genome.fa.s190.2.7.7.80.10.50.1000.60.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   

This is table  60  of  62  ( 7381 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)
13940710--13940809	16	6.4	16	67	15	59	34	1	0	65	1.00
13940711--13940804	31	2.9	32	73	17	88	34	1	0	64	1.00
13942089--13942133	22	2.1	22	88	12	67	28	0	4	66	1.11
13943359--13943422	21	3.0	21	75	6	67	6	29	17	46	1.72
13943610--13943670	23	2.7	23	84	0	86	14	26	24	34	1.94
13943618--13943708	23	4.1	22	78	7	85	17	19	26	36	1.94
13944756--13944801	3	15.0	3	90	4	74	63	0	4	32	1.14
13944757--13944835	6	13.5	6	90	5	72	53	0	13	32	1.41
13944794--13944834	3	13.7	3	84	0	55	41	0	24	34	1.55
13945246--13945302	25	2.4	23	78	18	64	47	1	1	49	1.22
13948147--13948199	3	17.7	3	100	0	106	33	33	0	32	1.58
13949229--13949262	14	2.5	14	90	4	52	67	0	0	32	0.91
13949346--13949370	4	6.2	4	100	0	50	24	0	0	76	0.80
13950533--13950576	2	22.0	2	100	0	88	50	0	0	50	1.00
13952759--13952880	32	3.8	32	77	4	113	48	3	22	26	1.66
13953059--13953134	2	38.0	2	100	0	152	50	0	0	50	1.00
13957022--13957079	27	2.1	28	84	9	75	44	10	17	27	1.81
13959512--13959551	21	1.9	21	94	0	71	30	15	7	47	1.72
13959546--13959644	33	3.0	32	89	4	144	32	8	15	44	1.75
13959630--13959684	13	4.2	13	75	13	58	34	3	12	49	1.59
13959880--13959936	21	2.7	21	97	0	105	21	28	26	24	1.99
13960103--13960159	15	3.6	15	75	13	60	33	12	10	43	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13960122--13960156	18	1.9	18	94	0	61	40	11	8	40	1.72
13965633--13965659	6	4.5	6	100	0	54	33	0	33	33	1.58
13966046--13966100	10	5.8	10	72	12	53	21	9	10	58	1.60
13966046--13966083	20	1.9	20	94	0	67	21	10	10	57	1.61
13966059--13966114	27	2.1	27	93	0	94	23	5	10	60	1.50
13966064--13966123	27	2.4	25	83	10	70	23	6	10	60	1.52
13966092--13966158	24	2.9	23	80	8	64	16	7	14	61	1.55
13968233--13968275	3	14.3	3	80	0	50	32	2	2	62	1.20
13970428--13970786	131	2.7	131	91	0	592	34	12	16	36	1.86
13972430--13972454	13	1.9	13	100	0	50	48	0	0	52	1.00
13972654--13972731	12	6.5	12	69	19	56	51	16	15	16	1.77
13972626--13972731	24	4.4	24	79	4	115	53	14	14	17	1.72
13972623--13972731	48	2.3	48	88	0	155	53	14	13	18	1.73
13974981--13975013	11	2.8	12	86	9	50	57	12	9	21	1.62
13974981--13975015	12	3.0	12	87	8	54	57	11	8	22	1.61
13976970--13977037	24	2.8	24	79	0	73	52	13	10	23	1.70
13977023--13977065	17	2.5	17	84	0	59	55	11	9	23	1.64
13979189--13979228	14	2.7	15	84	3	55	25	20	30	25	1.99
13980166--13980238	20	3.7	20	98	0	137	38	21	20	19	1.94
13980225--13980331	20	5.3	20	89	0	151	30	25	20	23	1.98
13980127--13980332	60	3.4	61	75	10	156	32	23	19	24	1.98
13981173--13981225	24	2.2	24	90	3	81	20	16	20	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13983606--13983694	20	4.4	20	88	0	133	38	25	19	16	1.92
13983686--13983739	14	3.5	14	73	22	54	44	20	24	11	1.83
13983666--13983761	33	2.9	34	92	3	158	43	20	22	12	1.86
13983699--13983765	20	3.7	19	72	22	72	46	19	22	11	1.82
13983798--13983851	14	3.5	14	73	22	54	11	24	20	44	1.83
13983776--13983871	33	2.9	34	88	3	140	13	23	19	42	1.87
13983977--13984014	14	2.7	15	84	12	53	47	18	0	34	1.49
13985316--13985433	42	2.8	42	76	10	107	22	16	38	22	1.93
13985899--13985954	20	2.8	20	83	0	67	44	21	17	16	1.86
13985907--13985990	20	4.2	20	85	0	105	39	20	20	20	1.93
13985986--13986127	20	7.4	20	82	9	163	15	19	23	42	1.89
13988001--13988158	73	2.1	74	94	1	282	43	24	16	15	1.86
13988002--13988144	20	7.5	20	79	9	129	41	24	17	16	1.89
13988135--13988184	14	3.6	14	91	0	82	48	30	14	8	1.72
13988135--13988215	14	5.4	15	76	21	73	46	28	16	8	1.76
13988549--13988605	22	2.6	22	91	0	87	24	14	40	21	1.90
13988809--13988914	20	5.3	20	96	0	185	18	19	19	41	1.91
13988911--13988956	21	2.2	21	88	0	65	39	15	26	19	1.91
13991692--13991757	29	2.3	29	92	5	107	33	10	21	34	1.88
13992474--13992544	19	3.7	19	98	0	133	35	18	25	21	1.95
13993296--13993342	13	3.4	14	82	11	53	38	4	27	29	1.76
13993431--13993475	18	2.5	18	81	0	54	20	20	28	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13995494--13995617	60	2.1	59	82	7	146	43	12	8	35	1.73
13996400--13996454	2	27.5	2	100	0	110	50	0	0	49	1.00
13996454--13996554	2	50.5	2	97	0	184	48	0	51	0	1.00
13998705--13998749	21	2.1	21	87	0	63	31	28	24	15	1.96
13999102--13999141	18	2.4	16	87	8	53	37	5	17	40	1.72
13999102--13999142	16	2.4	18	88	8	59	36	4	17	41	1.71
13999441--13999596	31	5.0	31	90	1	242	21	19	21	37	1.94
14002658--14002702	21	2.1	21	87	0	63	31	28	24	15	1.96
14003054--14003093	18	2.4	16	87	8	53	37	5	17	40	1.72
14003054--14003094	16	2.4	18	88	8	59	36	4	17	41	1.71
14003391--14003546	31	5.0	31	92	1	251	21	19	21	37	1.95
14004592--14004666	23	3.4	22	87	7	107	26	17	28	28	1.98
14005596--14005622	2	13.5	2	100	0	54	51	0	48	0	1.00
14008909--14009266	129	2.7	130	83	1	430	39	16	12	31	1.85
14010040--14010080	21	2.0	21	95	0	73	12	24	39	24	1.89
14011167--14011205	19	2.1	19	90	0	60	15	23	38	23	1.92
14014408--14014532	31	4.0	31	91	2	189	40	24	16	19	1.91
14015189--14015345	64	2.5	64	81	4	156	26	19	20	33	1.96
14016133--14016189	23	2.5	23	88	0	87	33	22	22	21	1.97
14021872--14021910	19	2.1	19	90	0	60	15	25	35	23	1.94
14029360--14029400	19	2.2	19	100	0	82	31	14	36	17	1.90
14029706--14029781	3	25.3	3	100	0	152	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14030994--14031106	35	3.2	34	88	5	163	43	21	0	35	1.53
14031587--14031917	20	16.5	20	86	3	443	33	26	18	21	1.96
14031549--14031917	60	6.2	60	84	3	413	35	26	18	20	1.95
14032590--14032636	24	2.0	24	87	8	69	25	14	21	38	1.92
14032811--14032835	12	2.1	12	100	0	50	72	0	28	0	0.86
14035140--14035469	19	18.4	19	83	12	448	47	17	20	14	1.83
14035153--14035491	71	4.8	72	79	16	376	47	17	20	14	1.83
14035140--14035469	52	6.1	55	88	8	429	47	17	20	14	1.83
14035140--14035501	142	2.6	138	90	6	541	46	17	20	14	1.83
14035498--14035599	19	5.6	19	85	12	151	14	23	17	44	1.86
14035706--14035742	14	2.6	14	91	0	65	45	21	0	32	1.52
14035737--14035809	12	6.0	12	67	20	53	57	16	1	24	1.47
14035723--14035795	38	1.9	38	97	0	137	53	16	1	28	1.51
14037649--14037741	33	2.8	33	93	0	159	46	21	21	10	1.81
14037612--14037746	19	7.6	19	73	16	110	44	23	20	11	1.84
14037742--14037870	19	7.3	19	75	17	125	8	17	28	45	1.77
14037742--14037833	33	2.8	33	93	3	150	7	18	28	45	1.76
14037914--14038293	93	4.1	93	99	0	753	46	18	12	22	1.83
14037914--14038293	185	2.0	186	99	0	753	46	18	12	22	1.83
14039998--14040087	14	5.7	14	72	23	72	42	22	25	10	1.84
14039990--14040104	33	3.5	33	93	0	203	45	20	24	10	1.82
14039997--14040109	19	6.8	18	70	23	79	43	21	24	10	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14040121--14040175	14	3.6	14	73	21	56	9	27	23	40	1.85
14040296--14040366	33	2.2	33	92	0	115	47	18	22	11	1.80
14040548--14040602	22	2.5	22	81	0	74	20	16	40	23	1.91
14040748--14040941	20	9.6	20	82	5	221	19	19	25	35	1.95
14040748--14040941	60	3.2	60	83	0	253	19	19	25	35	1.95
14040934--14041010	21	3.7	20	70	13	57	27	16	23	32	1.96
14040996--14041047	20	2.6	20	96	0	95	21	13	26	38	1.90
14041993--14042102	35	3.1	34	86	2	148	35	0	20	43	1.58
14044467--14044504	4	9.5	4	86	11	51	23	0	0	76	0.79
14047831--14047890	31	2.0	31	86	3	86	38	15	13	33	1.86

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   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62