1.88
3665019--3665700	296	2.3	300	87	3	969	30	20	12	37	1.89
3665657--3665730	30	2.5	30	73	10	71	35	21	12	31	1.90
3667303--3667350	17	3.0	15	77	14	51	56	27	2	14	1.50
3669325--3669383	23	2.8	20	77	12	57	18	25	32	23	1.97
3669326--3669385	19	2.9	19	80	9	57	16	26	31	25	1.96
3673186--3673225	21	1.9	21	85	10	55	35	10	2	52	1.48
3676878--3676910	2	16.5	2	100	0	66	48	0	0	51	1.00
3679982--3680039	28	2.0	30	93	6	102	18	15	17	48	1.82
3682087--3682113	14	1.9	14	100	0	54	25	14	22	37	1.93
3682862--3682907	18	2.5	19	76	20	53	43	0	0	56	0.99
3682864--3682948	34	2.5	34	90	0	143	40	2	0	57	1.11
3691601--3691726	59	2.1	59	85	0	162	35	15	15	33	1.89
3694640--3694676	15	2.5	15	90	0	56	8	16	67	8	1.40
3699779--3699829	3	17.0	3	95	0	93	31	1	0	66	1.03
3707368--3707405	17	2.2	17	90	0	58	34	0	0	65	0.93
3707459--3707581	62	2.0	62	93	0	210	28	19	14	37	1.91
3708560--3708593	2	17.0	2	100	0	68	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3710076--3710104	2	15.0	2	92	7	51	51	0	0	48	1.00
3712911--3713246	134	2.5	132	75	7	326	26	14	30	27	1.95
3713346--3713385	21	2.0	20	85	5	53	45	10	17	27	1.80
3713335--3713441	36	3.2	33	72	18	96	39	12	19	28	1.88
3713265--3713450	64	2.9	64	85	1	246	42	12	19	25	1.86
3715068--3715092	2	12.5	2	100	0	50	48	0	0	52	1.00
3721908--3721967	23	2.8	21	85	7	77	21	31	26	20	1.98
3721930--3721986	19	2.8	19	84	10	69	22	31	26	19	1.98
3721930--3722009	22	3.7	22	75	14	69	23	35	25	16	1.95
3721910--3722010	42	2.4	41	80	11	107	22	34	24	17	1.96
3724639--3724720	33	2.4	33	91	4	128	21	36	23	18	1.95
3724650--3724704	18	3.2	18	66	23	55	20	38	23	18	1.93
3724664--3724719	15	3.5	15	73	21	51	21	35	23	19	1.96
3724833--3724874	21	2.0	21	95	0	75	23	21	28	26	1.99
3724903--3724942	20	1.9	21	85	10	55	37	37	10	15	1.80
3726533--3726561	13	2.1	14	93	6	51	65	0	20	13	1.26
3731967--3731999	16	2.1	16	88	11	50	0	18	0	81	0.68
3732190--3732218	13	2.1	14	93	6	51	65	0	20	13	1.26
3735820--3735856	17	2.2	17	100	0	74	43	24	13	18	1.86
3738233--3738262	3	9.7	3	92	7	51	66	0	0	33	0.92
3748066--3748103	20	1.9	20	88	0	58	36	23	5	34	1.78
3752429--3752489	23	2.7	23	94	0	104	18	26	26	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3758086--3758205	64	1.9	63	82	1	150	35	20	17	26	1.94
3758886--3758946	23	2.7	23	89	0	95	19	27	26	26	1.99
3776481--3776928	222	2.0	225	97	2	859	39	10	26	24	1.87
3777311--3777343	16	2.1	16	94	0	57	39	0	15	45	1.46
3777381--3777663	55	5.2	55	87	1	390	33	21	16	28	1.95
3783742--3783789	19	2.5	20	89	3	71	29	12	33	25	1.92
3784222--3784472	55	4.6	55	83	4	276	35	19	18	26	1.95
3784225--3784472	110	2.3	110	84	3	320	35	20	18	26	1.95
3784213--3784505	55	5.4	54	81	5	225	34	20	18	26	1.96
3787927--3788025	33	2.9	32	76	14	101	53	5	16	25	1.63

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17