genome.fa.s9617.2.7.7.80.10.50.1000.16.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: VEPZ01009617.1 Hibiscus syriacus cultivar Beakdansim tig00117005_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3386631

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

This is table  16  of  16  ( 1887 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)
3247414--3247491	27	2.9	27	81	7	97	41	3	6	48	1.47
3247367--3247520	84	1.8	84	80	5	186	38	3	6	51	1.46
3247443--3247545	28	3.6	27	73	17	84	34	5	8	50	1.57
3248586--3248642	24	2.4	24	73	5	62	15	8	22	52	1.70
3248693--3248787	21	4.5	21	81	0	82	35	13	11	38	1.81
3252193--3252238	21	2.2	21	96	0	83	36	10	13	39	1.79
3252254--3252308	21	2.6	22	82	8	69	29	9	14	47	1.75
3253478--3253512	16	2.2	16	89	0	52	34	8	14	42	1.76
3253560--3253590	16	1.9	16	93	0	53	32	16	3	48	1.62
3254607--3254754	19	8.2	18	73	15	103	46	1	4	47	1.32
3254614--3254755	2	73.0	2	85	10	161	45	1	4	47	1.33
3254703--3254765	12	5.5	11	86	7	65	50	3	0	46	1.17
3254877--3255029	71	2.2	69	83	6	186	31	8	6	53	1.57
3255188--3255221	16	2.1	16	100	0	68	35	17	11	35	1.87
3258603--3258642	2	20.0	2	100	0	80	50	0	0	50	1.00
3260927--3260968	2	21.0	2	100	0	84	50	0	0	50	1.00
3261175--3261242	30	2.2	32	84	10	97	32	1	11	54	1.46
3261359--3261430	27	2.5	28	77	6	74	61	1	2	34	1.19
3261376--3261459	25	3.2	26	80	14	84	54	1	2	41	1.21
3262245--3262358	58	1.9	59	82	1	140	32	13	18	35	1.89
3262915--3262940	7	3.7	7	100	0	52	38	0	0	61	0.96
3272724--3272757	17	1.9	17	88	5	50	29	0	14	55	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3278373--3278456	42	2.0	42	90	4	134	33	11	9	45	1.73
3280395--3280639	62	4.0	62	76	3	269	18	20	24	36	1.95
3280440--3280639	41	4.9	41	96	0	346	19	21	24	35	1.96
3280440--3280679	41	5.9	40	91	3	315	19	20	23	36	1.95
3280440--3280663	123	1.8	123	89	4	353	19	21	23	36	1.95
3280608--3280697	41	2.2	41	86	7	121	18	20	21	40	1.92
3280630--3280723	22	4.5	22	73	9	88	22	15	23	38	1.93
3280802--3280862	6	10.5	6	98	1	108	31	52	16	0	1.44
3281359--3281401	6	7.5	6	94	2	63	2	16	51	30	1.57
3281487--3281533	19	2.5	19	100	0	94	40	19	21	19	1.92
3281524--3281599	22	3.6	22	72	16	63	35	27	19	17	1.94
3281518--3281599	41	2.0	41	85	7	112	36	25	20	17	1.94
3281543--3281606	21	3.1	21	75	4	67	35	28	18	17	1.93
3289100--3289158	19	3.4	19	69	26	67	30	6	15	47	1.71
3289102--3289170	32	2.2	32	100	0	138	27	7	15	49	1.71
3290568--3290593	12	2.2	12	100	0	52	26	50	7	15	1.71
3291490--3291541	21	2.5	21	93	0	86	3	46	17	32	1.66
3294391--3294429	19	2.1	19	90	0	60	17	35	30	15	1.91
3295009--3295082	2	37.0	2	100	0	148	50	0	0	50	1.00
3299665--3299704	21	1.9	21	89	0	62	12	32	35	20	1.90
3301290--3301324	15	2.3	15	90	0	52	14	20	31	34	1.92
3302929--3302954	13	2.0	13	100	0	52	38	15	23	23	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3304906--3304946	21	2.0	21	85	0	55	43	2	7	46	1.44
3304944--3304991	22	2.3	20	82	10	60	58	4	0	37	1.18
3308047--3308090	13	3.2	13	93	6	70	45	0	0	54	0.99
3312623--3312668	15	3.1	15	74	20	51	60	0	2	36	1.09
3319048--3319169	64	1.9	64	86	3	174	34	18	18	28	1.95
3319048--3319210	64	2.5	64	82	5	170	33	19	19	28	1.96
3325893--3326014	64	1.9	64	83	3	156	36	19	17	27	1.94
3332224--3332281	30	1.9	30	86	6	82	17	18	31	32	1.94
3332333--3332417	34	2.5	34	90	0	134	16	23	23	36	1.94
3332494--3332537	23	1.9	23	100	0	88	9	25	40	25	1.84
3332490--3332544	23	2.4	22	85	8	83	10	23	43	21	1.84
3332963--3333313	172	2.1	171	89	4	536	39	4	18	37	1.72
3335438--3335787	8	47.8	8	66	24	114	50	5	4	39	1.45
3335393--3335508	41	2.8	42	88	2	164	50	5	4	40	1.44
3335427--3335804	36	10.5	37	81	15	431	50	5	4	39	1.45
3335566--3335618	15	3.5	15	75	14	63	49	3	5	41	1.44
3335469--3335775	59	5.1	60	85	12	375	49	5	4	40	1.46
3335544--3335738	45	4.2	45	75	18	191	50	5	5	38	1.48
3335559--3335775	112	1.9	112	91	4	357	49	5	4	40	1.47
3335439--3335789	14	27.1	14	67	23	173	50	5	4	39	1.46
3335491--3335775	23	12.8	22	74	16	205	50	5	4	39	1.48
3335672--3335833	36	4.8	34	82	14	169	50	4	3	40	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3339239--3339342	42	2.4	42	87	3	136	30	32	19	17	1.95
3348516--3348561	14	3.1	16	70	23	55	23	30	21	23	1.99
3348506--3348561	28	2.0	28	92	0	94	25	28	21	25	1.99
3358049--3358078	15	1.9	16	93	6	53	70	10	0	20	1.16
3359341--3359411	3	24.0	3	97	2	135	66	0	0	33	0.92
3366327--3366425	42	2.4	41	84	3	126	26	22	25	26	2.00
3366555--3366632	41	1.9	41	83	0	102	24	24	26	24	2.00
3366298--3367680	214	6.5	214	92	3	2304	29	20	18	32	1.96
3366959--3367066	42	2.6	40	81	8	128	25	21	25	28	1.99
3366298--3367680	427	3.3	421	94	2	2364	29	20	18	32	1.96
3367171--3367272	42	2.5	41	82	3	132	25	22	26	25	2.00
3367374--3367455	41	2.0	42	82	4	103	30	19	20	29	1.97
3367593--3367679	42	2.1	41	82	2	102	26	21	25	26	2.00
3368956--3368988	16	2.1	16	94	0	57	27	15	12	45	1.81
3369902--3369956	5	10.2	5	86	13	74	0	23	0	76	0.79
3369902--3369956	22	2.5	20	83	16	74	0	23	0	76	0.79
3369913--3369976	25	2.7	23	81	11	76	3	26	0	70	1.02
3369893--3369955	27	2.2	28	86	11	83	3	22	0	74	0.96
3371962--3372121	21	7.7	21	85	6	200	16	21	21	40	1.91
3382404--3382431	8	3.5	8	100	0	56	39	0	10	50	1.37
3385921--3385945	13	1.9	13	100	0	50	88	0	0	12	0.53

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

The End!