genome.fa.s2647.2.7.7.80.10.50.1000.15.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: VEPZ01002647.1 Hibiscus syriacus cultivar Beakdansim tig00005406_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7027529

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   

This is table  15  of  26  ( 3011 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)
3529907--3529972	23	3.0	22	66	26	57	34	0	10	54	1.35
3533639--3533995	131	2.7	131	86	0	471	32	9	16	41	1.80
3538706--3538736	2	16.0	2	93	6	55	51	0	0	48	1.00
3540421--3541268	134	6.3	134	79	4	766	30	21	17	30	1.96
3540421--3541242	267	3.1	266	80	5	791	30	22	17	30	1.96
3540429--3541242	401	2.0	402	80	6	907	30	21	17	30	1.96
3541437--3541491	3	18.7	3	81	3	67	32	1	1	63	1.15
3543569--3543905	130	2.6	130	86	1	442	33	10	14	40	1.81
3554916--3555353	54	8.1	54	86	1	583	33	20	18	27	1.96
3554916--3555353	215	2.0	217	87	1	621	33	20	18	27	1.96
3555235--3555322	27	3.3	27	61	17	65	29	22	18	29	1.97
3561603--3561648	18	2.6	18	83	10	60	76	6	2	15	1.09
3564035--3564079	20	2.3	19	80	3	54	37	0	22	40	1.54
3565443--3565561	30	3.8	31	84	6	143	32	14	23	29	1.94
3565439--3565587	30	4.8	30	81	4	118	31	14	25	28	1.94
3565537--3565594	30	1.9	30	92	0	98	29	12	29	29	1.93
3566070--3566116	18	2.6	19	83	16	64	51	6	4	38	1.47
3574893--3575037	30	4.7	30	83	3	137	32	13	24	30	1.93
3577083--3577362	150	1.9	150	93	0	488	31	17	17	33	1.93
3578288--3578335	21	2.2	21	77	3	51	12	8	10	68	1.39
3578677--3578726	25	2.0	26	84	4	66	74	4	4	18	1.14
3582939--3582980	22	1.9	22	85	9	59	11	11	9	66	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3587368--3587400	17	1.9	17	93	0	57	21	33	24	21	1.97
3588253--3588304	14	3.9	14	80	14	65	80	1	13	3	0.93
3588253--3588306	26	2.1	26	86	6	74	81	1	12	3	0.91
3588639--3588688	22	2.3	22	96	0	91	22	8	22	48	1.76
3590108--3590149	21	2.0	21	95	0	75	28	4	11	54	1.57
3590249--3590284	18	2.0	18	100	0	72	66	0	11	22	1.22
3597226--3597287	31	2.0	31	87	0	88	30	22	19	27	1.98
3597788--3597844	29	2.0	29	82	6	71	26	17	26	29	1.97
3601831--3601906	32	2.4	30	83	10	98	10	25	31	32	1.89
3601847--3601918	32	2.3	32	85	7	94	13	27	31	26	1.94
3602580--3602652	32	2.3	31	83	6	85	12	23	30	34	1.91
3606585--3606627	2	21.5	2	86	9	61	46	0	2	51	1.13
3608554--3608585	2	16.5	2	93	6	57	50	0	0	50	1.00
3614385--3614432	20	2.5	20	80	9	57	68	2	0	29	1.01
3615493--3615528	18	2.1	16	90	10	54	72	5	22	0	1.05
3619555--3619594	18	2.2	18	95	0	71	77	0	7	15	0.98
3623301--3623386	31	2.9	29	79	6	109	46	6	15	31	1.72
3623740--3623800	30	2.0	31	96	3	115	22	3	37	36	1.71
3625069--3625117	24	2.0	24	92	0	80	34	10	14	40	1.79
3627465--3627660	94	2.1	94	79	6	211	40	13	19	26	1.88
3627989--3628394	54	7.5	54	90	1	609	33	11	17	37	1.85
3633745--3633815	19	3.5	21	78	12	69	39	12	21	26	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3634225--3634613	54	7.2	53	90	2	589	32	11	16	39	1.84
3640180--3640224	23	2.0	23	82	4	56	11	6	20	62	1.50
3641219--3641615	54	7.4	54	90	1	609	32	11	17	38	1.86
3643685--3643993	158	2.0	153	89	5	478	33	11	16	37	1.85
3643632--3644015	54	7.2	54	84	9	491	33	11	16	38	1.85
3643632--3644066	108	4.1	108	79	11	410	32	11	17	38	1.85
3644777--3645172	81	4.9	81	90	1	589	32	19	11	36	1.88
3651565--3651895	81	4.1	81	89	0	475	30	20	11	37	1.89
3659839--3659885	20	2.3	20	96	0	85	19	17	25	38	1.92
3660014--3660072	31	1.9	31	92	0	100	50	6	1	40	1.39
3660838--3660863	2	13.0	2	100	0	52	50	0	0	50	1.00
3661812--3661891	2	40.0	2	97	0	151	50	1	0	48	1.08
3666089--3666141	16	3.1	16	86	13	70	66	0	0	33	0.92
3666122--3666259	42	3.4	42	74	10	99	47	5	0	45	1.32
3666116--3666236	2	62.5	2	71	18	87	47	5	0	45	1.32
3666248--3666306	28	2.1	28	81	6	66	57	6	0	35	1.25
3670896--3671129	118	1.9	127	88	11	369	45	9	16	29	1.78
3679613--3679663	22	2.4	21	81	9	59	35	11	5	47	1.65
3691168--3691210	20	2.2	20	83	8	52	74	0	9	16	1.06
3699987--3700041	21	2.6	21	76	21	60	32	12	18	36	1.88
3703143--3703440	44	6.7	44	89	1	443	37	6	22	33	1.80
3703143--3703444	89	3.4	89	92	0	489	38	6	21	33	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3709724--3709797	23	3.2	23	98	0	139	21	4	36	37	1.73
3713557--3713596	19	2.2	18	95	4	71	20	10	10	60	1.57
3714725--3714765	22	1.9	21	90	5	64	41	34	2	21	1.67
3715049--3715076	5	5.6	5	100	0	56	82	0	17	0	0.68
3718017--3718045	2	14.5	2	100	0	58	51	0	0	48	1.00
3721158--3721248	32	2.7	33	83	14	114	63	14	4	17	1.45
3725232--3725269	18	2.2	17	86	13	51	13	28	5	52	1.61
3726828--3726874	23	2.2	22	88	11	71	10	14	12	61	1.56
3731457--3731497	15	2.8	15	92	3	66	31	19	21	26	1.97
3732248--3732294	11	4.5	11	78	21	57	51	0	2	46	1.13
3732227--3732285	22	2.8	20	85	9	82	47	3	3	45	1.36
3732252--3732304	20	2.7	20	82	11	56	49	3	1	45	1.31
3732306--3732355	26	2.0	25	88	4	73	50	2	4	44	1.32
3732364--3732395	9	3.6	9	91	0	55	53	9	3	34	1.49
3732387--3732583	20	9.4	20	68	20	91	44	6	7	42	1.58
3732390--3732439	24	2.1	24	92	7	84	40	8	10	42	1.68
3732359--3732643	84	3.4	83	70	21	243	44	6	6	42	1.57
3732385--3732607	42	5.3	41	69	14	150	43	6	7	42	1.58
3732561--3732622	24	2.6	25	82	12	76	40	6	9	43	1.63
3732600--3732721	9	12.9	9	67	23	56	43	8	3	45	1.50
3732638--3732697	27	2.2	27	90	0	93	38	8	5	48	1.55
3732615--3732726	20	5.3	20	70	24	70	42	7	4	45	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3732680--3732847	27	6.5	27	65	24	76	45	7	3	43	1.48
3732680--3732748	34	2.0	36	85	5	97	46	7	2	43	1.46
3732743--3732845	27	3.9	25	78	10	89	45	6	3	43	1.48
3732665--3732791	47	2.7	47	73	16	125	46	7	3	41	1.51
3732818--3732849	15	2.1	16	94	5	57	50	6	0	43	1.27
3732916--3732970	18	2.8	18	86	10	65	40	9	7	43	1.64
3732962--3732990	13	2.1	14	93	6	51	62	6	0	31	1.22
3732965--3733017	15	3.3	15	78	14	61	52	5	3	37	1.43
3732967--3733079	18	6.6	18	73	8	94	49	6	6	38	1.53
3732965--3733119	69	2.3	68	88	4	231	47	7	5	39	1.57
3733178--3733319	61	2.3	61	91	0	221	47	5	10	36	1.62
3733543--3733872	103	3.3	101	82	5	400	30	31	6	31	1.83
3734054--3734155	12	8.6	12	70	2	62	47	41	5	5	1.52
3734048--3734164	6	19.8	6	67	6	51	45	42	5	6	1.53
3734054--3734138	30	2.8	31	75	3	84	48	40	5	5	1.52
3734125--3734167	17	2.5	17	100	0	86	44	44	6	4	1.52
3736323--3736367	20	2.2	20	88	7	65	17	11	15	55	1.68
3742482--3742516	16	2.2	16	89	0	52	60	14	8	17	1.58
3744251--3744303	20	2.7	20	80	8	63	32	15	30	22	1.94
3744972--3745273	81	3.8	81	89	2	432	35	11	22	30	1.90
3745332--3745679	45	7.7	45	92	0	500	45	7	22	24	1.78
3745380--3745451	22	3.2	22	64	11	56	47	8	23	20	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3745601--3745829	84	2.6	86	82	6	273	37	13	23	25	1.91
3745341--3745829	45	11.0	45	89	2	300	43	9	22	24	1.83
3745568--3745806	129	1.8	130	88	2	365	39	12	22	25	1.90
3750713--3750765	19	2.8	19	100	0	106	41	5	11	41	1.64
3751187--3751232	13	3.5	13	84	3	56	58	26	0	15	1.37
3752577--3752614	14	2.9	14	84	11	53	50	5	10	34	1.59
3775246--3775273	10	2.8	10	100	0	56	32	21	10	35	1.88
3785737--3785763	2	13.5	2	100	0	54	48	0	0	51	1.00
3795262--3795302	20	2.0	20	100	0	82	24	31	0	43	1.54
3799485--3799531	24	2.0	24	83	4	60	53	19	14	12	1.73

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