genome.fa.s8082.2.7.7.80.10.50.1000.18.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: VEPZ01008082.1 Hibiscus syriacus cultivar Beakdansim tig00110584_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6025995

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   

This is table  18  of  28  ( 3312 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)
3526853--3526924	30	2.4	31	86	6	94	27	19	20	31	1.97
3526853--3526999	31	4.9	30	72	19	94	32	17	19	30	1.95
3526644--3527057	202	2.0	208	94	4	741	30	21	17	30	1.96
3528879--3528945	30	2.2	30	82	10	84	44	11	8	34	1.73
3529572--3529651	20	4.1	19	71	18	56	61	2	0	36	1.10
3529598--3529641	24	1.9	24	86	9	65	56	2	0	40	1.11
3530274--3530602	43	7.7	43	84	1	347	27	17	22	31	1.97
3531027--3531069	21	2.0	21	90	0	68	2	41	13	41	1.57
3539616--3539761	41	3.5	41	72	14	129	29	19	18	32	1.95
3539638--3539746	41	2.6	42	76	9	134	30	17	17	34	1.93
3539810--3540101	146	2.0	146	98	0	566	39	14	5	40	1.68
3540877--3540925	22	2.2	22	82	7	64	30	16	12	40	1.85
3541370--3541489	42	2.9	42	80	5	136	31	20	14	33	1.92
3541370--3541452	41	2.0	42	90	2	132	32	20	12	34	1.89
3543085--3543234	65	2.3	64	75	13	144	34	6	8	50	1.58
3546897--3547738	417	2.0	413	85	6	1137	43	8	9	38	1.66
3547550--3547995	181	2.5	181	78	5	431	38	10	9	41	1.73
3550912--3551014	51	2.0	51	98	0	197	47	14	12	25	1.79
3555169--3555210	17	2.5	17	96	0	75	54	26	7	11	1.62
3555919--3555970	20	2.6	20	90	0	77	42	23	9	25	1.84
3555919--3555978	20	3.0	20	81	13	70	43	21	10	25	1.83
3557591--3557656	32	2.1	32	91	0	105	28	10	24	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3566111--3566157	23	2.0	23	100	0	94	29	17	8	44	1.78
3566541--3566571	16	1.9	16	93	0	53	22	22	6	48	1.73
3568402--3568647	44	5.6	44	89	0	366	26	21	10	41	1.86
3568402--3568640	132	1.8	132	93	0	415	26	21	10	41	1.86
3572700--3572732	2	16.5	2	100	0	66	48	0	0	51	1.00
3578265--3578295	2	15.5	2	100	0	62	48	0	0	51	1.00
3583221--3583247	2	13.5	2	100	0	54	48	0	0	51	1.00
3588888--3588928	2	20.5	2	100	0	82	51	0	0	48	1.00
3592574--3592633	29	2.1	27	82	11	68	71	3	10	15	1.25
3613551--3613581	15	2.1	15	100	0	62	41	6	38	12	1.69
3617632--3617691	29	2.0	30	84	9	79	71	3	10	15	1.25
3617829--3617893	2	32.0	2	96	3	121	49	1	0	49	1.10
3617926--3617972	22	2.0	23	84	12	60	65	4	0	29	1.11
3619187--3619257	21	3.5	20	75	12	56	49	0	4	46	1.21
3619440--3619688	44	5.7	44	85	1	331	26	20	12	40	1.88
3620134--3620188	22	2.6	21	82	5	58	23	27	16	32	1.96
3628151--3628187	2	18.5	2	88	0	56	43	0	5	51	1.24
3631457--3631595	69	2.0	69	100	0	278	23	17	12	46	1.82
3632380--3632755	133	2.8	132	75	6	366	33	19	14	32	1.91
3635378--3635444	33	2.0	33	100	0	134	20	26	26	25	1.99
3638504--3638542	2	19.5	2	100	0	78	51	0	0	48	1.00
3643736--3643796	23	2.7	23	97	0	113	31	27	24	16	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3664150--3664418	43	6.3	43	90	0	405	18	25	24	32	1.97
3670570--3670599	9	3.2	9	90	9	51	26	0	20	53	1.46
3672685--3672747	28	2.2	28	85	0	81	30	19	7	42	1.79
3672696--3672754	28	2.1	28	83	0	73	35	18	5	40	1.73
3673010--3673148	36	3.9	36	95	0	251	45	17	12	24	1.83
3674452--3674500	20	2.5	20	83	3	64	24	26	20	28	1.99
3674452--3674495	19	2.3	19	88	4	61	27	27	18	27	1.98
3675543--3675573	15	2.1	15	93	0	53	41	12	6	38	1.69
3679468--3679515	18	2.7	18	83	0	60	35	29	2	33	1.69
3679529--3679594	28	2.4	28	84	0	78	31	18	7	42	1.78
3680068--3680131	33	1.9	33	93	0	110	26	18	9	45	1.80
3680230--3680288	21	3.0	21	70	20	56	35	18	6	38	1.78
3687991--3688050	28	2.0	31	84	9	81	31	20	5	43	1.73
3693160--3693206	18	2.6	18	82	3	58	44	8	0	46	1.33
3693193--3693535	30	11.6	29	75	8	230	39	8	2	50	1.45
3693226--3693445	121	1.8	120	80	7	266	37	10	3	49	1.52
3693405--3693525	53	2.2	54	81	8	147	38	10	0	50	1.43
3693542--3693676	29	4.5	29	73	7	99	54	0	8	37	1.36
3693923--3693957	16	2.2	16	89	0	52	71	0	0	28	0.86
3694980--3695140	64	2.5	63	80	8	146	32	19	21	27	1.97
3695694--3695778	22	4.0	22	85	5	106	14	21	32	31	1.93
3696579--3696609	16	1.9	16	93	0	53	25	22	16	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3702950--3702988	13	3.0	13	84	0	51	71	2	2	23	1.10
3704017--3704080	16	4.0	16	76	6	58	71	1	3	23	1.08
3705293--3705482	5	38.2	5	70	23	93	54	4	1	39	1.28
3705300--3705479	2	96.5	2	68	26	94	53	5	1	40	1.30
3705289--3705474	41	4.6	40	72	20	152	54	4	1	39	1.29
3705294--3705477	98	1.9	98	84	10	252	54	4	1	39	1.29
3705282--3705485	36	5.7	36	70	18	133	55	4	0	38	1.26
3705757--3705812	23	2.5	22	80	14	60	48	3	0	48	1.19
3712748--3712954	102	2.0	102	100	0	414	18	10	21	49	1.78
3715961--3716026	33	2.0	33	93	0	114	48	6	16	28	1.70
3722482--3722541	31	2.0	31	86	3	86	28	21	10	40	1.85
3725684--3725724	5	7.8	5	86	10	55	41	14	0	43	1.45
3725688--3725721	12	3.0	12	91	8	54	41	17	0	41	1.50
3729619--3729731	32	3.6	32	79	4	113	34	19	14	31	1.91
3729655--3729756	32	3.2	32	84	2	98	29	20	16	33	1.95
3730176--3730240	20	3.2	20	71	0	58	24	12	24	38	1.90
3731559--3731623	19	3.4	19	95	0	112	12	30	16	40	1.86
3733207--3733263	2	29.0	2	92	3	98	50	1	0	47	1.11
3733455--3733627	82	2.1	82	90	2	265	29	20	10	39	1.85
3739821--3739931	57	1.9	57	87	0	159	21	16	12	49	1.78
3743865--3743954	26	3.5	26	66	15	69	46	8	2	42	1.47
3743954--3744002	14	3.4	14	78	13	55	75	0	0	24	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3743951--3744004	17	3.1	17	78	10	56	70	0	0	29	0.88
3744726--3744762	18	2.0	19	89	5	58	54	10	5	29	1.57
3751099--3751145	23	2.2	23	88	11	73	42	0	8	48	1.33
3751380--3751508	60	2.2	59	81	5	143	39	6	22	31	1.79
3756321--3756397	31	2.5	31	78	2	82	14	24	29	31	1.94
3756321--3756444	63	2.0	63	80	6	144	17	25	27	29	1.98
3761380--3761513	31	4.2	32	72	10	100	19	26	26	28	1.99
3768965--3769008	22	2.0	22	86	0	61	20	6	27	45	1.76
3770870--3770914	23	2.0	23	90	0	72	42	22	20	15	1.89
3776776--3776806	15	2.1	15	93	0	53	9	6	3	80	0.99
3777496--3777540	19	2.4	19	100	0	90	31	17	8	42	1.80
3777515--3777662	74	2.0	75	82	1	181	31	20	10	37	1.87
3778221--3778261	22	1.9	21	85	5	55	51	7	9	31	1.62
3778661--3778712	19	2.7	19	77	19	54	44	1	1	51	1.23
3782486--3782535	21	2.4	21	83	6	57	60	8	2	30	1.37
3783808--3783841	18	1.9	18	88	5	52	26	32	26	14	1.95
3785400--3785444	8	6.0	7	82	12	54	37	28	0	33	1.58
3785396--3785446	15	3.3	15	78	10	59	37	25	0	37	1.56
3790449--3790491	13	3.2	13	87	6	59	34	2	0	62	1.08
3790952--3791000	15	3.3	15	74	25	50	73	0	4	22	1.00
3791698--3791888	76	2.6	76	86	4	255	56	12	1	30	1.42
3791698--3791925	76	3.1	75	81	7	241	56	11	1	30	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3799089--3799137	15	3.3	15	78	16	57	73	0	4	22	1.00
3799151--3799179	13	2.3	13	94	5	51	41	0	13	44	1.44
3799833--3800022	76	2.6	75	89	7	275	55	14	0	29	1.43
3799833--3800059	76	3.1	70	83	9	258	55	13	1	30	1.46
3801432--3801469	2	19.0	2	100	0	76	50	0	0	50	1.00
3804207--3804257	20	2.5	20	83	6	66	45	7	15	31	1.75
3804220--3804257	20	1.9	20	94	0	67	47	7	15	28	1.74
3805731--3805858	41	3.1	40	68	14	100	29	15	25	29	1.96
3805700--3805866	82	2.0	82	86	4	230	32	15	23	28	1.95
3805732--3805941	82	2.5	83	84	2	251	30	14	23	31	1.95

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