genome.fa.s8128.2.7.7.80.10.50.1000.15.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: VEPZ01008128.1 Hibiscus syriacus cultivar Beakdansim tig00110683_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4987688

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  15  of  20  ( 2387 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)
3500574--3500613	21	1.9	21	100	0	80	15	25	45	15	1.84
3500652--3500681	15	2.0	15	100	0	60	13	26	33	26	1.93
3500667--3500707	20	2.0	20	90	0	64	14	29	34	21	1.93
3500797--3500856	29	2.0	31	93	6	106	43	16	3	36	1.65
3502135--3502184	20	2.5	20	100	0	100	32	6	8	54	1.54
3502148--3502206	20	3.1	19	85	7	66	33	11	6	47	1.67
3503482--3503551	34	2.1	32	86	5	95	22	30	15	31	1.95
3503891--3503932	20	2.1	20	100	0	84	14	28	42	14	1.84
3504114--3504172	29	2.0	31	93	6	104	44	16	3	35	1.65
3508420--3508462	2	21.5	2	100	0	86	51	0	0	48	1.00
3510580--3510633	8	6.8	8	84	0	63	51	9	0	38	1.34
3510579--3510633	12	4.6	12	86	0	74	50	9	0	40	1.34
3510579--3510633	4	13.8	4	86	0	56	50	9	0	40	1.34
3510653--3510771	39	3.1	39	80	12	138	36	14	0	49	1.43
3511563--3511607	16	2.6	19	76	16	53	28	0	4	66	1.11
3511558--3511634	34	2.2	34	82	13	95	31	0	3	64	1.11
3511590--3511667	32	2.5	30	81	12	86	37	0	1	61	1.04
3513142--3513189	21	2.3	21	85	0	60	25	39	12	22	1.89
3513193--3513286	21	4.5	21	92	5	129	18	35	26	20	1.95
3517497--3517534	20	1.9	20	94	0	67	50	5	0	44	1.24
3517676--3517751	29	2.5	32	80	6	86	44	5	5	44	1.49
3519899--3520185	142	2.0	141	91	0	466	30	20	17	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3532812--3532854	21	2.0	21	86	0	59	30	27	23	18	1.98
3533736--3533764	4	7.2	4	100	0	58	27	0	24	48	1.51
3534016--3534298	30	9.4	30	98	0	539	23	19	23	33	1.97
3537629--3537671	21	2.0	21	81	0	50	27	27	25	18	1.98
3538552--3538576	4	6.2	4	100	0	50	28	0	24	48	1.52
3538767--3538842	31	2.5	31	82	0	80	30	15	21	32	1.94
3538828--3539110	30	9.4	30	96	0	512	23	18	24	34	1.96
3542526--3542591	20	3.3	20	72	16	73	28	22	15	33	1.94
3542526--3542622	40	2.4	40	92	0	158	30	22	14	31	1.94
3542545--3542617	20	3.7	20	66	20	53	35	23	13	27	1.92
3546448--3546659	110	1.9	112	88	1	320	39	16	10	33	1.83
3550071--3550266	102	1.9	102	90	2	313	30	10	12	47	1.74
3561691--3561748	9	6.2	9	76	6	53	77	0	18	3	0.91
3577180--3577294	36	3.2	36	79	10	119	55	19	7	17	1.65
3577936--3578205	142	1.9	142	86	0	387	37	7	20	34	1.80
3578072--3578328	107	2.4	107	84	4	320	36	7	18	37	1.80
3578127--3578365	107	2.2	106	79	11	247	36	9	17	36	1.82
3599277--3599323	22	2.3	21	85	10	62	40	19	10	29	1.85
3599831--3602484	81	32.8	81	82	2	2778	36	10	24	29	1.88
3600112--3600164	27	2.0	27	88	0	79	30	11	28	30	1.91
3607350--3607612	81	3.2	81	88	0	382	36	9	22	30	1.87
3615328--3615786	54	8.5	54	91	2	692	36	15	13	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3616732--3616782	23	2.2	23	100	0	102	66	25	7	0	1.18
3621324--3621530	112	1.9	111	86	6	269	37	16	16	29	1.91
3624927--3625016	23	4.0	23	89	2	130	21	23	30	25	1.99
3628571--3628622	24	2.2	24	89	0	77	28	19	5	46	1.73
3632294--3632405	42	2.6	42	92	1	188	59	0	10	28	1.37
3632474--3632511	13	2.9	13	84	11	51	73	0	0	26	0.83
3633214--3633264	22	2.4	22	86	3	68	58	13	5	21	1.56
3633255--3633443	92	2.0	93	95	1	344	57	10	1	30	1.42
3633695--3633733	18	2.2	18	90	0	60	58	28	5	7	1.47
3645610--3645644	15	2.3	15	95	0	61	22	11	34	31	1.90
3649855--3649893	20	2.0	20	89	0	60	33	23	10	33	1.88
3652973--3653001	10	2.7	11	89	10	51	72	6	0	20	1.07
3653269--3653294	6	4.3	6	100	0	52	69	0	15	15	1.20
3654839--3655000	54	3.0	54	91	3	256	37	13	14	34	1.85
3662199--3662246	12	3.9	12	84	15	71	75	2	0	22	0.91
3662199--3662247	20	2.6	20	84	9	68	75	2	0	22	0.90
3662197--3662249	16	3.4	16	74	25	51	73	1	0	24	0.93
3662199--3662247	25	1.9	26	95	4	91	75	2	0	22	0.90
3668404--3668463	20	2.9	20	82	9	59	25	33	26	15	1.95
3671992--3672152	37	4.3	37	85	7	202	45	9	2	42	1.51
3672115--3672223	35	3.2	35	77	10	102	43	9	3	44	1.54
3672464--3672870	85	4.8	85	84	0	526	27	17	20	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3674255--3674533	99	2.8	99	88	2	416	31	18	17	32	1.94
3679916--3679955	2	20.0	2	100	0	80	50	0	0	50	1.00
3680018--3680197	36	5.0	36	77	11	140	45	9	2	42	1.48
3680035--3680154	38	3.2	38	79	5	145	45	7	2	45	1.45
3680048--3680251	35	5.6	35	72	17	125	45	8	3	42	1.52
3680354--3680414	32	1.9	33	90	6	99	47	4	14	32	1.66
3681440--3681688	87	3.0	82	80	9	277	46	7	16	29	1.75
3690393--3690557	45	3.7	45	87	2	233	34	22	5	37	1.77
3690554--3690596	20	2.2	20	86	0	59	53	20	6	18	1.67
3693155--3693205	20	2.5	20	93	0	93	33	11	27	27	1.92
3693624--3693966	54	6.4	54	87	0	436	34	19	17	28	1.95
3696094--3696119	12	2.2	12	100	0	52	0	38	34	26	1.57
3699468--3699524	21	2.8	21	97	2	107	35	22	10	31	1.88
3701062--3701101	21	1.9	21	85	10	55	35	10	2	52	1.48
3705672--3705706	15	2.3	15	100	0	70	17	20	28	34	1.95
3709268--3709315	20	2.5	19	86	6	62	31	12	27	29	1.93
3709737--3710023	54	5.3	54	86	2	371	34	20	17	28	1.95
3713184--3713218	18	2.0	18	94	5	63	34	17	28	20	1.95
3714538--3714603	34	1.9	34	87	0	96	27	9	18	45	1.79
3714559--3714628	32	2.1	34	84	5	90	22	4	25	47	1.70
3718743--3718844	34	3.0	34	97	0	186	25	8	22	43	1.82
3721905--3722004	21	4.7	21	79	6	112	21	34	20	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3721905--3722004	43	2.4	42	88	5	139	21	34	20	25	1.97
3722024--3722078	20	2.8	20	94	0	92	18	38	20	23	1.93
3725176--3725220	21	2.1	21	87	0	63	26	8	13	51	1.70
3725454--3725550	21	4.6	20	78	13	97	22	35	19	22	1.96
3726509--3726573	33	1.9	34	96	3	123	38	26	12	23	1.90
3726517--3726581	33	2.1	31	86	11	89	36	29	10	23	1.88
3731187--3731300	35	3.1	36	69	20	94	35	23	13	27	1.92
3731993--3732042	25	2.0	25	96	0	91	36	26	4	34	1.75
3737426--3737619	74	2.6	74	82	5	232	50	15	6	27	1.69
3737540--3737567	11	2.5	11	100	0	56	64	7	0	28	1.20
3751584--3751623	21	1.9	21	85	10	55	30	27	12	30	1.93
3757912--3757984	20	3.7	20	88	0	101	30	23	17	28	1.97
3760215--3760264	21	2.4	21	96	0	91	36	4	26	34	1.75
3763489--3763556	23	3.0	23	93	0	118	33	8	19	38	1.82
3763640--3764164	200	2.6	197	81	5	592	32	14	13	39	1.86
3763999--3764336	177	1.9	178	85	4	468	32	13	14	39	1.85
3765193--3765241	19	2.6	19	86	0	71	55	10	2	32	1.45
3766396--3767344	200	4.8	200	81	8	932	32	15	12	39	1.85
3766696--3767062	180	2.0	180	91	2	594	31	16	13	38	1.87
3766973--3767341	199	1.8	200	86	4	530	33	14	11	39	1.83
3767579--3767615	18	2.1	18	89	0	56	51	10	5	32	1.60
3768932--3768965	6	5.7	6	89	0	50	20	32	2	44	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3770440--3771990	200	7.8	200	84	3	1898	32	17	13	36	1.89
3770441--3771990	392	3.9	399	87	2	2045	32	17	13	36	1.88
3772007--3772045	15	2.6	15	91	0	60	23	10	25	41	1.86
3773943--3773999	18	3.2	18	97	0	105	5	36	0	57	1.21
3774179--3774245	33	2.0	33	91	0	107	26	44	0	28	1.54
3774279--3774322	21	2.1	21	95	0	79	13	34	11	40	1.81
3776838--3777074	112	2.1	112	85	1	314	26	15	15	42	1.86
3778372--3778459	44	2.0	44	93	0	149	27	7	26	38	1.84
3783955--3784047	41	2.3	41	86	0	132	29	13	20	36	1.91
3792437--3792482	23	2.0	23	100	0	92	34	8	21	34	1.84

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20