genome.fa.s260.2.7.7.80.10.50.1000.25.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: VEPZ01000260.1 Hibiscus syriacus cultivar Beakdansim tig00000477_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5583615

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   

This is table  25  of  26  ( 3102 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)
5137923--5138126	110	1.9	110	88	0	309	22	19	23	34	1.96
5139201--5139243	18	2.3	18	80	15	52	2	11	4	81	0.93
5139203--5139242	17	2.2	17	86	8	53	2	10	5	82	0.91
5149290--5149320	16	1.9	16	93	0	53	74	3	9	12	1.19
5149251--5149322	36	2.0	36	83	5	92	72	4	6	16	1.23
5149310--5149393	22	3.7	22	66	18	57	63	1	5	29	1.26
5149341--5149403	31	2.1	31	82	11	78	60	1	6	31	1.31
5149321--5149410	48	1.9	46	82	13	112	61	1	6	31	1.29
5150499--5150555	11	5.0	11	77	8	51	59	1	1	36	1.18
5154001--5154056	17	3.5	17	77	20	50	23	1	1	73	1.03
5159647--5159682	17	2.1	17	90	10	56	0	41	0	58	0.98
5161014--5161090	37	2.1	37	85	4	102	48	1	3	46	1.28
5161940--5161976	15	2.4	16	82	17	51	59	2	0	37	1.12
5162258--5162315	25	2.3	25	100	0	116	13	20	22	43	1.87
5163079--5163148	34	2.1	34	88	0	104	30	5	21	42	1.76
5164793--5164857	31	2.1	31	91	0	103	21	23	12	43	1.86
5165572--5166388	81	10.1	81	90	0	1238	30	23	11	34	1.90
5166861--5166891	12	2.6	12	100	0	62	38	19	0	41	1.51
5166920--5166972	22	2.5	21	79	8	63	26	26	15	32	1.95
5168994--5169068	2	37.5	2	94	0	132	48	0	2	49	1.15
5170879--5170934	28	2.0	29	86	10	80	42	12	3	41	1.60
5171380--5171482	46	2.3	45	88	3	152	21	22	11	44	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5171508--5171919	81	5.1	81	87	1	565	29	24	11	33	1.91
5172452--5172544	42	2.2	41	84	1	114	25	21	12	39	1.89
5172837--5172887	20	2.5	20	93	0	84	45	29	3	21	1.70
5172853--5172894	20	2.4	17	84	15	50	47	30	7	14	1.71
5181260--5181302	2	22.0	2	95	4	79	51	0	0	48	1.00
5181969--5182134	51	3.3	51	92	3	255	47	9	5	37	1.59
5182883--5182925	16	2.6	16	75	17	52	53	6	0	39	1.28
5184927--5184969	20	2.2	20	86	0	59	27	23	16	32	1.96
5185890--5185926	18	2.1	18	94	0	65	37	10	0	51	1.37
5188381--5188463	41	2.0	41	100	0	166	49	14	0	36	1.44
5190444--5190497	27	2.1	25	82	6	63	44	9	3	42	1.54
5190516--5190541	13	2.0	13	100	0	52	30	15	23	30	1.95
5191013--5191359	139	2.6	127	84	11	482	46	16	15	21	1.83
5191206--5191230	4	6.2	4	100	0	50	76	0	0	24	0.80
5191510--5191534	4	6.2	4	100	0	50	76	0	0	24	0.80
5191194--5191809	304	2.0	310	97	2	1181	52	9	14	23	1.71
5192952--5193401	117	3.9	117	84	3	611	26	21	14	37	1.92
5193475--5193512	14	2.7	14	100	0	76	28	23	28	18	1.98
5193693--5194228	73	7.3	73	87	4	611	35	13	20	29	1.92
5193701--5194228	36	14.3	36	67	6	178	36	13	20	29	1.91
5193693--5194228	148	3.6	148	86	4	642	35	13	20	29	1.92
5196159--5196264	8	12.0	8	73	19	52	1	22	0	75	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5196168--5196247	14	5.5	14	75	16	74	1	22	0	76	0.86
5196164--5196264	45	2.3	46	86	10	147	1	22	0	75	0.91
5196199--5196277	36	2.2	36	86	6	108	2	25	0	72	0.98
5196249--5196285	11	3.5	11	89	10	60	8	21	0	70	1.13
5199771--5199824	27	2.1	26	80	19	60	46	9	3	40	1.54
5200021--5200089	14	5.0	13	71	23	52	76	5	1	15	1.04
5200020--5200096	26	3.0	26	83	10	81	74	6	1	18	1.11
5200030--5200096	26	2.7	26	86	9	86	73	7	1	17	1.14
5199979--5200096	26	4.6	25	73	15	73	70	6	1	21	1.19
5200328--5200710	127	2.9	128	79	11	391	50	14	13	22	1.77
5200422--5200723	127	2.4	127	83	6	396	50	13	14	21	1.77
5202551--5202604	3	18.3	3	96	3	101	33	0	0	66	0.92
5206916--5206949	14	2.4	14	90	0	50	5	14	0	79	0.91
5206895--5206945	25	2.0	25	88	7	77	9	15	0	74	1.06
5207189--5207280	44	2.1	44	81	4	105	29	17	18	34	1.94
5207497--5207903	103	4.0	102	90	3	597	39	11	15	32	1.83
5207496--5207903	205	2.0	205	89	3	626	39	11	15	33	1.83
5232860--5232896	17	2.1	18	90	5	58	54	0	0	45	1.00
5236181--5236220	20	2.0	20	90	4	64	37	0	7	55	1.29
5250927--5250975	25	2.0	24	88	4	71	44	0	0	55	0.99
5252395--5252529	45	3.1	44	87	5	184	24	16	5	54	1.62
5253407--5253444	10	3.7	10	80	19	51	57	5	0	36	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5253401--5253448	21	2.3	20	93	6	87	58	4	0	37	1.18
5257648--5257697	23	2.2	23	100	0	100	24	16	26	34	1.95
5263600--5263656	14	4.0	14	74	14	55	54	26	1	17	1.53
5265583--5265637	23	2.4	23	93	3	94	18	23	36	21	1.95
5269462--5269501	21	1.9	21	90	10	64	30	5	7	57	1.48
5274638--5274673	17	2.2	17	90	5	56	58	5	0	36	1.22
5275275--5275349	31	2.4	31	81	0	105	44	0	9	46	1.35
5276071--5276133	31	2.2	28	81	15	76	31	26	20	20	1.98
5277533--5277572	15	2.6	16	84	4	55	12	5	0	82	0.82
5280304--5280334	2	15.5	2	100	0	62	48	0	0	51	1.00
5280560--5280599	20	2.0	20	95	0	71	25	12	15	47	1.80
5281885--5281937	22	2.6	20	77	13	54	56	0	0	43	0.99
5282033--5282094	31	2.0	31	96	0	115	29	11	0	59	1.32
5296315--5296347	14	2.3	15	84	10	50	12	27	9	51	1.69
5297061--5297120	30	2.0	30	96	0	111	21	40	18	20	1.92
5299377--5299491	36	3.2	36	86	1	151	26	17	19	36	1.94
5301591--5301636	5	9.6	5	79	9	51	60	0	0	39	0.97
5305315--5305357	16	2.7	15	75	10	50	60	0	0	39	0.97
5306725--5306785	31	2.0	31	90	0	95	45	9	1	42	1.47
5306729--5306785	15	3.7	15	73	13	53	47	8	1	42	1.45
5308984--5309015	2	16.5	2	93	6	57	46	0	0	53	1.00
5311112--5311149	17	2.2	17	95	0	67	50	15	18	15	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5314136--5314162	10	2.7	10	100	0	54	40	48	0	11	1.39
5319874--5319955	41	2.0	41	95	0	146	31	7	28	32	1.84
5321204--5321284	33	2.4	33	87	2	108	27	11	4	56	1.54
5326977--5327452	110	4.4	110	88	1	690	35	22	18	24	1.96
5326970--5327452	221	2.2	216	87	4	716	34	22	18	24	1.96
5327564--5328155	85	7.0	85	79	4	592	31	25	18	24	1.98
5327567--5328154	169	3.5	167	81	3	626	31	25	18	24	1.98
5331323--5331389	32	2.1	32	100	0	134	46	19	19	14	1.84
5333919--5334043	59	2.1	59	78	8	130	39	14	12	33	1.84
5335854--5335949	48	2.0	48	97	0	183	33	28	10	28	1.90
5336822--5336872	18	2.8	18	93	0	84	29	31	23	15	1.95
5337035--5337081	18	2.6	18	96	0	85	38	14	2	44	1.58
5344227--5344305	24	3.5	23	84	6	74	30	18	20	30	1.97
5344243--5344305	24	2.6	24	92	0	108	30	17	20	31	1.96
5344295--5344430	62	2.2	64	82	5	161	27	16	16	38	1.90
5348041--5348082	2	21.0	2	100	0	84	50	0	0	50	1.00
5348565--5348607	18	2.5	17	85	7	61	67	2	4	25	1.22
5349021--5349089	34	2.0	34	88	0	102	34	13	10	42	1.77
5349685--5349943	98	2.6	98	82	5	286	19	20	25	34	1.96
5349685--5350077	105	3.8	102	77	7	316	20	20	25	33	1.97
5350868--5351048	65	2.8	65	92	0	299	36	11	20	31	1.88
5350998--5351102	36	2.9	37	88	2	158	38	15	22	23	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5351968--5352022	22	2.5	22	100	0	110	23	12	27	36	1.91
5352632--5352711	22	3.6	22	77	17	69	1	13	8	76	1.08
5352648--5352699	21	2.6	18	77	16	50	1	11	9	76	1.09
5352683--5352733	15	3.2	16	79	17	54	0	13	7	78	0.96
5355253--5355281	5	5.8	5	100	0	58	82	0	0	17	0.66
5356987--5357027	18	2.4	16	84	15	55	70	2	4	21	1.18
5357444--5357512	34	2.0	34	94	0	120	31	14	11	42	1.82
5359409--5359451	22	2.0	22	85	0	59	9	6	20	62	1.48
5360601--5360663	20	3.5	17	74	18	56	77	1	7	12	1.05
5360609--5360657	20	2.4	20	90	10	73	79	0	4	16	0.88

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