genome.fa.s8087.2.7.7.80.10.50.1000.15.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: VEPZ01008087.1 Hibiscus syriacus cultivar Beakdansim tig00110597_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8279816

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   

This is table  15  of  37  ( 4336 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)
3470388--3470419	3	10.7	3	100	0	64	65	0	0	34	0.93
3474429--3474477	22	2.2	22	92	0	80	18	44	16	20	1.86
3474826--3474954	20	6.8	20	76	12	110	13	14	20	51	1.75
3477095--3477158	21	3.0	21	81	0	74	20	35	21	21	1.96
3477095--3477178	42	2.0	42	83	0	105	20	36	21	21	1.95
3477111--3477178	21	3.2	22	79	8	79	22	35	23	19	1.96
3478733--3478815	20	4.2	20	73	6	87	38	22	14	24	1.92
3481421--3481488	24	2.8	24	86	0	91	38	19	17	25	1.93
3482410--3482483	20	3.7	20	83	3	96	29	10	24	35	1.89
3482491--3482558	20	3.3	20	80	8	84	25	20	20	33	1.97
3485078--3485148	2	36.0	2	94	2	126	52	0	0	47	1.00
3485748--3485799	20	2.6	20	96	0	95	38	26	13	21	1.90
3485789--3485888	21	4.8	20	71	8	65	37	23	19	21	1.95
3485853--3485907	21	2.7	20	88	2	74	45	25	18	10	1.82
3485875--3486048	20	8.6	20	81	5	127	34	26	18	20	1.96
3485894--3486046	40	3.8	40	86	2	209	33	25	18	22	1.97
3485875--3486048	60	2.9	60	83	0	240	34	26	18	20	1.96
3486430--3486500	33	2.2	33	92	0	115	11	22	18	47	1.80
3486621--3486675	14	3.6	14	73	21	56	40	23	27	9	1.85
3486621--3486691	33	2.2	33	92	0	115	42	25	23	8	1.82
3486687--3486784	19	5.7	19	70	22	81	10	24	22	42	1.84
3486709--3486798	14	5.7	14	74	23	81	8	25	23	42	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3486692--3486806	33	3.5	33	95	0	212	9	24	20	45	1.81
3488505--3488972	93	5.1	93	98	0	913	22	12	19	45	1.83
3489019--3489147	19	7.3	19	73	17	98	45	26	17	10	1.80
3489055--3489147	33	2.8	32	88	4	141	46	24	19	9	1.80
3489143--3489277	19	7.6	19	75	16	128	11	19	23	45	1.82
3489165--3489221	14	3.7	14	77	20	60	10	21	22	45	1.82
3489148--3489240	33	2.8	33	95	0	168	10	20	21	47	1.80
3491086--3491158	38	1.9	38	97	0	137	28	1	16	53	1.51
3491081--3491145	19	3.4	19	64	8	51	24	1	15	58	1.46
3491140--3491175	14	2.6	14	95	0	63	33	0	22	44	1.53
3491288--3491389	19	5.6	19	84	13	151	44	17	23	14	1.86
3491418--3491724	19	17.4	19	78	17	351	14	20	17	47	1.83
3491418--3491657	71	3.4	71	82	13	348	15	20	17	47	1.82
3491386--3491724	142	2.4	137	89	7	515	15	20	17	46	1.83
3491418--3491696	52	5.2	52	90	6	345	15	20	16	47	1.83
3494029--3494053	12	2.1	12	100	0	50	0	28	0	72	0.86
3494228--3494274	24	2.0	24	87	8	69	38	21	14	25	1.92
3494948--3495336	20	19.5	20	87	4	480	20	19	25	34	1.96
3501240--3501287	21	2.2	21	77	3	51	47	16	16	18	1.82
3502620--3502677	28	2.2	26	84	6	71	27	15	3	53	1.58
3506976--3507000	11	2.3	11	100	0	50	32	16	12	40	1.84
3509922--3509976	2	27.5	2	100	0	110	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3518424--3518467	23	1.9	23	95	0	79	15	20	18	45	1.85
3521310--3521379	15	4.6	15	74	10	61	50	1	1	47	1.19
3521310--3521405	46	2.1	46	82	2	111	47	3	1	47	1.24
3523371--3523396	2	13.0	2	100	0	52	50	0	0	50	1.00
3531399--3531456	25	2.3	26	79	11	66	31	3	1	63	1.21
3550740--3550777	18	2.1	19	85	14	53	44	0	0	55	0.99
3565803--3566073	131	2.1	132	86	4	370	45	16	14	23	1.85
3569071--3569112	21	2.0	21	85	0	57	40	0	7	52	1.29
3582162--3582249	25	3.7	24	71	19	76	28	25	25	21	1.99
3582171--3582249	23	3.3	23	75	16	81	26	26	26	20	1.99
3589199--3589243	2	23.0	2	95	4	83	48	0	0	51	1.00
3593273--3593310	12	3.5	11	89	10	60	26	18	36	18	1.94
3598790--3598833	21	2.0	21	82	13	52	61	2	2	34	1.21
3598992--3599031	22	1.9	20	90	10	62	45	0	0	55	0.99
3600134--3600195	7	8.7	7	77	10	54	33	1	1	62	1.14
3600153--3600218	21	3.2	21	78	6	64	28	0	4	66	1.11
3613681--3613759	40	1.9	40	85	10	106	39	8	15	36	1.78
3613771--3613839	20	3.2	20	67	15	57	14	21	20	43	1.87
3613768--3613868	44	2.3	44	89	3	159	15	17	18	47	1.83
3613767--3613840	24	3.2	24	67	27	70	13	21	21	43	1.87
3614529--3614585	26	2.2	26	84	6	71	10	8	17	63	1.51
3614533--3614579	16	2.9	16	90	0	76	6	10	21	61	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3617148--3617208	12	4.8	13	78	10	54	73	3	0	22	0.97
3617150--3617236	37	2.2	39	84	8	115	70	4	0	25	1.06
3617271--3617304	10	3.4	10	91	0	59	29	0	35	35	1.58
3618721--3618771	2	25.5	2	100	0	102	49	0	0	50	1.00
3622820--3622873	22	2.5	22	100	0	108	44	0	3	51	1.19
3636002--3636053	15	3.4	15	94	2	86	61	0	5	32	1.20
3636423--3636469	18	2.8	16	78	12	58	29	2	2	65	1.15
3636428--3636466	21	1.9	19	90	10	60	28	2	2	66	1.18
3646336--3646382	14	3.7	14	71	26	50	44	0	4	51	1.21
3646335--3646384	23	2.1	24	96	3	93	48	0	4	48	1.20
3646560--3646599	14	2.9	14	88	0	53	22	0	22	55	1.44
3646549--3646605	21	2.7	21	77	0	60	21	0	26	52	1.47
3646606--3646707	49	2.1	48	81	5	116	37	9	4	48	1.58
3647090--3647129	21	1.9	21	89	0	62	22	0	27	50	1.50
3650904--3650943	21	1.9	21	89	0	62	10	25	40	25	1.86
3650924--3650986	20	2.9	21	79	9	65	15	25	34	23	1.95
3657387--3657417	2	15.0	2	93	6	53	48	3	0	48	1.17
3657461--3657501	21	2.0	21	90	0	64	19	2	39	39	1.65
3657662--3657701	21	2.0	20	95	5	71	50	12	2	35	1.54
3657903--3657951	17	2.8	17	87	6	71	26	24	0	48	1.51
3657907--3657965	17	3.2	19	83	7	68	30	22	0	47	1.51
3657889--3657961	17	3.8	19	76	10	60	26	27	0	46	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3658154--3658193	18	2.3	17	91	4	62	47	0	5	47	1.24
3658094--3658199	15	6.7	16	75	14	62	46	2	2	48	1.31
3659454--3659523	31	2.2	32	87	5	97	31	8	24	35	1.85
3659527--3659623	33	2.7	38	76	15	114	17	7	30	44	1.76
3669100--3669159	29	2.0	30	87	3	86	33	0	1	65	1.03
3671401--3671437	19	1.9	19	88	0	56	45	2	0	51	1.15
3671707--3671862	84	1.9	82	81	10	192	29	14	10	45	1.78
3672455--3672523	2	34.5	2	100	0	138	49	0	0	50	1.00
3674591--3674646	26	2.2	26	93	0	94	21	23	10	44	1.83
3678659--3678741	43	1.9	43	87	0	121	51	19	2	26	1.59
3681418--3681532	60	1.9	60	83	3	151	49	4	13	33	1.61
3687024--3687069	2	23.5	2	87	12	69	50	0	2	47	1.13
3687025--3687076	10	5.6	9	86	9	61	48	0	1	50	1.12
3690147--3690189	19	2.3	20	80	15	56	30	23	23	23	1.99
3690166--3690322	63	2.5	63	94	2	271	35	21	16	26	1.94
3694760--3694793	18	1.9	17	88	5	50	29	0	5	64	1.17
3702782--3702844	18	3.5	18	93	0	99	22	20	33	23	1.97
3702761--3702844	36	2.3	36	85	0	105	23	21	28	26	1.99
3703767--3703791	3	8.3	3	100	0	50	68	0	32	0	0.90
3704849--3704886	17	2.2	18	85	4	51	42	7	2	47	1.46
3705555--3705608	25	2.2	25	100	0	108	40	3	48	7	1.49
3705656--3705698	15	2.5	19	78	21	58	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3708097--3708145	21	2.3	21	85	0	62	38	10	26	24	1.87
3711460--3711488	13	2.2	13	100	0	58	31	6	0	62	1.22
3713563--3713587	13	1.9	13	100	0	50	56	12	8	24	1.62
3713753--3713799	22	2.1	23	92	4	78	23	10	25	40	1.87
3721378--3721402	7	3.6	7	100	0	50	88	0	0	12	0.53
3721671--3721700	15	2.0	15	100	0	60	40	13	13	33	1.83
3721972--3722054	2	41.5	2	100	0	166	49	0	0	50	1.00
3722541--3722587	2	23.5	2	95	0	76	48	4	0	46	1.21
3726684--3726716	8	4.1	8	85	14	50	48	15	24	12	1.78
3734709--3734741	13	2.4	14	95	5	59	30	0	3	66	1.06

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