genome.fa.s5606.2.7.7.80.10.50.1000.11.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: VEPZ01005606.1 Hibiscus syriacus cultivar Beakdansim tig00013040_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3509357

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  11  of  11  ( 1295 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)
3259530--3259584	23	2.4	21	77	16	56	7	14	3	74	1.17
3263227--3263257	16	2.0	16	93	6	55	16	19	0	64	1.29
3263459--3263497	15	2.5	15	88	12	53	79	0	17	2	0.84
3263694--3263735	15	2.6	16	85	7	50	11	21	0	66	1.23
3264966--3264990	13	1.9	13	100	0	50	8	16	28	48	1.74
3267107--3267150	2	22.0	2	100	0	88	50	0	0	50	1.00
3268249--3268276	14	2.0	14	100	0	56	21	42	0	35	1.53
3269128--3269163	18	2.0	18	94	0	63	19	50	19	11	1.77
3271689--3271758	12	5.8	12	78	6	70	15	15	18	50	1.79
3271652--3271760	48	2.3	48	85	6	141	18	17	16	47	1.83
3271652--3271760	24	4.5	24	80	6	123	18	17	16	47	1.83
3273829--3273888	8	7.5	8	77	21	56	15	36	26	21	1.93
3273824--3273855	13	2.5	13	100	0	64	15	46	25	12	1.81
3273845--3273878	15	2.1	16	89	10	52	11	35	29	23	1.90
3276366--3276433	24	2.8	24	81	0	82	20	10	17	51	1.74
3276328--3276433	48	2.2	48	81	6	117	21	14	15	49	1.79
3282828--3282870	23	2.0	21	86	9	59	67	6	11	13	1.41
3291615--3291666	24	2.2	25	79	10	63	59	15	17	7	1.58
3294423--3294452	13	2.4	13	94	5	53	43	0	30	26	1.55
3297668--3297722	24	2.3	24	87	0	74	10	14	12	61	1.56
3304969--3305013	23	2.0	23	86	0	63	37	4	33	24	1.76
3305384--3305426	19	2.2	20	87	4	61	48	6	9	34	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3308411--3308474	26	2.5	26	89	0	92	39	1	32	26	1.66
3308742--3308776	17	2.1	17	89	10	54	0	11	5	82	0.82
3308744--3308782	20	2.0	20	85	10	53	0	12	7	79	0.93
3309565--3309607	20	2.2	20	87	4	61	48	9	9	32	1.67
3312968--3313007	20	1.9	22	90	10	66	25	20	10	45	1.81
3314422--3314479	23	2.5	24	88	2	82	34	20	22	22	1.97
3314581--3314647	28	2.4	28	74	20	68	61	13	19	5	1.52
3322788--3322830	23	1.9	21	81	13	50	32	18	13	34	1.90
3327963--3328016	24	2.3	23	81	9	65	61	12	16	9	1.56
3329154--3329196	20	2.2	20	87	4	61	34	9	6	48	1.62
3333393--3333421	15	2.0	15	93	6	51	0	20	3	75	0.94
3335055--3335153	35	2.8	36	84	4	121	28	32	4	35	1.76
3338947--3338995	19	2.6	18	87	9	64	63	0	12	24	1.29
3340931--3340973	15	2.9	15	80	13	52	83	4	11	0	0.78
3341270--3341302	17	1.9	17	93	0	57	30	33	0	36	1.58
3343871--3343913	20	2.2	20	87	4	61	32	9	6	51	1.61
3344269--3344328	23	2.6	23	97	2	111	28	35	3	33	1.74
3344293--3344383	35	2.6	35	85	1	128	27	37	3	31	1.73
3344293--3344394	35	2.9	34	75	10	98	28	37	2	31	1.72
3344529--3344564	16	2.2	16	90	0	54	19	19	0	61	1.35
3353322--3353390	33	2.1	33	83	5	86	31	1	36	30	1.67
3362307--3362344	19	2.0	19	100	0	76	26	10	5	57	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3364891--3364945	24	2.3	24	75	9	60	67	10	14	7	1.41
3372615--3372654	21	1.9	21	84	0	53	35	22	7	35	1.82
3375797--3376204	201	2.0	201	99	0	807	31	19	19	29	1.96
3378031--3378132	31	3.2	31	64	20	82	23	28	5	42	1.77
3377999--3378132	66	2.0	66	100	0	268	22	26	7	43	1.80
3380388--3380462	15	4.5	17	80	14	77	1	8	10	80	0.98
3380388--3380462	33	2.2	34	83	6	91	1	8	10	80	0.98
3380399--3380462	8	8.0	8	78	13	69	1	6	9	82	0.89
3397251--3397306	29	1.9	29	82	13	71	3	19	3	73	1.13
3397251--3397293	16	2.7	16	82	7	52	4	20	2	72	1.14
3397263--3397310	21	2.3	22	79	17	57	2	20	4	72	1.11
3397283--3397316	17	1.9	18	94	5	61	0	17	5	76	0.98
3397239--3397314	29	2.6	29	74	15	68	2	21	2	73	1.07
3397983--3398032	18	2.6	19	78	9	57	34	10	20	36	1.86
3403379--3403438	5	11.8	5	78	18	54	0	20	1	78	0.84
3403373--3403436	13	4.8	12	77	22	65	0	21	1	76	0.87
3403386--3403419	8	4.2	8	96	0	59	0	26	0	73	0.83
3403382--3403432	16	3.2	16	83	8	61	0	23	1	74	0.92
3403372--3403434	21	3.0	20	86	9	90	0	23	1	74	0.90
3405444--3405501	24	2.5	24	80	8	66	6	17	13	62	1.52
3406325--3406358	17	2.0	17	100	0	68	17	29	17	35	1.93
3410685--3410710	13	2.0	13	100	0	52	30	30	0	38	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3413469--3413530	32	2.0	31	83	3	79	8	16	12	62	1.52
3415969--3416008	21	1.9	21	84	0	53	35	22	7	35	1.82
3422720--3422752	17	1.9	17	88	11	50	78	3	18	0	0.87
3443511--3443541	14	2.2	14	94	0	53	38	12	9	38	1.77
3449825--3449849	10	2.5	10	100	0	50	0	0	8	92	0.40
3455101--3455169	34	2.0	34	94	0	120	30	20	8	40	1.82
3473748--3473798	19	2.6	20	90	3	77	43	5	15	35	1.71
3474708--3474767	30	2.0	31	83	3	77	55	10	8	26	1.61
3477927--3477977	19	2.6	20	90	3	77	43	5	15	35	1.71
3478887--3478946	30	2.0	31	83	3	77	55	10	8	26	1.61
3479474--3479542	34	2.0	34	94	0	120	31	20	8	39	1.83
3485823--3485907	11	7.2	11	72	22	66	31	36	3	28	1.74
3485820--3485924	36	2.9	36	95	1	185	30	36	4	28	1.78
3486066--3486101	15	2.4	15	90	0	54	19	25	0	55	1.43
3486363--3486403	11	3.9	11	75	12	50	78	2	17	2	0.98
3490968--3491077	46	2.3	49	80	13	113	55	10	0	32	1.41
3492133--3492168	9	4.0	9	92	0	63	58	11	8	22	1.59
3494777--3494836	11	5.5	11	84	4	50	1	8	8	81	0.93
3494777--3494829	11	4.6	12	76	9	56	1	9	9	79	1.02
3494777--3494836	23	2.7	22	82	7	68	1	8	8	81	0.93
3494798--3494836	11	3.5	11	92	3	60	0	5	7	87	0.68
3496964--3497068	36	2.9	35	90	4	149	31	33	4	30	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3496986--3497051	13	5.5	11	72	22	53	33	33	3	30	1.73
3497210--3497239	15	2.0	15	93	0	51	23	26	0	50	1.50
3500430--3501791	679	2.0	679	98	0	2625	26	22	17	33	1.96
3501977--3502029	24	2.3	24	83	6	65	7	16	15	60	1.57
3506689--3506721	14	2.4	14	90	10	50	0	21	0	78	0.75
3506711--3506762	22	2.2	24	90	6	81	9	17	13	59	1.60
3508717--3508770	28	1.9	28	100	0	108	42	12	18	25	1.86

Tables:   1   2   3   4   5   6   7   8   9   10   11

The End!