genome.fa.s1111.2.7.7.80.10.50.1000.16.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: VEPZ01001111.1 Hibiscus syriacus cultivar Beakdansim tig00002193_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3891333

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

This is table  16  of  17  ( 1987 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)
3442559--3442913	136	2.6	136	91	0	568	26	21	16	34	1.95
3442830--3443002	92	1.9	91	89	3	267	23	23	15	37	1.93
3442934--3442990	19	2.9	20	70	15	55	19	24	10	45	1.81
3443264--3443489	61	3.7	61	94	0	389	38	11	17	31	1.86
3443473--3443546	28	2.6	29	79	10	89	44	13	12	29	1.80
3443551--3443653	36	2.9	35	79	4	107	43	13	18	24	1.86
3443565--3443679	36	3.2	36	78	9	92	41	13	18	26	1.88
3443623--3443739	60	2.0	60	83	6	148	41	11	18	28	1.86
3443775--3444108	40	8.4	40	93	1	512	40	12	17	29	1.86
3443775--3444108	79	4.2	80	92	1	512	40	12	17	29	1.86
3444022--3444090	23	3.3	23	65	23	69	40	14	13	31	1.84
3444574--3444640	24	2.9	22	77	16	80	47	4	11	35	1.61
3446316--3446355	18	2.2	19	90	4	64	0	17	5	77	0.94
3446329--3446401	33	2.2	33	92	2	121	2	9	4	83	0.87
3446316--3446401	16	5.2	17	73	25	69	2	11	4	81	0.93
3448370--3448399	15	2.0	15	93	0	51	26	23	0	50	1.50
3450918--3450971	24	2.2	25	90	3	83	27	11	20	40	1.86
3455735--3456003	43	6.3	43	89	1	360	28	22	22	26	1.99
3456156--3456213	21	2.8	21	84	2	73	55	20	5	18	1.62
3460009--3460168	52	3.1	52	95	1	293	44	16	6	32	1.74
3461209--3461401	42	4.6	42	81	7	223	27	22	17	32	1.96
3464671--3464770	50	2.0	50	92	0	164	30	16	12	42	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3466605--3466639	4	9.2	4	87	12	56	0	22	0	77	0.78
3469250--3469408	81	2.0	81	87	0	228	36	19	23	20	1.95
3471441--3471469	14	2.0	15	93	6	51	41	0	0	58	0.98
3471575--3471614	18	2.3	18	91	4	64	45	0	5	50	1.23
3471927--3472025	41	2.4	41	81	8	114	31	28	12	28	1.92
3472052--3472114	20	3.2	20	90	2	74	22	20	17	39	1.92
3472065--3472114	20	2.5	20	100	0	100	22	18	14	46	1.84
3474818--3474874	22	2.6	22	97	0	105	33	15	14	36	1.88
3475541--3476240	45	15.6	45	83	3	759	27	21	19	31	1.97
3481454--3481496	6	7.2	6	94	0	77	30	34	18	16	1.93
3481574--3482501	463	2.0	464	97	1	1774	35	19	9	35	1.85
3484888--3485009	40	3.0	40	100	0	244	32	27	17	22	1.96
3486176--3486239	29	2.2	30	80	5	76	34	23	4	37	1.76
3495887--3495984	39	2.5	39	83	3	117	33	24	25	16	1.96
3495887--3496006	39	3.1	39	79	4	116	34	21	25	18	1.96
3508802--3508845	2	22.0	2	100	0	88	0	0	50	50	1.00
3510024--3510114	39	2.3	39	87	7	123	31	24	26	17	1.97
3510929--3511269	55	6.2	55	83	1	416	38	17	14	29	1.90
3510931--3511244	163	1.9	163	89	0	484	39	16	13	29	1.87
3515735--3515769	14	2.5	14	100	0	70	37	22	8	31	1.85
3529266--3529685	55	7.7	55	84	3	481	39	16	15	28	1.90
3545175--3545216	17	2.4	17	88	4	57	11	4	9	73	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3545186--3545223	18	2.2	18	95	4	69	5	5	10	78	1.06
3552077--3552153	32	2.5	31	78	4	91	11	25	31	31	1.92
3556248--3556298	25	2.0	26	88	3	77	39	3	7	49	1.51
3557543--3557596	2	27.0	2	100	0	108	50	0	0	50	1.00
3558584--3558688	31	3.4	31	74	2	86	28	29	25	16	1.97
3560544--3560584	13	2.9	15	82	7	50	34	24	24	17	1.96
3564683--3564756	18	3.7	19	71	12	60	78	1	16	4	0.97
3564678--3564773	28	3.4	28	77	16	78	79	1	16	3	0.92
3564678--3564773	24	4.2	21	75	21	77	79	1	16	3	0.92
3564685--3564766	38	2.2	38	84	4	103	80	1	14	3	0.91
3564721--3564775	9	6.0	10	80	18	50	80	0	20	0	0.72
3564685--3564774	12	7.6	11	70	20	58	80	1	15	3	0.91
3564694--3564759	18	3.6	18	77	20	64	78	1	16	3	0.95
3568499--3568565	32	2.1	32	82	0	80	19	26	29	23	1.98
3570786--3571214	55	7.7	56	72	8	227	31	10	16	41	1.82
3570870--3571155	111	2.6	111	78	8	280	30	11	16	41	1.83
3570797--3571159	55	6.6	57	76	10	229	30	10	16	41	1.82
3570798--3571159	110	3.3	110	74	10	314	30	10	16	41	1.82
3571281--3571493	110	1.9	110	94	0	372	32	18	19	29	1.96
3572572--3572605	17	2.0	17	94	0	59	67	26	0	5	1.13
3573496--3573698	108	1.9	108	87	2	300	23	15	12	48	1.79
3574306--3574335	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3577931--3577977	18	2.5	20	83	16	66	42	4	2	51	1.33
3578455--3578625	59	2.9	58	85	3	234	31	21	16	30	1.95
3580716--3580760	22	2.1	21	87	4	63	26	13	4	55	1.57
3588426--3588464	19	2.1	19	85	0	51	15	17	10	56	1.66
3591370--3591431	3	21.0	3	83	3	81	33	1	1	62	1.14
3592461--3592746	138	2.1	139	94	0	502	26	11	10	51	1.70
3598290--3598360	31	2.3	31	82	4	81	23	16	23	35	1.95
3600413--3600462	3	17.0	3	79	4	57	36	2	4	58	1.29
3600432--3600463	11	2.8	12	90	9	57	34	6	0	59	1.23
3605868--3605911	9	4.8	9	81	15	54	86	0	4	9	0.70
3605867--3605912	23	2.0	22	87	4	65	82	0	8	8	0.84
3606222--3607637	709	2.0	701	98	1	2706	35	16	16	31	1.91
3609753--3610215	237	1.9	239	86	0	660	30	19	11	38	1.87
3612646--3612701	19	3.2	19	63	31	52	26	3	19	50	1.64
3612639--3612704	33	2.0	33	100	0	132	27	3	18	51	1.60
3622547--3622592	20	2.2	20	80	3	56	76	2	17	4	1.06
3622543--3622596	6	8.7	6	76	8	54	75	1	18	3	1.03
3624809--3624906	42	2.4	41	84	1	124	26	17	21	34	1.95
3625061--3625156	41	2.3	42	85	3	133	26	19	20	33	1.97
3626381--3626489	38	2.7	41	83	13	163	30	15	14	39	1.88
3626383--3626507	38	3.2	38	85	10	155	29	16	15	39	1.89
3626471--3626622	62	2.5	62	85	2	198	26	22	16	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3627146--3627187	12	3.4	12	87	6	57	23	7	0	69	1.13
3627142--3627184	22	2.0	22	90	0	68	23	6	0	69	1.12
3627146--3627188	3	14.0	3	80	4	50	25	6	0	67	1.15
3628894--3628935	15	2.6	16	82	17	52	33	4	0	61	1.17
3629131--3629170	21	1.9	21	85	10	55	22	17	22	37	1.94
3629165--3629205	21	2.0	21	95	0	73	34	29	12	24	1.91
3629167--3629212	21	2.2	21	88	0	65	32	32	13	21	1.92
3631362--3631412	16	3.2	15	81	10	57	45	27	17	9	1.80
3631886--3631936	20	2.5	20	87	0	75	47	13	15	23	1.82
3631886--3631944	20	2.9	19	85	5	73	42	15	16	25	1.88
3636461--3636575	24	4.8	24	86	4	160	39	20	13	26	1.90
3636461--3636597	72	1.9	72	83	5	179	41	18	13	26	1.87
3642528--3642604	3	25.3	3	74	12	59	62	1	0	36	1.04
3647799--3647888	47	1.9	47	88	6	139	38	12	15	33	1.85
3649450--3649601	20	7.0	21	77	18	141	44	12	25	18	1.85
3649437--3649575	46	3.0	45	93	4	233	44	12	24	17	1.84
3649437--3649560	26	5.2	26	74	21	137	45	12	22	18	1.83
3650668--3650906	118	2.0	118	100	0	478	35	12	18	33	1.89
3652881--3652961	38	2.2	37	80	10	94	40	6	20	32	1.77
3653081--3653150	36	2.0	36	94	2	124	45	7	17	30	1.75
3653081--3653162	35	2.3	36	89	6	114	43	6	17	32	1.73
3654892--3654930	2	19.5	2	100	0	78	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3656411--3656447	17	2.1	19	85	10	51	64	0	21	13	1.27
3664111--3664648	265	2.0	265	98	0	1031	36	21	7	34	1.81
3690334--3690381	21	2.3	21	92	0	78	39	12	10	37	1.77
3690393--3690581	95	2.0	95	85	0	252	31	14	25	28	1.95
3690409--3690616	95	2.2	95	82	3	231	31	14	25	27	1.95
3698163--3698224	32	2.0	32	87	9	92	54	0	25	19	1.44
3703391--3703450	30	2.0	31	90	3	95	30	8	8	53	1.60
3704360--3704410	20	2.6	20	90	3	77	35	15	5	43	1.71
3704824--3704865	19	2.2	19	91	8	68	26	14	0	59	1.35
3706557--3706597	21	2.0	21	85	0	55	24	24	12	39	1.89

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