genome.fa.s1547.2.7.7.80.10.50.1000.18.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: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10425128

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   

This is table  18  of  51  ( 6083 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)
3542692--3542783	33	2.8	33	93	1	159	46	21	20	10	1.81
3542655--3542788	19	7.6	19	77	16	119	45	23	19	11	1.82
3542784--3542912	19	7.3	19	75	17	125	8	17	28	45	1.77
3542784--3542875	33	2.8	33	93	3	150	7	18	28	45	1.76
3542956--3543416	91	5.1	93	92	6	813	45	18	12	22	1.83
3543154--3543416	92	2.9	92	93	4	469	46	18	13	22	1.83
3545090--3545198	33	3.4	32	90	7	170	44	22	24	9	1.82
3545095--3545170	14	4.6	18	75	25	71	42	23	25	9	1.83
3545215--3545269	14	3.6	14	73	21	56	9	25	23	41	1.83
3545199--3545269	33	2.2	33	94	0	124	8	22	25	43	1.81
3545210--3545291	33	2.5	33	89	2	119	9	25	21	42	1.84
3545222--3545310	20	4.8	20	72	19	75	12	24	19	43	1.85
3545391--3545457	33	2.1	33	88	2	100	49	19	20	10	1.77
3545835--3546027	20	9.6	20	80	5	210	19	19	25	35	1.96
3545835--3546027	60	3.2	60	82	0	242	19	19	25	35	1.96
3546083--3546134	20	2.6	20	96	0	95	21	13	26	38	1.90
3549039--3549383	115	2.9	117	81	7	356	26	17	23	32	1.96
3551243--3551310	25	2.7	25	86	6	84	2	14	4	77	1.04
3557010--3557100	31	3.0	30	73	7	85	36	7	12	43	1.71
3560701--3560900	56	3.6	55	89	4	294	39	16	18	26	1.91
3562257--3562281	3	8.3	3	100	0	50	64	0	0	36	0.94
3562415--3562674	76	3.4	76	96	0	466	34	21	20	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3562539--3563119	260	2.2	260	95	0	1045	38	16	15	29	1.90
3563795--3563871	22	3.5	22	92	0	127	40	12	12	33	1.82
3568489--3568550	24	2.5	25	82	10	74	6	17	1	74	1.11
3573921--3573958	15	2.5	15	84	12	51	65	2	0	31	1.06
3576124--3576196	6	12.2	6	97	0	128	31	49	16	2	1.60
3576194--3576232	5	7.8	5	91	0	51	23	33	41	2	1.68
3582097--3582175	6	13.2	6	97	0	140	31	49	16	2	1.59
3582173--3582211	5	7.8	5	91	0	51	23	33	41	2	1.68
3588076--3588148	6	12.2	6	97	0	128	31	49	16	2	1.60
3588146--3588184	5	7.8	5	91	0	51	23	33	41	2	1.68
3594049--3594087	6	6.5	6	100	0	78	33	51	15	0	1.44
3594087--3594151	5	13.0	5	100	0	130	20	40	40	0	1.52
3594151--3594184	5	7.2	5	96	3	54	35	20	44	0	1.52
3595967--3596040	32	2.3	33	84	9	91	31	0	5	63	1.17
3595967--3596068	30	3.2	31	77	8	89	35	0	3	60	1.15
3595996--3596081	15	5.4	15	69	17	50	39	0	2	58	1.11
3597795--3597842	21	2.3	21	85	0	60	25	39	12	22	1.89
3597846--3597939	21	4.5	21	92	5	129	18	35	26	20	1.95
3598461--3598557	33	2.9	34	85	3	133	55	4	3	37	1.35
3598459--3598564	34	3.2	33	82	8	133	54	4	2	37	1.36
3598945--3599673	126	5.8	126	98	0	1390	32	19	25	22	1.98
3598945--3599673	251	2.9	251	98	0	1397	32	19	25	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3599741--3599781	8	5.2	8	82	5	57	36	29	0	34	1.58
3602778--3602817	13	3.2	13	89	7	64	45	0	0	55	0.99
3604309--3604343	10	3.5	10	88	0	52	8	0	91	0	0.42
3605434--3605474	3	13.7	3	89	0	64	60	2	0	36	1.10
3607201--3607318	41	2.9	40	82	3	155	22	20	24	32	1.98
3607233--3607298	20	3.2	20	74	4	78	13	21	27	37	1.91
3607246--3607310	20	3.2	21	73	6	62	16	20	29	33	1.95
3607172--3607453	142	2.0	143	88	3	417	21	22	22	33	1.97
3607347--3607523	21	8.6	21	73	6	155	20	19	25	34	1.96
3607344--3607502	41	3.9	41	92	3	275	19	20	24	35	1.95
3607368--3607481	20	5.6	20	74	8	113	15	22	23	37	1.93
3607347--3607524	62	2.9	62	78	5	182	20	19	25	34	1.96
3607515--3607557	19	2.3	19	100	0	86	18	20	18	41	1.90
3607641--3607673	6	5.5	6	100	0	66	33	51	15	0	1.43
3607674--3607714	5	8.4	5	97	2	75	36	21	41	0	1.54
3608026--3608104	40	2.0	39	87	4	115	34	18	20	26	1.96
3608201--3608313	6	19.0	6	99	0	219	0	16	50	32	1.46
3608392--3608659	41	6.5	40	85	5	249	36	23	21	17	1.94
3608414--3608488	21	3.6	21	74	5	80	37	28	21	13	1.91
3608433--3608659	82	2.8	82	93	2	368	36	24	21	17	1.95
3608385--3608659	123	2.2	125	89	5	409	36	23	20	19	1.95
3608433--3608659	41	5.6	40	87	6	289	36	24	21	17	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3608957--3609001	20	2.2	21	84	8	65	55	13	8	22	1.65
3608965--3609004	20	2.0	20	95	0	71	57	12	10	20	1.63
3611735--3611793	25	2.3	24	82	8	64	32	3	37	27	1.73
3613328--3613384	28	2.0	28	86	0	78	12	7	17	63	1.50
3613325--3613368	14	3.1	15	87	6	65	13	6	15	63	1.49
3613316--3613376	24	2.5	24	83	0	77	13	8	18	60	1.56
3613556--3613635	23	3.4	23	78	10	99	12	12	17	57	1.65
3613556--3613645	23	3.9	23	77	8	92	12	11	17	58	1.62
3613556--3613664	47	2.3	47	88	0	155	11	12	17	57	1.64
3613548--3613683	24	5.8	24	74	3	105	12	11	16	58	1.62
3613951--3614100	58	2.5	59	80	13	157	30	20	6	43	1.75
3613994--3614121	60	2.1	60	81	8	145	34	21	6	38	1.78
3617310--3617353	2	22.0	2	100	0	88	50	0	0	50	1.00
3622929--3624663	864	2.0	867	89	1	2624	35	16	16	31	1.91
3624660--3624707	23	2.1	23	100	0	96	54	8	20	16	1.68
3631274--3631329	20	2.7	20	78	10	58	3	12	3	80	0.97
3635566--3635909	172	2.0	172	100	0	688	47	6	18	28	1.73
3637489--3637526	17	2.2	17	86	9	51	63	2	2	31	1.22
3639171--3639228	20	2.9	20	94	0	107	41	10	24	24	1.86
3640988--3641058	19	3.8	18	68	18	56	16	14	30	38	1.89
3641924--3641986	15	4.2	15	87	0	81	14	26	15	42	1.86
3645325--3645357	16	2.0	16	94	5	57	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3645870--3645904	14	2.5	14	100	0	70	20	22	34	22	1.97
3659906--3660249	172	2.0	172	96	2	638	27	22	17	32	1.96
3663380--3663505	50	2.5	50	76	5	137	17	32	26	23	1.97
3668621--3668660	21	1.9	21	84	0	53	25	0	25	50	1.50
3668900--3668926	2	13.5	2	100	0	54	51	0	48	0	1.00
3681646--3681893	130	1.9	130	91	0	406	34	14	13	37	1.85
3681660--3681924	130	2.0	129	80	4	291	38	12	13	35	1.83
3682222--3682284	28	2.3	27	78	8	63	46	1	3	49	1.27
3682360--3682393	16	2.0	18	88	11	54	64	5	2	26	1.30
3682516--3682558	21	2.0	21	100	0	86	39	0	13	46	1.44
3682527--3682612	35	2.5	35	84	0	100	37	1	20	40	1.61
3692283--3692490	42	5.2	42	85	9	290	26	4	17	50	1.66
3692317--3692392	34	2.2	34	92	0	125	28	5	18	47	1.70
3692273--3692490	76	2.7	78	84	8	289	26	4	18	50	1.66
3693880--3693918	15	2.6	15	95	0	69	58	12	2	25	1.47
3694078--3694129	20	2.6	21	81	9	72	25	34	15	25	1.95
3695048--3695101	24	2.2	24	93	0	90	20	18	20	40	1.91
3697366--3697401	18	2.0	18	94	0	63	55	25	2	16	1.55
3697725--3697788	20	3.2	20	77	0	83	40	23	18	17	1.91
3697922--3697973	25	2.1	25	96	0	95	28	7	17	46	1.75
3698361--3698397	18	2.1	18	89	0	56	32	5	10	51	1.60
3698353--3698405	24	2.2	24	86	0	70	35	3	13	47	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3698706--3698794	39	2.3	39	94	0	160	47	19	14	19	1.83
3700615--3700713	21	4.7	21	80	8	112	23	20	32	24	1.98
3703326--3703469	20	7.2	20	76	10	152	20	18	22	38	1.93
3705296--3705338	21	2.0	21	82	8	52	34	2	2	60	1.22
3705807--3705840	15	2.3	15	90	5	52	23	2	5	67	1.26
3706235--3706284	21	2.4	21	83	3	57	32	4	28	36	1.76
3715026--3715082	26	2.2	26	93	0	105	47	3	8	40	1.52
3715383--3715483	2	50.5	2	100	0	202	0	49	0	50	1.00
3718379--3718434	15	3.6	15	70	25	53	76	7	3	12	1.11
3718381--3718446	32	2.0	33	94	2	116	71	9	3	16	1.25

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51