genome.fa.s8229.2.7.7.80.10.50.1000.17.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: VEPZ01008229.1 Hibiscus syriacus cultivar Beakdansim tig00110865_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3634043

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

This is table  17  of  17  ( 2034 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)
3479670--3479761	36	2.6	36	96	0	166	48	10	21	18	1.78
3479670--3479726	17	3.2	17	69	26	55	49	8	22	19	1.76
3479831--3479886	17	3.2	16	69	26	51	46	12	19	21	1.83
3479672--3480040	155	2.3	156	97	2	695	43	14	18	23	1.87
3479823--3479916	36	2.6	35	93	5	161	50	10	21	18	1.77
3479863--3480139	124	2.3	120	84	6	355	41	15	18	24	1.89
3480295--3480335	3	13.7	3	94	0	73	34	0	0	65	0.93
3485808--3485879	36	2.0	36	91	0	117	22	22	25	30	1.99
3487898--3487946	19	2.7	17	79	14	53	53	12	18	16	1.73
3489540--3489611	35	2.1	35	100	0	144	40	11	20	27	1.87
3490079--3490109	2	15.5	2	100	0	62	48	0	0	51	1.00
3490283--3490321	2	19.5	2	100	0	78	48	0	0	51	1.00
3490434--3490510	41	1.9	39	86	5	109	18	27	6	48	1.72
3494404--3494429	11	2.4	11	100	0	52	38	15	7	38	1.76
3495134--3495190	18	3.3	16	73	17	60	78	3	14	3	1.01
3495136--3495183	20	2.3	21	82	13	64	79	4	14	2	0.98
3495760--3495814	25	2.2	25	96	0	101	34	21	30	12	1.91
3496749--3496872	36	3.4	36	79	2	140	25	20	13	40	1.89
3497535--3497960	106	4.0	106	92	0	699	34	25	18	21	1.96
3498438--3498514	35	2.2	35	93	4	129	44	10	19	25	1.83
3498889--3498928	18	2.3	18	83	8	57	25	5	2	67	1.23
3499109--3499134	2	13.0	2	100	0	52	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)
3499190--3499291	2	53.5	2	74	16	65	40	1	0	57	1.10
3499195--3499333	69	2.0	69	95	2	253	37	2	0	59	1.12
3499404--3499478	39	1.9	39	83	0	96	18	26	5	49	1.69
3499625--3499710	9	9.7	9	67	15	54	17	8	0	74	1.05
3499625--3499680	22	2.6	21	85	2	67	16	5	0	78	0.92
3499625--3499710	13	6.5	12	74	18	64	17	8	0	74	1.05
3501910--3501949	21	1.9	21	89	0	62	42	7	7	42	1.61
3503052--3503076	12	2.1	12	100	0	50	8	16	8	68	1.38
3506590--3506624	16	2.2	16	89	0	52	62	5	0	31	1.18
3507861--3507918	21	2.8	21	89	5	82	34	31	15	18	1.93
3508573--3508643	22	3.3	21	74	7	72	23	32	14	29	1.94
3508549--3508649	42	2.4	42	85	3	141	26	32	12	27	1.93
3510580--3510633	26	2.1	26	92	0	90	29	31	7	31	1.85
3514068--3514167	21	4.7	21	73	16	80	33	24	18	25	1.97
3517117--3517210	46	2.0	46	95	0	170	50	1	15	32	1.52
3520327--3520473	32	4.6	32	74	14	124	38	19	10	32	1.85
3520359--3520410	16	3.2	16	72	20	54	44	17	5	32	1.72
3521462--3521513	21	2.5	21	87	0	68	28	11	23	36	1.90
3522735--3522844	32	3.5	31	81	6	130	34	20	13	30	1.92
3523798--3523852	21	2.6	21	82	0	65	30	21	18	29	1.97
3524432--3524457	10	2.6	10	100	0	52	42	0	0	57	0.98
3527000--3527043	17	2.6	17	77	0	52	70	2	0	27	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3546265--3546323	20	2.9	19	82	12	66	74	1	18	5	1.09
3548157--3548610	54	8.4	54	82	3	527	31	9	19	39	1.84
3548157--3548610	161	2.8	162	84	4	590	31	9	19	39	1.84
3548461--3548877	144	2.9	144	84	3	538	30	9	17	41	1.81
3548720--3548790	32	2.2	32	87	0	97	25	8	16	49	1.74
3548664--3548844	86	2.1	89	85	3	242	28	9	18	42	1.83
3548750--3548877	54	2.3	55	85	1	168	30	9	18	41	1.82
3549776--3549889	37	3.1	37	80	6	117	26	14	15	43	1.85
3550474--3551108	203	3.1	205	81	6	671	34	18	20	27	1.95
3551051--3551146	38	2.5	38	88	3	131	44	9	23	21	1.81
3552919--3553166	137	1.8	136	80	8	297	30	15	12	41	1.85
3556365--3556408	18	2.4	18	100	0	88	38	13	25	22	1.91
3557390--3557435	2	23.0	2	95	0	83	50	2	0	47	1.13
3559053--3559091	2	19.5	2	100	0	78	48	0	0	51	1.00
3562391--3562435	24	1.9	24	86	4	65	46	6	17	28	1.73
3566920--3567033	60	1.9	60	80	7	133	36	15	11	35	1.84
3567246--3567297	22	2.5	21	78	9	61	44	5	3	46	1.45
3570729--3570791	20	2.9	21	79	9	65	15	25	34	23	1.95
3577092--3577232	74	1.9	73	82	4	176	29	12	7	50	1.67
3578386--3578413	13	2.2	13	100	0	56	35	14	10	39	1.81
3580159--3580210	20	2.6	19	79	8	59	65	1	0	32	1.04
3580068--3580302	120	2.0	120	81	5	282	45	7	8	38	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3580393--3580428	3	12.0	3	93	0	63	63	0	2	33	1.08
3581759--3581811	3	17.0	3	77	14	54	64	0	1	33	1.05
3581759--3581799	19	2.2	18	91	4	64	63	0	0	36	0.95
3582504--3582560	19	2.9	20	70	15	55	21	22	10	45	1.82
3582154--3583274	113	10.0	113	90	3	1547	28	19	15	37	1.92
3584725--3584781	8	6.2	9	78	13	55	0	17	0	82	0.67
3584727--3584780	11	4.6	11	84	13	72	0	14	0	85	0.61
3584727--3584780	25	2.3	22	87	9	72	0	14	0	85	0.61
3584730--3584781	20	2.6	20	81	9	61	0	17	0	82	0.66
3595373--3595439	25	2.7	26	84	9	77	71	0	1	26	0.94
3595376--3595421	11	3.8	12	77	16	51	73	0	0	26	0.83
3595386--3595433	18	2.6	17	81	15	51	70	0	2	27	0.98
3595848--3595938	48	1.9	48	82	12	118	49	3	2	45	1.30
3596022--3596073	20	2.6	19	79	8	59	65	1	0	32	1.04
3595935--3596165	120	1.9	119	82	8	283	46	7	7	38	1.61
3596255--3596284	3	10.0	3	92	0	51	63	0	3	33	1.11
3597604--3597663	3	19.0	3	80	16	68	66	0	0	33	0.92
3597614--3597664	7	7.3	7	79	20	54	68	0	0	31	0.90
3597604--3597663	10	6.6	10	81	16	69	66	0	0	33	0.92
3597604--3597665	19	3.4	19	84	10	94	67	0	0	32	0.91
3598651--3598701	25	2.0	27	88	7	79	37	1	0	60	1.08
3598740--3598805	18	3.5	18	74	11	69	25	6	1	66	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3598807--3598863	27	2.2	25	84	6	69	22	3	0	73	0.98
3599051--3599088	6	6.3	6	82	11	51	13	0	5	81	0.85
3599046--3599105	25	2.5	24	82	12	63	11	5	5	78	1.07
3602203--3602254	13	4.0	12	77	22	52	75	3	17	3	1.11
3603917--3603991	37	2.0	38	86	2	107	29	21	14	34	1.93
3603998--3604084	37	2.4	37	88	1	122	25	20	13	40	1.89
3603917--3604183	102	2.6	102	93	0	446	29	20	13	36	1.91
3604100--3604360	36	7.4	36	78	9	252	27	19	12	40	1.87
3603998--3604423	137	3.1	136	82	4	464	28	20	11	39	1.87
3604318--3604480	67	2.4	67	85	8	208	32	22	7	37	1.82
3604309--3604501	67	2.9	67	83	7	207	32	22	7	37	1.81
3606721--3606789	14	4.9	14	79	11	70	34	2	0	62	1.10
3606754--3606797	2	22.5	2	84	13	56	43	4	0	52	1.22
3606731--3606795	16	4.2	15	79	11	69	38	3	0	58	1.14
3606754--3606813	12	5.1	12	84	9	61	41	3	5	50	1.41
3606838--3606940	36	3.0	33	77	14	93	27	4	1	66	1.23
3606893--3607028	42	3.1	42	72	18	109	22	5	2	69	1.21
3609511--3609588	37	2.1	36	85	2	102	28	12	2	56	1.50
3614073--3614199	12	10.6	12	68	13	82	20	10	15	53	1.71
3614069--3614199	24	5.5	24	85	0	163	20	9	16	53	1.71
3615581--3615676	38	2.5	38	91	3	149	44	9	22	22	1.81
3618484--3618553	28	2.5	29	90	9	119	11	15	5	67	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3622893--3622932	19	2.2	19	86	4	55	60	2	10	27	1.42
3624730--3624755	3	8.7	3	100	0	52	65	0	0	34	0.93
3626043--3626347	138	2.2	136	78	8	298	28	16	15	39	1.90
3628344--3628425	41	2.0	41	100	0	164	19	9	39	31	1.84

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

The End!