genome.fa.s8747.2.7.7.80.10.50.1000.47.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: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12616935

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   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   

This is table  47  of  51  ( 6054 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)
11709111--11709159	19	2.6	19	84	9	57	24	28	20	26	1.99
11711950--11712030	37	2.2	37	97	0	153	40	19	14	24	1.90
11735896--11735921	6	4.3	6	100	0	52	80	0	0	19	0.71
11736431--11736484	2	27.0	2	100	0	108	50	0	0	50	1.00
11737806--11737862	20	2.7	21	78	8	62	70	0	1	28	0.98
11737813--11737864	26	1.9	27	84	7	70	65	0	1	32	1.04
11738162--11738218	19	3.3	19	63	27	54	45	14	7	33	1.71
11741051--11741166	57	2.0	57	100	0	232	37	17	8	37	1.80
11743067--11743143	21	3.7	20	74	6	64	42	14	10	32	1.79
11749777--11749822	23	2.0	24	91	4	76	36	26	19	17	1.94
11749888--11749975	21	4.2	21	69	16	56	38	18	13	29	1.89
11750643--11750709	35	1.9	35	84	6	91	25	28	13	32	1.93
11763708--11763781	34	2.2	34	100	0	148	60	20	5	13	1.52
11768986--11769147	64	2.5	62	80	9	193	27	16	26	29	1.97
11769099--11769145	19	2.5	19	83	10	62	27	17	29	25	1.97
11768990--11769195	64	3.2	60	80	13	173	27	16	25	30	1.97
11775012--11775064	21	2.6	21	82	11	65	35	9	1	52	1.45
11776977--11777025	19	2.7	17	84	9	53	26	18	30	24	1.98
11776994--11777155	64	2.5	62	82	7	193	27	14	26	30	1.95
11778306--11778376	34	2.2	32	77	15	76	49	2	1	46	1.25
11778347--11778427	27	3.0	26	74	13	74	50	2	1	45	1.22
11778467--11778517	23	2.2	23	89	6	77	47	1	3	47	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11778502--11778553	22	2.3	22	83	9	61	53	3	0	42	1.19
11779572--11779619	23	2.1	23	84	7	62	50	4	2	43	1.33
11782100--11782136	17	2.2	17	95	0	65	18	13	18	48	1.80
11782212--11782272	21	2.7	23	76	14	74	27	8	26	37	1.85
11789268--11789331	21	2.9	23	77	13	80	26	10	21	40	1.86
11789880--11789934	2	27.5	2	92	0	92	45	0	3	50	1.19
11790853--11790900	22	2.2	22	84	0	60	58	2	2	37	1.22
11790946--11790986	10	3.5	12	77	16	50	39	0	2	58	1.11
11790947--11791042	20	4.6	20	68	19	61	37	4	1	57	1.25
11796231--11796296	35	2.0	33	82	8	80	37	7	9	45	1.64
11799007--11799061	17	3.5	17	69	23	57	29	25	16	29	1.97
11801811--11802049	14	16.8	14	65	14	78	41	30	1	26	1.66
11801811--11801959	7	21.6	7	68	10	65	42	30	0	26	1.60
11801895--11801987	42	2.2	42	83	7	109	41	31	1	25	1.62
11802307--11802358	17	3.1	17	94	0	95	19	23	34	23	1.96
11813647--11813755	41	2.7	41	85	5	132	31	19	14	34	1.92
11813688--11813800	41	2.8	41	85	8	149	32	15	15	37	1.88
11816576--11816631	22	2.5	22	85	2	58	42	1	12	42	1.53
11816589--11816631	22	2.0	22	90	0	68	44	2	6	46	1.43
11816965--11817023	28	2.1	28	87	0	82	33	8	15	42	1.77
11820064--11820100	15	2.3	17	86	9	51	40	8	8	43	1.64
11824291--11824328	17	2.2	18	90	4	60	39	2	0	57	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11824366--11824405	17	2.4	17	78	0	53	40	0	0	60	0.97
11824496--11824538	16	2.8	16	89	3	61	39	11	20	27	1.88
11824508--11824538	16	1.9	16	100	0	62	38	12	19	29	1.89
11828258--11828287	13	2.3	13	100	0	60	16	46	23	13	1.82
11828245--11828281	18	2.1	18	100	0	74	16	48	24	10	1.77
11828276--11828309	15	2.3	15	89	0	50	20	35	20	23	1.96
11828297--11828336	17	2.4	17	100	0	80	17	25	32	25	1.97
11829626--11829661	18	2.0	18	88	0	54	50	5	22	22	1.70
11830792--11830892	24	4.2	24	72	6	71	22	15	15	45	1.85
11832810--11832852	15	2.9	15	85	0	59	51	2	0	46	1.13
11836777--11836807	15	2.1	15	100	0	62	19	48	19	12	1.81
11839327--11839483	30	5.4	30	71	9	110	56	9	13	21	1.65
11839346--11839550	112	1.8	114	83	6	274	57	10	12	19	1.63
11846595--11846635	3	13.3	3	94	5	73	65	0	0	34	0.93
11846935--11847122	43	4.3	44	68	16	122	23	17	32	26	1.97
11846908--11847183	131	2.1	131	87	0	390	23	18	31	26	1.97
11847315--11847375	32	1.9	32	83	6	79	39	11	21	27	1.88
11849928--11849963	3	11.3	3	88	11	54	63	0	0	36	0.94
11849930--11849963	10	3.5	10	96	4	61	61	0	0	38	0.96
11850283--11850332	26	2.0	25	88	7	75	30	2	6	62	1.31
11850439--11850472	2	17.0	2	100	0	68	50	0	0	50	1.00
11858279--11858319	21	2.0	21	90	0	64	21	19	24	34	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11858418--11858482	19	3.4	19	95	0	121	27	29	15	27	1.96
11858418--11858497	19	4.2	19	90	0	61	26	31	16	26	1.96
11858418--11858497	38	2.1	38	88	0	115	26	31	16	26	1.96
11861564--11861651	33	2.7	33	80	7	97	25	14	25	35	1.94
11863811--11863881	30	2.3	30	83	11	83	45	25	5	23	1.75
11865007--11865041	16	2.2	16	95	5	63	22	37	5	34	1.78
11867191--11867215	2	12.5	2	100	0	50	52	0	0	48	1.00
11869381--11869414	14	2.4	14	95	0	59	20	20	20	38	1.94
11872344--11872423	14	5.4	14	76	16	81	41	2	1	55	1.21
11872343--11872443	40	2.6	39	81	4	114	45	1	0	51	1.19
11872350--11872420	3	25.0	3	72	11	60	38	2	1	57	1.22
11872636--11872685	21	2.3	22	80	13	59	20	50	12	18	1.78
11876245--11876404	55	2.9	55	83	0	212	45	11	20	22	1.83
11881057--11881104	9	5.7	9	90	7	66	70	0	22	6	1.09
11881099--11881189	1	91.0	1	77	0	92	89	0	8	2	0.58
11881050--11881174	9	14.3	9	75	15	59	82	0	14	3	0.79
11881085--11881183	18	5.6	18	79	4	96	86	0	12	1	0.61
11881092--11881189	12	8.3	12	84	5	121	87	0	10	2	0.62
11881085--11881178	7	13.3	7	82	12	86	87	0	11	1	0.60
11881092--11881190	23	4.3	23	82	8	121	86	0	11	2	0.64
11881085--11881189	34	3.1	34	81	10	124	86	0	11	1	0.65
11881092--11881190	45	2.2	46	87	3	137	86	0	11	2	0.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11882476--11883128	55	11.9	55	84	3	818	30	20	26	22	1.98
11882476--11883128	219	3.0	217	85	3	837	30	20	26	22	1.98
11882476--11883126	274	2.4	273	86	3	873	30	19	26	22	1.98
11883295--11883398	14	7.2	14	78	9	102	40	1	1	55	1.22
11883302--11883412	3	38.3	3	73	10	88	36	1	2	58	1.23
11886812--11886881	20	3.5	20	75	11	79	47	1	7	44	1.39
11894543--11894577	18	1.9	18	94	0	61	48	0	2	48	1.16
11899409--11899586	27	6.6	27	89	0	275	19	19	10	51	1.75
11900788--11900849	12	5.0	12	81	13	72	79	3	11	6	1.04
11900769--11900825	25	2.2	25	84	9	71	73	5	10	10	1.23
11900788--11900849	13	5.1	11	77	14	52	79	3	11	6	1.04
11901531--11901609	28	2.8	28	90	0	131	35	34	6	24	1.81
11902912--11902972	20	2.9	21	73	11	63	19	31	26	22	1.98
11903175--11903236	20	3.0	21	72	13	65	19	29	25	25	1.99
11902857--11903904	132	7.9	132	94	0	1794	24	22	22	30	1.99
11904141--11904189	3	17.0	3	81	8	57	38	0	2	59	1.09
11910333--11910395	21	3.0	21	85	0	81	31	20	22	25	1.98
11920403--11920930	36	14.2	36	78	10	324	48	3	4	42	1.42
11920472--11920896	105	3.8	109	77	12	386	49	4	4	42	1.41
11920577--11920952	39	9.8	37	81	9	253	47	4	4	43	1.44
11920769--11920813	16	2.7	17	82	6	65	53	0	2	44	1.13
11920979--11921029	12	4.2	12	75	12	50	15	1	3	78	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11921685--11921725	21	2.0	21	100	0	82	17	9	24	48	1.76
11921911--11921946	14	2.6	14	90	0	54	13	13	16	55	1.69
11922210--11922254	23	2.0	23	95	0	81	13	8	15	62	1.54
11922333--11922365	16	2.1	16	94	0	57	9	12	24	54	1.66
11923575--11923612	17	2.2	18	90	9	62	50	5	18	26	1.68
11923684--11925647	4	500.5	4	93	5	3410	24	0	25	49	1.53
11925769--11925819	16	3.3	15	89	5	68	60	15	9	13	1.58
11925777--11925825	16	3.1	16	93	0	80	57	20	12	10	1.64
11925879--11925971	24	3.9	24	87	1	116	64	19	7	8	1.45
11926232--11926263	14	2.1	16	88	11	50	50	18	15	15	1.79

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   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51