genome.fa.s7816.2.7.7.80.10.50.1000.13.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: VEPZ01007816.1 Hibiscus syriacus cultivar Beakdansim tig00110151_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3994936

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

This is table  13  of  14  ( 1594 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)
3684807--3684897	47	1.9	47	97	0	173	41	8	12	37	1.73
3685206--3685246	22	1.9	22	90	5	66	7	36	19	36	1.80
3696758--3696811	13	4.3	13	76	9	58	38	20	9	31	1.84
3699054--3699270	91	2.4	91	85	4	312	35	6	23	33	1.82
3699054--3699270	46	4.8	46	85	4	307	35	6	23	33	1.82
3702114--3702259	29	5.1	27	77	18	104	79	1	17	1	0.88
3702112--3702268	26	5.8	26	76	16	133	78	1	18	1	0.92
3702120--3702257	36	3.9	34	76	16	127	78	1	18	1	0.89
3702114--3702260	6	25.0	6	77	14	112	78	1	18	1	0.89
3702105--3702268	74	2.2	72	82	13	181	78	2	17	1	0.92
3702114--3702259	65	2.3	61	81	13	154	79	1	17	1	0.88
3702204--3702270	34	1.9	35	85	8	93	79	1	16	2	0.94
3702115--3702256	54	2.5	55	82	12	148	78	1	18	1	0.89
3702114--3702260	15	9.8	15	73	13	117	78	1	18	1	0.89
3704644--3704732	39	2.3	39	88	2	124	3	35	6	53	1.44
3705136--3705218	39	2.1	40	88	2	123	3	36	7	53	1.46
3709757--3709812	15	3.7	15	90	2	76	7	21	10	60	1.53
3713377--3713408	2	16.0	2	100	0	64	50	50	0	0	1.00
3713410--3713471	2	31.0	2	100	0	124	50	0	0	50	1.00
3713840--3713898	26	2.2	28	82	11	70	61	11	5	22	1.50
3715212--3715698	139	3.5	138	88	2	683	27	21	16	35	1.94
3716022--3716286	36	7.2	36	68	5	170	38	9	20	30	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3716024--3716324	74	4.1	73	86	3	406	39	9	19	31	1.85
3716010--3716324	147	2.1	149	85	2	420	38	10	19	31	1.85
3716342--3716721	145	2.6	144	84	0	481	31	14	25	28	1.95
3716866--3717282	53	7.9	53	82	5	506	40	19	8	31	1.81
3717295--3717539	55	4.5	55	86	2	321	39	15	9	35	1.80
3717295--3717539	110	2.2	110	88	1	357	39	15	9	35	1.80
3718737--3718817	28	2.9	28	92	3	128	22	3	32	41	1.71
3719452--3719583	7	18.9	7	89	7	180	1	11	0	87	0.62
3719459--3719568	1	110.0	1	79	0	121	0	10	0	90	0.47
3720944--3720989	20	2.3	20	96	0	83	52	17	17	13	1.75
3724602--3724660	26	2.2	28	81	6	68	59	11	6	22	1.56
3723850--3724985	591	1.9	587	89	3	1784	48	11	13	26	1.77
3740471--3740565	46	2.0	49	83	6	124	32	22	10	34	1.88
3742969--3743012	16	2.7	15	83	13	52	56	2	0	40	1.11
3742969--3743006	16	2.4	17	86	8	53	55	0	0	44	0.99
3748719--3748790	31	2.3	31	87	0	99	11	30	36	22	1.89
3748849--3748885	19	1.9	19	94	0	65	72	0	8	18	1.08
3748909--3749014	37	2.9	36	88	1	149	41	5	4	48	1.48
3748967--3749064	51	1.9	50	84	10	128	38	6	5	50	1.50
3754468--3754499	14	2.3	15	89	10	50	21	0	0	78	0.76
3773020--3773123	36	2.8	37	82	2	129	42	14	14	28	1.85
3773479--3773521	18	2.5	17	81	7	52	25	2	2	69	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3773975--3774051	40	2.0	40	82	14	99	31	5	7	55	1.50
3779260--3779434	72	2.4	75	83	8	200	27	17	12	42	1.86
3779276--3779471	73	2.7	72	79	11	170	27	16	14	41	1.88
3779450--3779602	39	3.6	39	70	21	128	27	21	13	37	1.91
3779505--3779824	106	3.1	105	90	3	488	30	19	12	37	1.89
3779724--3779799	36	2.1	36	92	0	125	22	19	15	42	1.89
3779999--3780419	105	4.0	106	88	3	586	33	24	18	22	1.96
3779999--3780419	205	2.0	212	86	3	595	33	24	18	22	1.96
3780961--3781065	37	2.8	37	85	0	138	41	14	14	29	1.85
3781409--3781451	18	2.5	17	81	7	52	25	2	2	69	1.12
3782498--3782563	33	2.1	31	83	8	80	36	22	15	25	1.93
3784940--3785010	23	3.1	23	82	8	81	5	16	40	36	1.73
3785004--3785046	23	1.9	22	90	4	68	4	6	41	46	1.51
3785512--3786208	240	2.9	239	84	2	871	35	17	15	31	1.92
3785893--3785992	42	2.4	41	79	1	110	35	22	17	26	1.95
3786061--3786356	148	2.0	148	87	0	432	33	19	17	29	1.95
3786280--3786385	42	2.5	41	75	4	113	30	21	20	27	1.98
3786439--3786650	56	3.8	56	87	1	298	42	19	10	27	1.83
3786439--3786653	113	1.9	113	89	1	333	42	19	10	27	1.83
3790541--3790572	13	2.5	13	100	0	64	46	12	15	25	1.81
3790877--3791038	40	4.1	40	90	0	252	25	17	24	33	1.96
3794405--3794512	56	1.9	56	98	0	207	41	9	12	37	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3799732--3799779	14	3.7	13	78	8	53	81	4	2	12	0.93
3799738--3799789	24	2.2	23	83	10	61	76	5	3	13	1.10
3805640--3805814	90	2.0	89	93	1	296	45	5	11	37	1.64
3812208--3812384	89	2.0	90	92	1	293	45	6	11	37	1.65
3829095--3829155	21	2.9	21	90	0	95	31	16	21	31	1.95
3835223--3835267	17	2.6	17	80	16	56	33	0	0	66	0.92
3836079--3836106	14	2.0	14	100	0	56	57	0	0	42	0.99
3836993--3837218	108	2.0	111	87	5	325	41	8	11	38	1.72
3839223--3839274	25	2.0	26	88	3	79	28	19	15	36	1.92
3839939--3839984	2	23.0	2	100	0	92	50	0	0	50	1.00
3846480--3846520	21	2.0	21	90	0	64	70	0	0	29	0.87
3852925--3852959	2	17.5	2	100	0	70	51	0	0	48	1.00
3854604--3854671	3	22.7	3	100	0	136	66	0	0	33	0.92
3855852--3856206	46	7.8	46	93	0	599	30	23	7	38	1.83
3857633--3857700	30	2.3	30	85	10	86	32	20	10	36	1.86
3857901--3858031	43	3.1	43	69	14	137	25	16	27	30	1.97
3857926--3858061	40	3.3	40	69	13	123	25	18	27	29	1.98
3857882--3858072	83	2.3	83	92	0	319	24	18	27	29	1.98
3859155--3859240	6	13.3	6	81	16	93	2	16	0	81	0.79
3859155--3859240	13	6.6	13	86	4	111	2	16	0	81	0.79
3859155--3859240	19	4.4	19	85	7	111	2	16	0	81	0.79
3865618--3865653	17	2.1	17	89	0	54	41	16	0	41	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3866149--3866202	21	2.5	21	81	6	63	31	24	22	22	1.98
3878109--3878324	72	3.0	72	90	0	333	35	25	6	32	1.81
3879130--3879175	18	2.5	18	92	3	74	43	0	6	50	1.28
3879717--3879746	14	2.1	14	93	0	51	80	0	0	20	0.72
3880131--3880173	16	2.8	16	89	3	61	30	20	13	34	1.92
3890521--3890586	6	10.0	6	80	15	60	74	3	0	22	0.96
3890506--3890607	42	2.5	42	76	10	102	68	3	0	26	1.13
3891284--3891594	46	6.6	46	89	4	444	20	21	13	44	1.86
3891284--3891601	26	13.4	26	76	18	309	21	21	13	44	1.86
3899242--3899290	24	2.0	24	92	0	80	40	14	10	34	1.79
3901353--3901396	17	2.6	17	92	0	70	31	13	4	50	1.62
3905002--3905090	33	2.7	33	84	8	126	38	23	13	24	1.91
3905092--3905127	16	2.2	16	95	0	63	30	27	5	36	1.80
3907023--3907062	21	1.9	21	84	0	53	17	22	22	37	1.94
3909750--3909839	33	2.7	33	85	3	126	36	23	16	23	1.94
3909765--3909839	33	2.2	34	92	4	134	40	22	14	22	1.91
3910084--3910134	27	1.9	26	88	4	75	27	25	11	35	1.91
3910982--3911065	3	28.0	3	100	0	168	33	0	33	33	1.58
3915012--3915036	4	6.2	4	100	0	50	24	0	0	76	0.80
3920198--3920235	20	1.9	20	88	0	58	34	18	21	26	1.96
3920710--3920769	30	2.0	30	96	0	111	48	0	10	41	1.37
3929095--3929167	31	2.4	31	93	2	121	19	8	15	57	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3930407--3930442	3	11.7	3	94	5	63	33	0	0	66	0.92
3930409--3930441	16	2.1	16	100	0	66	30	0	0	69	0.88
3930798--3930833	19	1.9	18	88	5	54	27	25	25	22	2.00
3932784--3932813	15	1.9	16	93	6	53	30	6	3	60	1.39
3932803--3932854	2	25.5	2	96	3	95	48	1	0	50	1.12
3937004--3937245	122	2.0	121	93	0	412	31	14	19	34	1.92
3939979--3940194	75	2.9	74	91	1	324	33	16	21	28	1.95
3941154--3941372	54	4.0	54	80	6	210	40	14	18	26	1.89
3941780--3941856	22	3.5	23	85	7	97	36	12	14	36	1.84
3942528--3942615	45	2.0	45	97	0	167	21	22	21	34	1.97

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