genome.fa.s8094.2.7.7.80.10.50.1000.24.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: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9952466

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   

This is table  24  of  43  ( 5090 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)
4839718--4840059	113	3.0	113	90	2	537	39	13	18	28	1.88
4840097--4840195	40	2.4	41	93	3	164	49	10	22	18	1.77
4840092--4840465	167	2.2	166	91	5	592	43	15	19	21	1.88
4840264--4840373	39	2.8	40	91	5	188	46	11	23	18	1.82
4840586--4840657	3	23.7	3	72	13	58	43	0	0	56	0.99
4840591--4840649	23	2.6	23	76	15	68	44	0	0	55	0.99
4840597--4840632	13	2.7	13	86	4	54	50	0	0	50	1.00
4840591--4840655	8	7.6	9	73	20	50	43	0	0	56	0.99
4840586--4840657	11	6.5	11	72	19	60	43	0	0	56	0.99
4840983--4841022	17	2.3	18	87	12	57	65	12	20	2	1.38
4841814--4841860	19	2.5	18	77	16	51	21	0	12	65	1.25
4844311--4844366	27	2.1	27	86	0	76	33	14	8	42	1.77
4845155--4845204	21	2.2	24	86	10	70	50	4	4	42	1.40
4845762--4846176	163	2.6	161	77	8	405	39	13	8	38	1.75
4846506--4846538	2	17.5	2	87	12	52	45	0	0	54	0.99
4846506--4846538	11	3.1	11	95	4	59	45	0	0	54	0.99
4846799--4846865	27	2.6	27	90	6	104	44	5	13	35	1.68
4847080--4847108	15	1.9	15	100	0	58	13	13	13	58	1.63
4848309--4848688	189	2.0	189	100	0	760	39	19	12	28	1.88
4849312--4849676	193	1.9	193	97	1	687	35	24	9	30	1.86
4849905--4849962	25	2.4	25	83	13	68	50	22	1	25	1.59
4852592--4852635	22	2.0	23	95	4	81	43	4	4	47	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4852714--4852821	32	3.4	31	83	3	117	16	24	28	30	1.96
4852714--4852840	32	4.0	31	78	8	112	18	25	27	27	1.98
4853403--4853473	31	2.3	30	79	9	81	33	2	5	57	1.37
4854787--4854821	2	17.5	2	100	0	70	51	0	0	48	1.00
4854723--4854893	80	2.1	82	88	5	251	46	7	8	37	1.62
4855448--4855661	115	1.9	115	98	0	419	31	1	29	37	1.68
4856103--4856176	12	5.9	12	75	16	62	54	0	5	40	1.24
4864191--4864411	110	2.0	111	96	0	408	44	10	8	35	1.70
4864534--4864574	10	4.1	10	84	12	57	39	0	29	31	1.57
4866217--4866270	22	2.5	22	81	0	63	42	1	3	51	1.30
4868217--4868251	15	2.4	15	90	4	54	77	0	0	22	0.78
4873515--4873565	20	2.6	19	82	14	59	29	29	13	27	1.94
4876575--4876617	21	2.0	21	95	0	77	23	25	23	27	2.00
4876991--4877063	2	36.5	2	100	0	146	50	0	0	49	1.00
4878744--4878776	17	1.9	17	100	0	66	66	3	30	0	1.06
4888604--4888657	20	2.7	19	72	11	54	27	29	14	27	1.95
4888636--4888745	41	2.7	41	92	0	184	32	18	14	34	1.91
4888744--4888786	20	2.2	20	91	0	68	39	20	18	20	1.93
4888918--4888960	22	2.0	22	85	0	59	23	34	13	27	1.93
4889234--4889277	19	2.3	19	96	0	79	50	22	13	13	1.77
4889279--4889344	19	3.4	19	91	2	105	13	21	19	45	1.85
4891638--4891677	22	1.9	21	85	10	55	50	17	0	32	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4891908--4891976	23	3.0	23	76	0	84	30	23	26	20	1.98
4892749--4892909	74	2.2	74	96	0	295	21	30	31	16	1.95
4892898--4892954	15	3.7	15	92	2	96	28	29	26	15	1.96
4894018--4894062	21	2.1	21	91	0	72	15	22	28	33	1.95
4894951--4894993	17	2.6	16	78	7	50	39	25	0	34	1.56
4897618--4897686	23	3.0	23	73	0	75	31	23	24	20	1.98
4898705--4898775	2	36.0	2	97	2	135	49	0	0	50	1.00
4899158--4899202	21	2.1	21	87	0	63	15	24	28	31	1.96
4900250--4900349	42	2.4	42	80	9	114	25	34	18	23	1.96
4900250--4900349	21	4.8	21	71	11	62	25	34	18	23	1.96
4901800--4901839	14	2.9	14	80	0	53	30	0	17	52	1.45
4901749--4901889	66	2.2	66	83	8	177	31	1	17	50	1.54
4902227--4902313	39	2.2	39	93	4	149	18	14	20	45	1.84
4902297--4902380	35	2.4	35	78	7	82	23	13	25	38	1.91
4902621--4902657	18	2.1	18	89	0	56	54	8	5	32	1.53
4903041--4903090	25	2.0	25	96	0	91	44	22	8	26	1.80
4903151--4903192	20	2.1	20	95	0	75	42	16	23	16	1.88
4903201--4903262	20	3.1	20	80	0	88	35	22	19	22	1.96
4905881--4905934	24	2.2	24	93	0	90	40	20	18	20	1.91
4906822--4906907	19	4.4	19	72	15	68	26	17	23	32	1.96
4906822--4907071	20	12.6	20	73	15	121	25	17	24	32	1.97
4913495--4913519	13	1.9	13	100	0	50	56	8	0	36	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4913842--4913874	2	16.5	2	100	0	66	51	0	0	48	1.00
4913874--4913906	2	16.5	2	100	0	66	51	0	48	0	1.00
4914108--4914138	12	2.5	12	94	5	53	45	0	6	48	1.28
4914102--4914164	32	1.9	33	84	9	85	47	1	6	44	1.38
4925086--4925152	34	2.0	34	93	0	116	34	20	16	28	1.95
4942398--4942471	20	3.4	20	75	20	76	18	25	13	41	1.87
4942385--4942975	47	12.6	47	92	0	907	19	21	14	44	1.86
4942512--4942592	27	3.3	27	66	28	79	19	20	14	44	1.86
4942821--4942894	20	3.3	20	67	22	58	18	24	16	40	1.90
4952259--4952309	19	2.6	20	90	3	77	43	23	17	15	1.88
4952296--4952349	20	2.7	20	94	0	90	51	18	18	11	1.74
4952384--4952634	20	12.4	20	87	2	313	36	17	24	21	1.94
4952363--4952634	103	2.7	103	91	1	442	36	17	24	21	1.94
4952259--4952647	40	9.6	39	75	12	148	38	18	22	19	1.93
4952724--4952766	6	7.2	6	100	0	86	34	48	16	0	1.46
4953449--4953544	6	16.5	6	98	1	171	0	16	52	31	1.45
4953616--4953655	20	2.0	20	90	0	62	12	17	17	52	1.74
4953648--4953798	20	7.4	20	87	4	203	19	26	17	36	1.94
4953628--4953811	40	4.5	41	77	14	175	19	25	16	39	1.92
4953646--4953819	83	2.1	83	93	0	294	19	26	17	36	1.94
4953648--4953798	63	2.5	59	81	10	194	19	26	17	36	1.94
4953833--4953857	12	2.1	12	100	0	50	8	20	24	48	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4954111--4954137	12	2.2	12	100	0	54	74	0	7	18	1.05
4955043--4955311	150	1.8	144	84	4	367	33	11	19	35	1.88
4957746--4957814	33	2.1	34	89	8	106	46	0	17	36	1.48
4959285--4959311	2	13.5	2	100	0	54	51	0	0	48	1.00
4959608--4959654	15	3.1	15	93	0	85	38	21	12	27	1.90
4964841--4964894	23	2.3	23	90	0	81	24	25	24	25	2.00
4965385--4965424	13	2.9	14	88	7	55	35	12	7	45	1.70
4967755--4967782	14	2.0	14	100	0	56	57	14	21	7	1.61
4967997--4968022	12	2.2	12	100	0	52	76	0	15	7	0.99
4973911--4973971	21	2.9	22	75	15	58	72	4	21	1	1.13
4973906--4973971	26	2.5	26	78	4	71	71	6	19	3	1.21
4975137--4975224	36	2.4	37	84	5	117	29	20	13	36	1.91
4975280--4975320	15	2.7	15	92	0	64	24	24	17	34	1.96
4975322--4975581	131	2.0	131	82	0	313	25	31	18	25	1.97
4975814--4975858	3	15.0	3	100	0	90	33	0	0	66	0.92
4980000--4980044	22	2.0	22	100	0	90	35	17	17	28	1.93
4982474--4982695	23	9.2	24	75	17	160	45	3	7	43	1.50
4982626--4982678	21	2.5	21	76	14	63	47	3	5	43	1.45
4982716--4982766	16	3.2	16	97	0	93	15	5	0	78	0.93
4982710--4982763	22	2.5	22	79	8	58	14	7	0	77	0.97
4983870--4983910	19	2.2	19	86	8	57	19	0	0	80	0.71
4987589--4987656	24	2.8	24	80	12	86	32	26	17	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4998407--4998475	22	3.0	22	85	8	86	44	2	8	43	1.50
4998438--4998543	25	4.2	25	66	16	67	48	1	8	41	1.44
4998554--4998593	21	1.9	21	84	0	53	42	5	10	42	1.60
4998588--4998628	2	21.0	2	80	14	50	46	0	2	51	1.14
4999799--4999842	4	10.8	4	81	13	54	22	0	0	77	0.77
4999798--4999842	14	3.1	14	87	6	63	22	0	0	77	0.76
5001401--5001485	23	3.7	23	71	16	68	60	4	0	35	1.18
5002074--5002117	21	2.1	21	82	0	52	29	0	6	63	1.20
5003217--5003288	29	2.4	29	84	6	92	19	27	20	31	1.97
5011943--5012044	29	3.5	30	80	6	113	35	7	16	40	1.78

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