genome.fa.s8424.2.7.7.80.10.50.1000.13.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: VEPZ01008424.1 Hibiscus syriacus cultivar Beakdansim tig00111207_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4198033

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  13  of  16  ( 1819 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)
3206753--3206820	23	2.9	23	80	12	68	48	5	1	44	1.36
3215416--3215455	21	1.9	21	90	10	64	20	27	5	47	1.70
3225784--3225821	19	2.0	19	89	0	58	0	21	0	78	0.74
3225787--3225823	13	2.7	13	91	8	56	0	18	0	81	0.70
3227767--3228012	45	5.4	45	90	2	368	37	6	24	30	1.82
3227767--3228012	91	2.7	90	89	2	359	37	6	24	30	1.82
3230001--3230064	12	5.5	11	77	20	60	79	0	10	9	0.93
3230018--3230064	18	2.6	17	81	18	60	78	0	10	10	0.96
3230001--3230063	24	2.7	23	81	13	76	80	0	11	7	0.89
3233897--3234230	45	7.4	45	92	1	508	38	6	23	31	1.80
3236195--3236219	13	1.9	13	100	0	50	48	4	16	32	1.64
3236794--3236833	13	3.2	13	89	3	55	77	0	17	5	0.94
3236785--3236868	34	2.4	34	81	13	84	77	0	15	7	0.97
3236815--3236869	11	5.1	10	77	14	56	80	0	12	7	0.91
3240603--3240780	90	2.0	90	93	2	304	36	11	6	44	1.68
3250597--3250940	171	2.0	172	99	0	681	32	23	12	30	1.92
3253391--3253478	30	2.8	30	75	13	81	28	9	9	53	1.63
3254386--3254422	19	1.9	19	88	0	56	40	10	8	40	1.70
3257304--3257373	2	35.0	2	97	0	131	50	0	1	48	1.09
3263585--3263766	90	2.0	91	89	1	276	28	23	26	20	1.99
3265541--3265666	62	2.0	62	98	0	243	11	27	10	50	1.72
3268025--3268206	90	2.0	91	86	1	258	28	23	26	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3287370--3287612	133	1.8	133	93	0	423	37	13	22	26	1.91
3291081--3291130	14	3.5	15	81	13	61	16	18	0	66	1.26
3291413--3291462	14	3.9	13	73	21	52	78	2	20	0	0.86
3291407--3291462	19	3.1	18	82	17	71	78	1	19	0	0.84
3291407--3291462	11	4.7	11	74	21	51	78	1	19	0	0.84
3296696--3296736	14	2.9	14	92	3	64	17	17	0	65	1.27
3296692--3296729	18	2.1	18	90	9	60	18	13	0	68	1.21
3316367--3316688	161	2.0	159	96	3	594	41	11	21	25	1.86
3347029--3347084	13	4.7	11	74	21	51	0	19	1	78	0.84
3347029--3347084	18	3.1	18	82	17	71	0	19	1	78	0.84
3349257--3349307	23	2.1	25	89	7	79	11	15	13	58	1.63
3355232--3355261	13	2.4	13	94	5	53	26	30	0	43	1.55
3356476--3356535	24	2.5	24	83	2	77	6	18	11	63	1.49
3363155--3363180	13	2.0	13	100	0	52	23	38	0	38	1.55
3367878--3367949	34	2.2	32	85	11	94	5	16	4	73	1.18
3370096--3370134	16	2.4	18	80	20	50	15	20	0	64	1.30
3370160--3370193	17	2.0	17	94	0	59	32	32	0	35	1.58
3383887--3383941	24	2.3	25	81	6	60	32	16	21	29	1.95
3384948--3384976	6	5.0	6	95	4	51	51	0	34	13	1.42
3388531--3388580	16	3.0	16	85	5	55	62	2	20	16	1.43
3390596--3390641	11	4.4	11	78	10	60	86	10	2	0	0.64
3390596--3390641	20	2.3	20	92	0	74	86	10	2	0	0.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3390604--3390648	20	2.2	20	96	0	81	80	13	4	2	0.97
3398778--3398854	8	8.6	8	73	24	57	1	7	11	79	1.00
3398778--3398832	25	2.2	26	86	3	76	1	7	10	80	0.99
3398810--3398854	19	2.4	19	100	0	90	0	8	11	80	0.92
3398785--3398834	26	2.0	25	92	4	82	2	6	10	82	0.92
3398778--3398853	9	8.3	9	73	12	57	1	7	10	80	0.97
3403803--3403833	13	2.4	13	94	0	53	0	9	9	80	0.90
3408354--3408493	74	1.9	71	82	4	172	38	20	19	21	1.93
3409223--3409284	22	2.9	22	85	2	81	85	12	1	0	0.67
3409224--3409275	1	52.0	1	80	0	59	90	9	0	0	0.46
3409223--3409275	11	4.9	11	86	4	81	88	11	0	0	0.51
3417256--3417310	24	2.3	25	81	6	60	29	21	16	32	1.95
3425096--3425145	14	3.9	13	73	21	52	78	2	20	0	0.86
3425090--3425145	19	3.1	18	82	17	71	78	1	19	0	0.84
3425090--3425145	11	4.7	11	74	21	51	78	1	19	0	0.84
3435446--3435476	11	2.8	11	90	0	53	12	9	35	41	1.76
3437330--3437368	14	2.7	14	84	15	53	15	20	0	64	1.30
3437664--3437701	13	2.9	13	88	0	58	76	0	23	0	0.79
3437644--3437714	21	3.5	20	78	17	76	74	4	18	2	1.10
3441939--3441977	14	2.7	14	84	15	53	15	20	0	64	1.30
3445818--3445860	23	1.9	21	81	13	50	32	18	13	34	1.90
3446998--3447034	15	2.4	16	90	4	58	70	5	10	13	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3451673--3451714	15	2.6	16	77	7	50	66	7	14	11	1.43
3460254--3460296	23	1.9	21	81	13	50	32	18	13	34	1.90
3464613--3464769	73	2.1	72	81	8	174	39	19	19	22	1.92
3470379--3470428	24	2.1	24	81	7	66	62	18	12	8	1.53
3476414--3476455	22	2.0	21	85	4	57	26	2	33	38	1.69
3479927--3479970	16	2.6	17	82	13	56	2	15	6	75	1.12
3483859--3484121	90	2.9	90	90	0	409	28	23	24	22	1.99
3485847--3498205	554	22.3	554	96	0	22576	23	20	17	38	1.93
3497957--3498457	249	2.0	250	94	4	877	26	21	15	36	1.94
3497403--3498990	797	2.0	791	95	3	2872	24	20	17	37	1.93
3498206--3500939	530	5.1	541	91	7	4492	24	20	17	37	1.94
3500170--3501739	791	2.0	778	94	4	2788	24	20	18	37	1.94
3500939--3504908	554	7.2	554	94	2	7094	23	20	17	38	1.93
3504478--3505342	435	2.0	430	95	1	1568	22	19	18	39	1.93
3504908--3507706	550	5.1	552	93	3	4711	23	20	17	38	1.93
3507711--3510365	543	4.9	552	94	4	4677	23	20	18	37	1.94
3510364--3512468	553	3.8	554	96	0	3791	24	19	16	38	1.92
3513540--3513599	23	2.6	23	86	2	84	8	16	11	63	1.51
3514326--3514596	90	3.0	90	89	1	409	28	22	26	22	1.99
3516682--3516782	34	2.9	35	85	7	136	31	34	4	28	1.79
3517495--3517801	156	2.0	151	96	3	569	40	17	20	20	1.91
3520555--3520597	19	2.6	16	77	22	52	41	13	4	39	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3520927--3520970	9	4.6	9	78	15	52	34	34	2	29	1.70
3520926--3521003	12	7.2	11	69	25	51	32	35	2	29	1.71
3520927--3520986	32	1.9	31	93	6	104	33	35	3	28	1.74
3530036--3530075	15	2.6	16	84	8	55	17	7	2	72	1.19
3532664--3532754	46	2.0	46	82	4	112	18	19	25	36	1.95
3532842--3532881	15	2.6	16	84	8	55	17	7	2	72	1.19
3533232--3533258	10	2.7	10	100	0	54	92	7	0	0	0.38
3537112--3537215	33	3.1	33	82	9	95	30	36	1	30	1.69
3541534--3541637	33	3.1	33	82	9	95	31	36	1	29	1.69
3550785--3550825	22	1.9	21	90	5	64	26	0	36	36	1.57
3552418--3552444	11	2.5	11	100	0	54	37	0	37	25	1.57
3552470--3552580	35	3.1	36	84	6	138	31	3	34	30	1.75
3553831--3553877	11	4.2	11	84	10	60	87	8	4	0	0.67
3553830--3553877	20	2.5	20	86	3	62	85	10	4	0	0.73
3553842--3553886	19	2.3	20	92	3	74	82	11	6	0	0.84
3553841--3553886	20	2.3	21	85	11	69	82	10	6	0	0.83
3562659--3562716	13	4.7	13	72	20	52	27	1	39	31	1.67
3562647--3562724	36	2.2	35	93	2	129	26	3	37	32	1.75
3568783--3568846	19	3.3	19	74	18	60	78	10	9	1	1.04
3568803--3568853	19	2.6	19	77	20	52	70	13	13	1	1.25
3570924--3570952	14	2.1	14	100	0	58	37	41	0	20	1.53
3578633--3578717	11	7.2	11	72	22	66	31	36	3	28	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3578630--3578734	36	2.9	36	95	1	185	30	36	4	28	1.78
3579428--3579533	35	3.0	35	87	1	149	27	35	3	33	1.75
3586864--3586915	10	5.0	10	81	4	50	0	19	1	78	0.84
3586862--3586916	18	3.0	18	85	15	69	0	20	3	76	0.94
3590457--3590512	13	4.7	11	74	21	51	0	19	1	78	0.84
3590457--3590512	18	3.1	18	82	17	71	0	19	1	78	0.84
3594049--3594104	13	4.7	11	74	21	51	0	19	1	78	0.84
3594049--3594104	18	3.1	18	82	17	71	0	19	1	78	0.84
3594386--3594435	10	5.2	10	75	18	52	68	0	18	14	1.22
3595080--3595111	16	2.0	16	93	0	55	40	9	18	31	1.83

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16