genome.fa.s7926.2.7.7.80.10.50.1000.30.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: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10075380

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   

This is table  30  of  42  ( 5024 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)
6318331--6318494	33	4.5	35	83	9	138	45	20	21	12	1.83
6318490--6318560	19	3.7	19	82	1	88	11	15	22	50	1.75
6319076--6319207	20	6.6	20	84	3	124	21	19	21	37	1.95
6319114--6319207	41	2.3	40	85	1	116	19	21	19	40	1.92
6323043--6323103	23	2.7	23	97	0	113	37	4	0	57	1.20
6323199--6323239	14	2.9	14	85	0	55	39	7	9	43	1.65
6323424--6323574	31	5.1	29	70	17	71	44	0	3	50	1.25
6323544--6323594	23	2.2	23	82	0	57	45	1	1	50	1.24
6323767--6323813	22	2.1	23	88	4	69	53	0	2	44	1.12
6323775--6323818	22	2.0	22	82	8	54	54	0	2	43	1.12
6323832--6323877	24	1.9	23	83	16	58	47	2	2	47	1.26
6328891--6328930	21	1.9	21	94	0	71	55	7	0	37	1.29
6342019--6342083	31	2.1	31	97	0	121	20	30	16	32	1.95
6344816--6344849	17	2.1	16	89	10	52	26	23	5	44	1.76
6348482--6348550	33	2.1	33	97	0	129	31	17	23	27	1.97
6349373--6349422	20	2.5	20	96	0	91	64	8	18	10	1.48
6350676--6350795	32	3.8	32	82	0	132	30	19	15	35	1.92
6350676--6350795	64	1.9	64	82	0	150	30	19	15	35	1.92
6353157--6353198	15	2.8	15	82	13	59	28	26	11	33	1.92
6353756--6353801	19	2.4	20	82	13	53	65	21	0	13	1.26
6357556--6357594	19	2.1	19	100	0	78	51	10	5	33	1.58
6368546--6368579	9	3.7	9	84	7	50	64	32	0	2	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6368926--6368956	4	7.8	4	100	0	62	77	0	0	22	0.77
6369474--6369521	3	16.0	3	95	0	87	64	2	0	33	1.05
6374570--6374640	26	2.7	26	97	2	133	36	4	11	47	1.59
6389357--6389639	30	9.7	30	68	17	166	50	2	7	39	1.42
6389501--6389633	57	2.3	59	84	5	162	54	0	6	37	1.32
6389357--6389634	118	2.4	113	75	12	274	51	2	7	39	1.42
6391171--6391195	2	12.5	2	100	0	50	52	0	0	48	1.00
6396569--6396628	21	2.7	23	82	10	79	33	31	18	16	1.93
6396634--6396713	21	3.8	21	69	0	61	42	15	13	28	1.85
6400527--6400583	21	2.8	21	81	7	64	36	1	3	57	1.26
6402024--6402185	64	2.5	63	78	14	161	32	16	21	29	1.95
6402913--6402942	15	2.0	15	93	0	51	50	3	26	20	1.64
6403144--6403213	30	2.3	30	87	0	95	27	20	21	31	1.98
6406054--6406156	45	2.3	45	85	5	129	33	17	20	28	1.95
6407140--6407212	30	2.4	30	90	0	110	26	19	23	31	1.98
6414531--6414675	78	1.9	77	86	1	209	28	16	15	39	1.90
6418137--6418175	20	2.0	20	89	0	60	38	7	0	53	1.30
6418400--6418670	31	8.3	30	72	15	200	43	1	11	42	1.51
6418366--6418731	69	5.4	68	84	5	510	43	1	11	42	1.50
6418712--6418744	11	3.1	11	95	4	59	63	0	9	27	1.24
6418802--6418835	12	3.0	12	87	12	54	17	0	5	76	0.98
6419928--6420009	22	3.7	22	93	0	128	25	23	26	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6421871--6421919	26	1.9	25	83	4	62	34	24	2	38	1.67
6425454--6425498	19	2.3	20	75	17	51	28	2	2	66	1.15
6429282--6429328	21	2.1	22	84	7	60	42	0	6	51	1.27
6429506--6429534	12	2.3	13	94	5	51	6	10	37	44	1.65
6429571--6429640	2	37.5	2	84	13	96	47	0	0	52	1.00
6429571--6429649	29	2.9	29	88	7	112	46	0	0	53	1.00
6436845--6436905	23	2.7	23	92	0	104	22	32	22	21	1.98
6439513--6439553	21	2.0	21	95	0	73	24	39	24	12	1.89
6444058--6444101	13	3.4	13	83	0	61	27	20	0	52	1.47
6444065--6444121	26	2.1	26	90	6	87	24	22	1	50	1.58
6444157--6444206	19	2.7	18	90	6	82	32	16	2	50	1.56
6447033--6447085	15	3.5	15	73	0	61	33	13	7	45	1.71
6447048--6447100	15	3.5	15	73	0	61	30	18	7	43	1.78
6447032--6447127	30	3.2	30	95	1	167	32	16	6	44	1.73
6448185--6448261	27	2.8	27	75	18	70	72	1	2	23	1.04
6448207--6448249	22	1.9	22	85	4	59	76	2	2	18	1.00
6448192--6448251	14	4.2	14	78	21	63	75	1	1	21	0.99
6449924--6451332	106	13.6	106	89	4	2137	23	17	25	33	1.97
6450468--6451332	105	8.2	105	91	2	1339	24	17	25	33	1.96
6455062--6455090	12	2.3	13	94	5	51	68	0	0	31	0.89
6455157--6455233	27	2.8	27	75	18	70	72	1	2	23	1.04
6455179--6455221	22	1.9	22	85	4	59	76	2	2	18	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6455164--6455223	14	4.2	14	78	21	63	75	1	1	21	0.99
6456482--6456605	51	2.5	51	83	6	148	43	7	5	43	1.55
6464467--6464509	21	2.0	21	86	0	59	30	27	25	16	1.97
6464489--6464640	68	2.2	68	89	1	225	26	27	27	18	1.98
6464943--6465014	29	2.5	29	83	0	90	37	11	12	38	1.79
6465306--6465372	22	3.0	22	100	0	134	19	26	26	26	1.99
6471420--6471462	21	2.0	21	86	0	59	30	27	25	16	1.97
6471420--6471589	66	2.6	66	86	3	218	27	27	26	18	1.98
6471892--6471963	29	2.5	29	83	0	90	37	11	12	38	1.79
6472255--6472321	22	3.0	22	100	0	134	19	26	26	26	1.99
6474464--6474861	211	1.9	213	88	3	604	36	17	15	30	1.91
6481064--6481175	35	3.2	35	87	0	152	41	21	0	36	1.53
6481171--6481245	35	2.1	35	82	4	89	34	0	21	44	1.53
6485628--6485941	156	2.0	156	98	1	603	29	27	21	21	1.98
6487095--6487130	19	1.9	18	88	5	54	27	5	0	66	1.13
6497527--6497564	1	38.0	1	94	0	67	97	0	2	0	0.18
6498353--6498814	105	4.4	106	92	1	716	32	25	19	22	1.98
6498352--6498814	211	2.2	210	90	2	723	32	25	19	22	1.98
6500780--6500818	19	2.0	21	90	10	64	28	5	0	66	1.12
6500775--6500818	22	2.0	21	86	4	61	29	6	0	63	1.20
6502474--6502538	30	2.2	30	85	0	85	46	10	13	29	1.77
6503424--6503480	30	1.9	29	86	10	80	38	26	5	29	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6507135--6507428	156	1.9	154	82	1	372	23	24	25	26	2.00
6507757--6507848	48	1.9	48	91	4	150	31	2	8	57	1.41
6508537--6508566	15	2.0	15	93	0	51	50	0	0	50	1.00
6510134--6510170	17	2.2	17	90	0	56	24	21	27	27	1.99
6511239--6511279	18	2.3	18	91	0	64	41	0	0	58	0.98
6518038--6518107	35	2.0	35	85	2	95	51	30	4	14	1.61
6518089--6518128	15	2.6	16	84	8	55	57	32	0	10	1.32
6524442--6524530	28	3.2	27	73	10	90	33	19	4	42	1.71
6525490--6525535	14	3.3	14	96	0	83	8	15	26	50	1.73
6525505--6525555	24	2.1	24	85	0	66	11	11	21	54	1.68
6526633--6526689	10	6.5	10	70	29	58	8	10	22	57	1.59
6526638--6526686	16	3.1	16	100	0	98	6	12	24	57	1.58
6529516--6529547	15	2.0	17	88	11	50	53	0	0	46	1.00
6529614--6529661	16	3.0	16	73	11	53	41	4	0	54	1.20
6534046--6534102	12	4.8	12	71	0	51	42	15	14	28	1.86
6534035--6534102	24	2.8	24	93	0	109	41	19	13	26	1.88
6534031--6534110	24	3.3	23	79	17	83	42	18	13	25	1.87
6534560--6534597	2	19.0	2	100	0	76	50	0	0	50	1.00
6534522--6534574	21	2.5	20	78	6	61	41	0	7	50	1.30
6536794--6537006	103	2.1	103	95	0	381	36	23	14	25	1.93
6538385--6538444	20	2.9	21	87	7	86	18	25	26	30	1.98
6539334--6539376	17	2.6	16	78	7	50	39	25	0	34	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6542115--6542183	23	3.0	23	89	0	102	26	26	27	20	1.99
6542205--6542411	103	2.0	103	95	0	369	35	24	13	26	1.92
6543780--6543839	20	2.9	21	87	7	86	18	25	26	30	1.98
6546686--6546737	21	2.6	19	76	14	52	48	1	0	50	1.12
6546722--6546782	22	2.7	23	80	10	72	47	1	0	50	1.10
6546685--6546787	22	4.6	22	66	19	61	47	1	0	50	1.12
6546742--6546812	24	3.0	24	76	13	67	50	0	1	47	1.09
6546795--6546905	30	3.8	30	77	12	99	47	4	0	46	1.28
6546894--6546952	28	2.0	32	87	12	90	37	3	1	57	1.25
6546979--6547037	23	2.5	24	75	13	68	55	1	0	42	1.09

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