genome.fa.s8016.2.7.7.80.10.50.1000.22.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: VEPZ01008016.1 Hibiscus syriacus cultivar Beakdansim tig00110482_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5469637

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  22  of  25  ( 2971 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)
4833060--4833108	21	2.3	21	100	0	98	24	32	18	24	1.97
4837355--4837388	16	2.1	16	100	0	68	23	8	44	23	1.81
4841547--4841587	21	2.0	21	90	0	64	24	24	24	26	2.00
4841609--4841650	21	2.0	21	90	0	66	23	23	23	28	2.00
4842323--4842403	31	2.6	31	96	0	144	40	23	18	17	1.91
4842409--4842452	20	2.2	20	100	0	88	25	34	13	27	1.93
4845427--4845556	65	2.0	65	100	0	260	29	7	33	29	1.85
4846148--4846242	42	2.3	42	84	0	118	25	9	17	47	1.78
4847842--4847882	16	2.6	16	88	3	57	36	7	21	34	1.82
4849697--4849741	21	2.1	21	83	4	54	40	8	4	46	1.55
4849773--4849942	72	2.3	73	80	2	180	44	8	12	34	1.73
4850170--4850360	99	1.9	99	86	0	274	35	14	10	38	1.82
4850173--4850404	99	2.3	101	83	2	261	35	14	12	38	1.83
4850529--4850719	73	2.7	70	78	11	226	32	15	8	42	1.78
4850854--4851072	75	2.9	76	85	4	255	38	15	8	37	1.77
4851175--4851334	73	2.1	76	82	5	193	36	18	11	33	1.87
4851446--4851587	76	1.9	77	86	4	207	35	19	9	35	1.85
4851709--4851855	77	1.9	78	83	9	194	36	14	10	38	1.81
4850924--4852040	262	4.3	261	85	4	1405	35	17	9	37	1.82
4851785--4852222	185	2.4	185	90	0	669	34	16	8	40	1.80
4851785--4852276	185	2.7	185	86	2	560	34	16	8	40	1.80
4853766--4853801	19	1.9	19	94	5	65	69	0	0	30	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4853766--4853801	6	5.8	6	93	6	63	69	0	0	30	0.89
4859751--4859859	24	4.5	24	75	6	96	49	15	13	21	1.79
4859763--4859822	12	5.0	12	72	8	59	48	16	15	20	1.81
4859751--4859857	48	2.2	47	81	6	117	49	15	13	21	1.78
4861384--4861643	130	2.0	130	100	0	520	32	16	13	37	1.88
4863713--4864191	182	2.6	182	90	1	746	41	14	16	26	1.87
4866378--4866442	21	3.1	21	81	0	85	43	10	29	16	1.82
4866462--4866491	15	1.9	16	93	6	53	50	3	33	13	1.58
4866590--4866655	33	2.0	33	87	0	96	31	0	43	24	1.54
4866479--4866697	99	2.2	99	97	0	411	33	1	39	24	1.66
4866769--4866807	18	2.2	18	95	0	69	56	0	41	2	1.13
4868388--4868437	19	2.6	19	93	0	82	34	2	8	56	1.40
4868987--4869125	69	2.0	69	100	0	278	41	15	14	28	1.86
4869056--4869812	201	3.8	201	87	1	988	38	14	14	32	1.87
4870109--4870152	15	2.9	15	86	6	63	22	40	6	29	1.80
4872711--4873839	200	5.7	200	88	1	1597	38	13	14	33	1.85
4872674--4873839	399	2.9	398	89	1	1750	38	13	14	33	1.85
4872711--4873839	599	1.9	598	88	1	1699	38	13	14	33	1.85
4875294--4875327	17	2.0	17	88	0	50	29	0	23	47	1.52
4878108--4878784	205	3.4	198	83	6	756	39	13	15	30	1.86
4878092--4878784	201	3.4	199	82	6	785	39	13	15	30	1.86
4878888--4878916	15	1.9	15	100	0	58	37	20	13	27	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4888559--4888597	18	2.2	17	90	4	60	41	0	0	58	0.98
4893517--4893567	3	17.3	3	76	11	52	60	5	0	33	1.21
4893511--4893575	10	6.1	11	75	22	50	60	4	0	35	1.18
4893511--4893579	21	3.4	21	82	13	83	59	4	0	36	1.17
4896700--4896744	23	1.9	23	82	13	56	51	0	4	44	1.21
4922559--4922600	20	2.1	20	82	8	50	61	9	2	26	1.39
4923783--4923809	2	13.5	2	100	0	54	48	0	0	51	1.00
4924084--4924116	16	2.1	16	94	0	57	57	21	12	9	1.62
4924185--4924229	16	2.8	16	93	0	81	55	22	13	8	1.65
4925313--4925360	10	4.4	10	78	19	51	54	25	12	8	1.65
4925320--4925361	14	3.3	14	75	25	56	52	26	14	7	1.67
4925313--4925361	24	2.0	24	100	0	98	53	24	14	8	1.68
4928017--4928154	36	3.9	36	94	0	242	42	15	15	26	1.88
4929424--4929464	16	2.6	16	88	0	55	24	14	21	39	1.91
4932358--4932492	36	3.8	36	94	1	227	40	15	17	27	1.89
4937594--4937643	2	25.0	2	95	0	91	48	0	2	50	1.12
4942389--4942446	29	2.0	29	100	0	116	17	34	17	31	1.93
4957375--4957413	17	2.4	17	91	4	62	33	0	7	58	1.26
4958860--4958923	29	2.2	29	91	0	101	29	15	29	25	1.96
4960146--4960188	18	2.4	18	88	0	59	11	34	30	23	1.90
4960194--4960234	18	2.3	18	86	0	55	21	29	21	26	1.99
4960252--4960284	17	1.9	17	93	0	57	45	12	6	36	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4960241--4960475	127	1.8	128	81	7	289	30	20	14	34	1.92
4963026--4963286	41	6.4	41	74	8	226	31	20	17	30	1.95
4965016--4965092	33	2.3	33	84	0	91	24	23	37	14	1.92
4965100--4965155	29	1.9	29	92	0	94	17	30	37	14	1.90
4965214--4965299	29	3.0	29	94	0	154	22	30	33	13	1.93
4967951--4968174	44	5.2	42	77	10	202	27	22	20	30	1.98
4967951--4968174	43	5.2	43	78	10	208	27	22	20	30	1.98
4967952--4968174	86	2.6	84	80	9	245	27	22	19	30	1.98
4971544--4971673	42	3.0	43	89	4	208	21	18	20	40	1.92
4971544--4971713	86	2.0	84	79	10	184	24	18	18	38	1.93
4971670--4971822	81	1.9	81	81	5	184	32	20	16	31	1.94
4974780--4974845	27	2.4	27	92	0	114	36	10	6	46	1.63
4977741--4977782	20	2.2	20	83	12	52	73	14	7	4	1.21
4980436--4980481	21	2.2	21	92	0	74	8	19	0	71	1.11
4986933--4986970	20	1.9	20	88	0	58	31	15	13	39	1.86
4986910--4986950	14	2.9	14	96	0	73	34	12	17	36	1.87
4988607--4988706	35	3.0	32	88	7	130	34	22	23	21	1.97
4988620--4988716	35	2.8	33	89	4	133	32	23	20	22	1.98
4988819--4988859	14	2.9	14	92	0	64	36	9	17	36	1.82
4988842--4988879	20	1.9	20	88	0	58	31	15	13	39	1.86
4992509--4992533	2	12.5	2	100	0	50	52	0	0	48	1.00
5005029--5005064	18	2.0	18	100	0	72	16	50	22	11	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5015214--5015259	18	2.6	18	92	0	83	50	10	23	15	1.75
5027146--5027195	24	2.1	24	88	7	75	26	2	14	58	1.47
5030409--5030452	15	3.0	15	83	12	56	15	0	6	77	0.97
5031637--5031676	17	2.4	17	100	0	80	52	0	27	20	1.46
5032773--5032822	24	2.1	24	88	7	75	26	2	14	58	1.47
5038497--5038545	22	2.2	23	88	3	73	51	10	22	16	1.74
5040889--5041120	41	5.9	41	73	13	200	22	24	18	34	1.96
5041003--5041115	20	5.6	20	73	2	109	21	23	17	37	1.94
5041372--5041417	20	2.3	20	92	0	74	45	19	23	10	1.82
5041560--5041605	19	2.3	20	81	3	58	21	15	30	32	1.94
5043245--5043286	2	21.0	2	100	0	84	50	0	0	50	1.00
5043865--5043911	25	2.0	24	87	8	69	36	0	6	57	1.24
5044618--5044653	15	2.4	15	90	0	54	30	0	0	69	0.89
5044751--5044819	34	2.1	33	83	2	84	36	2	7	53	1.44
5052981--5053012	2	16.0	2	100	0	64	50	0	0	50	1.00
5057603--5057631	2	14.5	2	100	0	58	51	0	0	48	1.00
5066949--5066986	5	7.6	5	85	8	51	21	2	0	76	0.91
5068712--5068750	19	2.1	19	86	13	55	48	0	2	48	1.15
5072633--5072711	3	26.3	3	78	5	79	44	0	0	55	0.99
5072622--5072716	12	8.2	12	80	12	83	45	0	0	54	0.99
5072901--5072930	16	1.9	15	93	6	51	33	26	20	20	1.97
5074045--5074125	41	2.0	40	85	7	110	49	2	2	45	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5074071--5074120	2	27.5	2	77	18	56	52	0	0	48	1.00
5074913--5074972	29	2.1	28	84	6	77	31	5	1	61	1.27
5074891--5074974	29	2.9	28	75	16	73	30	5	1	61	1.27
5076344--5076430	43	2.0	44	86	2	122	29	12	24	33	1.92
5076531--5076568	20	2.0	20	89	5	60	13	7	13	65	1.46
5084155--5084810	45	14.6	45	91	0	1062	24	22	19	33	1.97
5084989--5085031	3	14.3	3	100	0	86	34	0	0	65	0.93
5086037--5086061	13	1.9	13	100	0	50	24	0	12	64	1.27
5086088--5086147	2	30.0	2	94	0	102	46	0	1	51	1.10
5086562--5086820	139	1.9	137	87	6	380	39	6	6	46	1.57

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