genome.fa.s9623.2.7.7.80.10.50.1000.17.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: VEPZ01009623.1 Hibiscus syriacus cultivar Beakdansim tig00117012_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3488723

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  17  of  18  ( 2083 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)
3098981--3099014	17	2.0	17	88	0	50	23	0	2	73	0.97
3103121--3103180	29	2.0	31	87	6	88	35	6	15	43	1.72
3103320--3103361	21	2.0	21	90	0	66	23	19	28	28	1.98
3106065--3106124	29	2.0	31	90	6	97	35	6	16	41	1.75
3106189--3106237	19	2.5	19	81	12	55	40	10	10	38	1.73
3106342--3106383	21	2.0	21	95	0	75	26	19	26	28	1.98
3106412--3106451	20	1.9	21	85	10	55	37	37	10	15	1.80
3109298--3109492	85	2.3	85	83	1	239	24	17	23	34	1.96
3109570--3109759	79	2.4	79	83	1	220	30	17	17	34	1.93
3120148--3120367	94	2.3	95	85	4	293	32	15	24	28	1.95
3122138--3122310	90	1.9	90	90	0	274	28	22	26	23	1.99
3125213--3125256	20	2.2	20	83	0	61	15	15	4	63	1.46
3132056--3132218	85	1.9	86	93	1	283	26	22	24	26	2.00
3133356--3133581	110	2.0	116	92	7	383	24	6	23	45	1.77
3135062--3135101	21	2.0	20	90	5	62	17	12	5	65	1.44
3144016--3144072	17	3.4	17	95	4	107	33	17	24	24	1.96
3145246--3145404	77	2.0	79	84	4	207	37	12	5	44	1.64
3153122--3153169	19	2.5	20	82	3	62	52	4	12	31	1.58
3154287--3154332	21	2.1	22	88	4	67	34	10	6	47	1.64
3160143--3160175	14	2.4	14	85	14	50	48	42	3	6	1.43
3167811--3167844	17	1.9	18	94	5	61	47	2	5	44	1.42
3168355--3168394	20	2.0	20	85	0	53	60	2	2	35	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3169411--3169497	20	4.3	21	68	10	65	35	25	10	28	1.89
3169658--3169752	49	1.9	50	91	2	156	26	15	16	41	1.89
3169742--3169812	22	3.2	23	84	9	103	33	12	25	28	1.92
3170502--3170544	2	22.5	2	86	9	63	46	0	0	53	1.00
3172411--3172494	3	28.0	3	100	0	168	33	0	0	66	0.92
3173612--3173640	15	1.9	15	100	0	58	37	6	6	48	1.57
3178710--3178776	23	3.0	23	91	2	100	50	14	19	14	1.77
3179452--3179740	157	1.8	158	87	2	431	32	15	5	46	1.69
3179625--3179889	140	1.9	139	87	2	388	28	18	5	47	1.71
3180838--3180881	22	2.0	22	95	0	79	25	9	11	54	1.65
3181857--3181897	21	1.9	21	85	5	55	41	19	14	24	1.89
3185878--3186000	51	2.4	52	93	1	203	13	18	26	42	1.87
3186467--3186526	13	4.8	13	79	8	79	68	1	0	30	0.99
3186472--3186522	8	6.8	8	79	20	65	66	1	0	31	1.03
3186463--3186522	16	3.9	16	80	12	72	68	1	0	30	0.99
3186484--3186537	24	2.2	24	80	0	63	66	5	0	27	1.13
3188345--3188568	101	2.2	96	81	8	234	40	18	12	29	1.87
3188368--3188568	100	2.0	97	82	6	235	40	19	12	27	1.88
3190300--3190399	51	2.0	51	90	4	157	54	4	3	39	1.35
3190388--3190430	13	2.9	14	83	16	52	69	0	0	30	0.88
3201321--3201370	25	2.0	25	96	0	91	34	16	4	46	1.65
3206429--3206482	20	2.6	21	76	5	56	35	16	16	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3207595--3207716	45	2.7	45	84	5	140	25	26	12	36	1.91
3207968--3208036	31	2.2	31	81	2	75	30	10	23	36	1.88
3208090--3208122	16	1.9	18	88	11	52	45	45	6	3	1.43
3208104--3208160	25	2.2	26	93	3	98	42	47	7	3	1.47
3208176--3208237	32	1.9	33	90	3	99	6	20	35	37	1.79
3209085--3209121	20	1.9	20	88	5	58	16	32	16	35	1.91
3213380--3213432	21	2.6	20	78	3	61	37	13	15	33	1.86
3214499--3214753	45	5.6	45	86	5	311	25	23	12	38	1.89
3215535--3215571	16	2.3	15	86	13	56	29	29	10	29	1.91
3216072--3216108	20	1.9	20	88	5	58	16	32	16	35	1.91
3218182--3218240	30	2.0	30	93	3	102	35	6	13	44	1.71
3218363--3218452	20	4.8	19	72	14	64	28	30	16	24	1.97
3218811--3218880	34	2.1	32	86	5	95	31	15	27	25	1.96
3219738--3219785	19	2.5	20	82	3	62	52	6	12	29	1.63
3220240--3220298	30	2.0	30	93	3	102	35	6	13	44	1.71
3220388--3220425	13	2.9	13	92	0	58	21	31	21	26	1.98
3220873--3220942	34	2.1	32	86	5	95	31	15	30	22	1.95
3224819--3224879	32	2.0	31	87	9	81	72	1	4	21	1.13
3229954--3230004	20	2.6	20	87	3	77	37	13	23	25	1.92
3230643--3230738	23	4.3	22	82	10	97	30	16	23	29	1.96
3230643--3230738	46	2.1	45	84	3	122	30	16	23	29	1.96
3230659--3230738	23	3.6	23	86	3	110	32	17	23	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3233401--3233449	23	2.2	22	92	3	80	28	24	28	18	1.98
3233407--3233456	23	2.2	23	88	0	73	32	22	26	20	1.98
3244574--3244630	20	2.8	19	74	12	51	26	29	26	17	1.97
3248799--3248854	21	2.7	21	94	0	94	35	19	19	25	1.95
3258749--3258788	11	3.5	12	83	16	50	32	0	0	67	0.91
3258754--3258793	19	2.1	19	85	4	53	30	0	0	70	0.88
3258758--3258793	10	3.5	10	88	3	54	27	0	0	72	0.85
3260959--3261042	30	2.8	30	75	8	80	29	20	25	25	1.99
3261368--3261429	19	3.4	19	88	4	92	46	3	0	50	1.17
3262877--3262918	19	2.3	18	80	8	50	52	0	2	45	1.13
3268481--3268510	15	2.0	15	100	0	60	20	13	46	20	1.83
3270439--3270468	13	2.2	14	94	5	53	40	13	26	20	1.89
3272364--3272771	205	2.0	203	98	1	782	28	22	16	32	1.96
3275572--3275597	5	5.2	5	100	0	52	0	38	0	61	0.96
3284024--3284421	154	2.5	156	88	4	588	28	24	22	23	1.99
3284007--3284928	159	5.8	159	79	6	759	31	25	22	21	1.98
3292662--3292693	16	2.0	16	100	0	64	31	0	0	68	0.90
3297407--3297465	30	2.0	30	83	6	75	37	8	20	33	1.83
3297746--3297985	120	2.0	120	99	0	471	39	18	14	27	1.89
3299725--3299880	65	2.4	65	86	3	199	32	17	21	28	1.96
3300517--3300560	2	22.5	2	95	4	81	50	0	0	50	1.00
3302021--3302059	13	3.0	13	84	0	60	43	2	15	38	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3302506--3302612	44	2.4	44	90	0	160	28	19	21	30	1.98
3309123--3309183	23	2.7	23	89	0	95	26	29	27	16	1.97
3309890--3309937	19	2.5	19	93	0	78	20	25	22	31	1.98
3312057--3312090	16	2.1	16	89	10	52	11	23	0	64	1.26
3316003--3316063	23	2.7	23	89	0	95	27	27	24	19	1.99
3315995--3316067	23	3.3	23	79	11	89	32	24	20	21	1.97
3317741--3317789	19	2.6	19	93	0	80	20	18	34	26	1.95
3318154--3318364	65	3.3	64	80	8	223	30	24	18	26	1.97
3318335--3318383	19	2.6	19	84	9	57	24	28	20	26	1.99
3336205--3336260	25	2.2	25	87	3	76	32	7	32	28	1.84
3351920--3352001	29	2.8	29	83	10	87	36	3	21	37	1.72
3356410--3356579	73	2.3	73	85	2	225	42	8	14	34	1.76
3356632--3357225	297	2.0	297	98	0	1152	38	13	17	29	1.89
3358764--3358885	61	2.0	61	96	0	226	40	21	13	24	1.88
3359124--3359179	6	9.0	6	75	14	51	76	1	3	17	1.01
3359152--3359179	13	2.2	13	100	0	56	85	0	0	14	0.59
3359133--3359179	20	2.4	19	85	3	58	76	2	2	19	0.99
3361798--3361872	38	2.0	37	82	5	89	49	4	1	45	1.29
3372310--3372346	3	12.7	3	83	16	51	29	2	0	67	1.04
3372447--3372487	18	2.3	18	95	0	73	41	34	9	14	1.79
3377358--3377446	24	3.6	23	75	18	72	74	6	17	1	1.10
3377368--3377413	18	2.6	18	74	16	51	73	4	19	2	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3377358--3377459	25	4.0	24	72	17	66	74	5	17	1	1.11
3378280--3378336	24	2.4	23	77	8	60	35	10	3	50	1.54
3378850--3378991	63	2.3	63	81	9	182	28	14	15	41	1.87
3378994--3379060	30	2.3	30	87	10	102	38	11	11	37	1.79
3379004--3379069	30	2.1	32	88	5	100	28	15	13	42	1.85
3379176--3379323	40	3.6	40	69	5	107	21	32	18	27	1.97
3379266--3379562	131	2.3	131	89	3	447	23	32	19	23	1.98
3379388--3379493	39	2.7	40	74	4	106	23	33	20	21	1.97
3379355--3379769	211	2.0	212	81	7	493	26	31	16	24	1.97
3381609--3381647	21	2.0	21	85	14	57	25	0	10	64	1.25

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18