genome.fa.s9625.2.7.7.80.10.50.1000.15.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: VEPZ01009625.1 Hibiscus syriacus cultivar Beakdansim tig00117017_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6938204

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   

This is table  15  of  25  ( 2922 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)
4515745--4515932	100	1.9	99	84	5	254	40	9	19	29	1.83
4515843--4515943	43	2.3	43	82	1	121	39	11	18	29	1.87
4517669--4517720	22	2.4	22	86	0	77	26	17	13	42	1.86
4522825--4522874	20	2.6	19	87	9	75	38	24	18	20	1.93
4523780--4523826	24	2.0	24	100	0	94	29	19	17	34	1.94
4526095--4526130	18	2.0	18	88	0	54	55	22	2	19	1.56
4526416--4526465	20	2.5	20	96	0	91	44	26	18	12	1.84
4527070--4527106	18	2.1	18	89	0	56	32	5	10	51	1.60
4527062--4527114	24	2.2	24	86	0	70	35	3	13	47	1.61
4527418--4527503	39	2.2	39	89	2	138	50	18	13	17	1.79
4527742--4527799	20	2.9	20	76	0	71	15	17	20	46	1.84
4527858--4527997	66	2.2	60	86	7	181	51	17	0	30	1.50
4529595--4529636	12	3.5	12	83	0	57	66	2	2	28	1.16
4531649--4531680	13	2.5	13	100	0	64	78	15	6	0	0.95
4531653--4531686	13	2.8	12	91	8	52	76	14	8	0	1.01
4531888--4531933	22	2.1	22	83	0	56	26	6	39	28	1.81
4532066--4532230	20	8.2	20	85	2	215	20	18	23	38	1.94
4532222--4532283	21	3.0	21	95	0	115	38	16	24	20	1.92
4532202--4532317	42	2.8	41	71	7	101	33	15	22	28	1.95
4532296--4532346	20	2.5	20	72	12	59	25	15	29	29	1.96
4537119--4537222	54	1.9	54	100	0	208	48	3	8	39	1.52
4537705--4537737	16	2.1	16	88	11	50	48	24	0	27	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4538729--4538777	13	3.7	14	81	13	68	36	6	0	57	1.24
4539498--4539556	29	2.0	30	84	15	79	47	0	3	49	1.18
4553048--4553111	29	2.2	28	83	8	76	20	3	9	67	1.33
4558189--4558272	35	2.4	35	90	4	134	46	16	3	33	1.64
4568327--4568402	36	2.1	36	97	0	143	31	10	14	43	1.79
4585080--4585117	14	2.7	14	91	0	58	15	26	13	44	1.83
4586416--4586489	35	2.1	35	82	5	87	35	17	21	25	1.95
4593037--4593072	12	3.0	12	83	0	54	50	16	25	8	1.73
4596376--4596415	21	1.9	21	84	0	53	42	2	5	50	1.37
4600554--4600618	3	22.0	3	76	14	64	33	3	0	63	1.10
4600557--4600617	32	2.0	31	84	9	81	32	3	0	63	1.10
4601785--4601862	29	2.6	30	78	13	90	26	3	2	66	1.22
4601785--4601863	30	2.7	28	77	14	79	27	3	2	65	1.22
4601876--4601927	14	3.6	14	78	16	54	32	1	0	65	1.04
4602234--4602277	23	1.9	23	85	0	61	47	4	0	47	1.22
4602428--4602461	17	2.0	17	88	0	50	44	26	8	20	1.81
4602770--4602849	27	3.1	26	76	13	76	33	6	1	58	1.31
4606168--4606200	16	2.1	16	94	0	57	27	18	3	51	1.60
4607656--4607681	11	2.4	11	100	0	52	42	38	7	11	1.70
4613529--4613561	14	2.3	14	94	5	57	75	0	12	12	1.04
4613522--4613579	20	2.9	21	80	15	77	72	0	15	12	1.12
4616412--4616835	119	3.6	118	88	4	610	38	15	19	27	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4616913--4616959	20	2.4	20	85	3	60	55	10	19	14	1.68
4617202--4617297	3	32.0	3	79	12	108	34	2	1	62	1.14
4618094--4618218	62	2.0	62	96	0	232	43	7	33	16	1.75
4618620--4618697	29	2.6	29	75	16	79	28	2	3	65	1.23
4618750--4618784	3	11.7	3	100	0	70	34	0	0	65	0.93
4619087--4619130	23	1.9	23	85	0	61	47	4	0	47	1.22
4625511--4625559	22	2.2	23	82	17	68	38	32	6	22	1.79
4627640--4627706	32	2.1	32	100	0	134	37	5	13	43	1.69
4631540--4631586	21	2.2	21	96	0	85	29	12	17	40	1.86
4633778--4634566	265	3.0	263	82	5	868	34	14	14	36	1.87
4635942--4636132	44	4.4	43	77	6	179	27	21	18	31	1.97
4636314--4636370	20	2.7	21	79	20	57	70	0	17	12	1.17
4636384--4636412	11	2.7	11	94	5	51	72	0	0	27	0.85
4640502--4640585	15	5.5	15	75	16	75	79	2	2	15	0.93
4640520--4640583	6	10.7	6	75	11	51	81	1	3	14	0.89
4640501--4640585	43	2.0	43	84	9	111	80	2	2	15	0.93
4649843--4649933	30	3.1	30	80	4	87	43	6	14	35	1.71
4650866--4650934	31	2.3	30	85	9	88	39	4	20	36	1.72
4651469--4651517	24	2.0	24	100	0	98	32	12	12	42	1.79
4651920--4652138	45	5.0	45	89	7	353	42	5	21	31	1.75
4652027--4652103	38	2.0	38	100	0	154	41	2	20	35	1.66
4651982--4652138	83	1.9	83	95	0	287	42	4	21	32	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4653797--4653835	20	2.0	20	95	5	71	69	5	10	15	1.34
4656367--4656404	19	2.0	19	85	10	51	50	7	5	36	1.54
4662456--4662505	21	2.3	21	79	6	55	32	18	12	38	1.87
4662456--4662512	23	2.6	21	77	5	60	33	19	10	36	1.86
4662503--4662544	21	2.0	22	90	4	68	21	33	23	21	1.97
4672758--4672796	19	2.1	19	100	0	78	48	10	10	30	1.70
4673509--4673911	43	9.3	43	90	1	554	33	23	24	18	1.96
4673528--4673918	130	3.0	130	88	1	604	33	23	24	18	1.97
4673527--4673911	173	2.2	173	90	0	608	33	23	24	18	1.97
4675784--4675943	65	2.5	65	85	7	211	28	18	23	29	1.98
4676433--4676496	2	32.5	2	96	3	121	51	0	0	48	1.00
4684396--4684521	65	1.9	65	85	6	175	29	18	23	29	1.97
4688306--4688353	18	2.9	16	80	14	53	68	4	2	25	1.18
4688363--4688396	2	17.0	2	100	0	68	50	0	0	50	1.00
4689004--4689048	23	2.0	23	86	4	65	31	0	4	64	1.13
4689062--4689140	7	10.2	8	71	17	53	32	0	2	64	1.07
4689071--4689141	32	2.2	33	78	12	85	33	0	2	63	1.09
4689941--4689968	5	5.6	5	100	0	56	21	0	0	78	0.75
4690035--4690102	9	7.7	9	71	12	52	17	4	5	72	1.22
4690056--4690097	20	2.0	21	86	4	59	16	2	7	73	1.15
4690085--4690128	15	2.9	15	82	0	61	18	4	0	77	0.94
4690065--4690123	21	2.8	22	80	14	63	15	5	1	77	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4690064--4690163	25	4.0	25	72	13	80	19	7	2	72	1.18
4695024--4695276	72	3.5	71	82	3	283	27	18	12	41	1.87
4695243--4695297	21	2.6	21	91	0	83	23	21	10	43	1.84
4695338--4695456	63	1.9	63	85	3	168	32	16	10	39	1.84
4695272--4695591	165	1.9	165	90	3	509	29	17	12	40	1.86
4695370--4695752	102	3.8	102	83	3	346	30	18	12	38	1.88
4695535--4695620	37	2.4	37	88	2	120	26	20	13	38	1.91
4695636--4695721	36	2.4	36	84	3	102	25	19	16	38	1.92
4695814--4695875	21	3.2	21	63	25	55	20	17	16	45	1.86
4695776--4695885	36	3.1	36	80	5	134	24	20	14	40	1.90
4695903--4695988	37	2.5	34	88	7	120	41	18	8	31	1.80
4697121--4697204	38	2.2	37	81	12	91	28	3	3	64	1.27
4697221--4697262	15	2.8	16	78	10	52	28	2	0	69	1.01
4697327--4697440	9	12.4	9	69	12	54	17	6	4	71	1.23
4697348--4697395	20	2.3	21	85	7	62	18	2	6	72	1.15
4697356--4697433	25	3.2	24	83	7	86	16	5	2	75	1.09
4697358--4697422	29	2.2	29	86	5	87	13	6	3	76	1.09
4699575--4699630	24	2.2	26	81	9	62	42	0	0	57	0.99
4699573--4699621	3	17.0	3	80	16	59	38	0	0	61	0.96
4700833--4701070	121	2.0	116	83	8	293	37	7	8	45	1.64
4701035--4701090	29	2.0	28	89	3	85	48	0	0	51	1.00
4701572--4701614	19	2.3	19	88	8	61	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4701572--4701633	20	3.2	19	84	9	63	32	0	1	66	1.02
4707140--4707359	114	1.9	114	89	0	341	34	15	20	30	1.93
4709870--4710036	22	7.6	22	91	0	262	32	13	14	39	1.85
4710607--4711540	228	4.2	228	91	3	1475	24	18	21	35	1.96
4711322--4711415	29	3.3	29	65	14	86	19	20	23	37	1.94
4710607--4711377	76	10.2	76	93	0	1323	24	18	21	34	1.96
4711325--4711434	57	1.9	57	100	0	220	17	20	24	37	1.94
4711249--4711514	133	2.0	133	95	0	478	22	19	22	36	1.95
4711382--4711540	76	2.1	76	90	2	259	22	19	22	35	1.96
4711474--4711575	45	2.3	45	91	0	159	23	18	20	37	1.94

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