genome.fa.s1279.2.7.7.80.10.50.1000.20.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: VEPZ01001279.1 Hibiscus syriacus cultivar Beakdansim tig00002511_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6984689

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   

This is table  20  of  29  ( 3433 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)
4626613--4626660	16	3.2	16	80	17	66	41	0	0	58	0.98
4628434--4628470	19	1.9	19	94	0	65	32	29	16	21	1.95
4628515--4628568	21	2.6	21	78	0	63	27	20	20	31	1.97
4628575--4628718	41	3.4	41	82	9	180	40	23	13	22	1.90
4628581--4628712	46	3.0	45	89	5	182	39	24	14	21	1.91
4628720--4628769	21	2.5	19	84	12	73	24	24	22	30	1.99
4628728--4628778	21	2.4	21	93	0	84	21	23	25	29	1.99
4628889--4628985	41	2.4	41	87	0	149	37	23	17	21	1.94
4628952--4629006	21	2.6	21	100	0	110	43	20	16	20	1.88
4629001--4629049	19	2.5	20	76	6	55	18	20	22	38	1.93
4628616--4629151	268	2.0	270	90	3	837	32	21	19	27	1.97
4629449--4629539	19	4.4	20	76	17	105	31	27	5	35	1.80
4629460--4629541	44	1.9	41	87	7	119	34	28	6	31	1.82
4632119--4632145	2	13.5	2	100	0	54	51	0	0	48	1.00
4632217--4632257	13	3.2	13	89	0	55	43	9	17	29	1.80
4642598--4642643	10	4.4	11	81	8	51	78	0	13	8	0.97
4642598--4642640	20	2.1	21	91	4	70	79	0	13	6	0.93
4642601--4642705	17	6.8	14	73	19	68	77	1	18	2	0.99
4642622--4642713	25	3.8	24	80	11	98	77	2	17	3	1.01
4642601--4642705	8	13.6	7	76	15	68	77	1	18	2	0.99
4642613--4642725	16	6.8	16	71	13	59	75	1	17	5	1.08
4642622--4642713	9	11.2	8	74	16	73	77	2	17	3	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4645095--4645137	15	2.9	15	76	10	52	27	30	16	25	1.97
4646484--4646528	2	22.5	2	100	0	90	51	0	0	48	1.00
4646484--4646555	10	7.4	10	84	6	67	50	5	1	43	1.34
4648385--4648436	25	2.0	26	85	3	70	11	5	15	67	1.40
4650259--4650332	27	2.7	27	89	2	103	47	20	10	21	1.80
4651603--4651645	22	2.0	22	100	0	86	23	11	32	32	1.90
4654242--4654293	25	2.1	25	100	0	104	30	11	11	46	1.76
4655005--4655069	27	2.4	28	84	5	87	47	21	9	21	1.78
4656155--4656240	32	2.7	32	83	3	102	19	27	25	26	1.99
4660559--4660668	36	3.1	35	73	21	102	42	4	2	50	1.37
4660554--4660728	71	2.5	70	82	3	199	45	5	2	46	1.40
4672367--4672400	10	3.4	10	84	15	52	50	14	14	20	1.78
4675261--4675294	16	2.1	16	89	10	52	35	5	8	50	1.58
4678589--4678637	21	2.3	21	82	0	62	36	16	40	6	1.73
4678628--4678672	21	2.1	21	83	0	54	46	20	31	2	1.62
4679299--4679361	31	2.0	31	93	0	108	22	15	30	31	1.95
4683387--4683480	25	3.4	25	68	20	80	38	17	18	26	1.92
4683408--4683529	33	4.0	32	70	17	98	38	15	17	28	1.90
4683387--4683497	58	1.9	58	98	0	213	37	18	17	27	1.92
4688841--4688965	35	3.9	35	73	21	128	37	18	16	28	1.92
4688830--4688960	60	2.2	60	95	0	235	37	18	16	27	1.92
4688876--4688925	25	2.0	25	96	0	91	40	22	16	22	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4698590--4698645	25	2.2	26	83	3	69	39	5	0	55	1.23
4699642--4699720	38	2.1	38	100	0	158	27	17	17	36	1.93
4704236--4704277	22	1.9	22	85	9	59	35	0	33	30	1.58
4712136--4712177	22	1.9	22	85	9	59	35	0	33	30	1.58
4715799--4715849	25	2.0	26	88	7	77	39	9	0	50	1.35
4715808--4715862	25	2.2	26	80	9	60	41	7	0	50	1.30
4717271--4717446	20	8.6	20	78	8	149	25	25	20	28	1.99
4717535--4717584	22	2.3	22	92	0	82	20	42	16	22	1.89
4717979--4718030	20	2.6	20	90	0	77	17	19	26	36	1.94
4718018--4718061	20	2.2	20	87	0	61	13	13	20	52	1.74
4719780--4719829	18	2.8	18	96	0	91	32	18	6	44	1.74
4719977--4720042	20	3.3	20	91	0	96	36	22	21	19	1.95
4720087--4720142	20	2.8	20	94	0	94	17	17	23	41	1.90
4720092--4720153	20	3.2	19	93	4	90	16	17	25	40	1.90
4720645--4720686	21	2.2	19	87	12	59	21	35	19	23	1.96
4720670--4720761	42	2.2	42	82	3	105	26	35	16	21	1.94
4722149--4722211	14	4.4	14	78	6	63	38	0	15	46	1.47
4722309--4722362	20	2.7	20	85	5	74	42	27	18	11	1.84
4722356--4722507	54	2.8	54	87	1	207	25	20	21	32	1.97
4722407--4722697	20	15.8	20	70	16	207	26	17	21	35	1.95
4722407--4722697	34	7.9	40	72	16	182	26	17	21	35	1.95
4722498--4722635	54	2.6	54	83	0	186	24	16	23	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4722356--4722598	74	3.3	73	73	5	220	24	19	22	33	1.97
4722668--4722937	140	1.9	140	95	0	486	42	15	14	27	1.85
4725069--4725105	14	2.6	14	91	4	56	5	21	21	51	1.68
4726152--4726218	20	3.3	20	91	0	98	28	20	23	26	1.99
4726185--4726258	20	3.7	20	90	3	96	28	20	16	35	1.94
4733502--4733553	22	2.4	22	100	0	104	38	9	25	26	1.86
4742417--4742450	17	2.1	16	88	5	50	58	5	20	14	1.57
4747157--4747209	18	2.9	18	94	0	88	54	1	0	43	1.11
4749950--4749983	17	2.0	17	88	11	52	70	0	2	26	1.01
4750338--4750394	29	2.0	29	100	0	114	49	7	14	29	1.69
4750524--4750643	64	1.9	63	86	5	170	42	5	5	46	1.49
4750521--4750660	64	2.2	64	82	7	169	42	4	6	47	1.49
4751492--4751550	20	3.0	20	90	5	93	16	30	35	16	1.92
4754726--4754768	20	2.2	20	87	8	61	25	16	4	53	1.62
4756122--4756299	90	2.0	90	90	0	284	37	11	7	44	1.68
4760943--4760986	20	2.1	20	83	8	52	40	4	9	45	1.56
4762603--4762646	13	3.4	13	87	0	61	27	15	20	36	1.93
4762603--4762654	13	4.0	13	76	18	54	25	17	19	38	1.93
4767764--4767803	19	2.2	19	86	8	57	35	7	0	57	1.27
4767776--4767846	29	2.4	29	77	9	83	40	5	0	53	1.24
4768331--4768387	7	8.3	7	82	3	71	47	1	1	49	1.22
4768335--4768372	20	1.9	20	94	0	67	44	2	2	50	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4768737--4768803	23	2.9	23	90	0	98	31	23	8	35	1.86
4771611--4771724	38	3.0	38	88	0	165	35	11	18	34	1.87
4775796--4775868	3	24.7	3	97	2	139	65	0	0	34	0.93
4784508--4784536	13	2.2	13	100	0	58	48	20	24	6	1.74
4787781--4787840	31	2.1	30	84	12	81	55	1	6	36	1.36
4788314--4788401	27	3.3	27	91	0	149	10	7	35	46	1.67
4790291--4790332	21	2.0	21	85	0	57	78	7	2	11	1.04
4792678--4792788	57	2.0	56	83	5	143	28	19	22	28	1.98
4799379--4799418	21	1.9	21	85	10	55	35	10	2	52	1.48
4801336--4801371	18	2.1	18	89	5	56	27	16	22	33	1.95
4802336--4802511	36	4.8	36	69	6	120	36	13	20	29	1.90
4802336--4802790	78	6.0	74	81	8	323	37	14	18	30	1.90
4802494--4802833	39	8.7	39	89	2	477	37	15	16	30	1.90
4802827--4803046	73	3.0	72	76	10	252	39	15	14	30	1.87
4808722--4808759	17	2.2	18	90	4	60	60	0	2	36	1.11
4812791--4812829	21	1.9	21	89	5	62	33	23	2	41	1.68
4818082--4818119	14	2.7	15	84	12	53	52	7	10	28	1.64
4830703--4830837	36	3.8	35	84	7	173	20	24	20	35	1.96
4830703--4830848	72	2.0	72	89	5	224	18	25	18	37	1.93
4837371--4837402	3	10.7	3	100	0	64	31	0	0	68	0.90
4837466--4837530	30	2.2	29	88	2	94	44	35	13	6	1.69
4837479--4837545	29	2.3	29	84	5	82	46	37	10	5	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4844901--4845139	66	3.7	63	77	11	214	31	15	12	40	1.84
4845030--4845175	67	2.2	67	81	9	165	32	17	9	40	1.82
4845100--4845258	84	1.9	84	79	8	182	32	17	10	39	1.84
4845623--4845890	138	1.9	139	86	3	380	29	27	17	25	1.97
4846185--4846221	3	13.0	3	83	11	51	35	2	0	62	1.10
4848273--4848318	19	2.4	19	100	0	92	43	17	0	39	1.49
4848636--4848671	2	18.0	2	94	0	63	47	0	2	50	1.15
4849281--4849305	12	2.1	12	100	0	50	56	20	16	8	1.65
4851930--4851961	16	2.0	16	93	0	55	40	0	3	56	1.15
4855545--4855595	20	2.6	19	77	20	59	31	35	17	15	1.92

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