genome.fa.s8310.2.7.7.80.10.50.1000.14.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: VEPZ01008310.1 Hibiscus syriacus cultivar Beakdansim tig00111000_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3887810

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

This is table  14  of  15  ( 1695 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)
3577478--3577516	18	2.0	20	85	9	55	53	0	0	46	1.00
3579005--3579107	37	2.9	36	81	8	120	46	0	0	52	1.07
3580785--3580866	41	2.0	41	100	0	164	41	19	17	21	1.90
3580997--3581049	18	2.9	18	94	0	88	45	13	7	33	1.71
3583824--3584000	75	2.4	75	86	1	239	20	24	32	22	1.98
3592446--3592647	75	2.7	75	85	4	255	19	24	32	23	1.98
3593577--3593665	30	3.0	29	82	11	92	35	16	4	42	1.69
3594204--3594254	22	2.3	22	86	0	75	33	1	15	49	1.56
3599789--3599829	20	2.1	20	86	4	57	46	9	2	41	1.50
3599943--3600558	197	3.1	197	82	6	723	37	5	9	47	1.58
3600473--3600740	133	2.0	132	85	3	360	39	4	8	48	1.52
3600675--3600755	32	2.5	32	80	11	87	39	3	3	53	1.37
3608606--3608635	13	2.3	13	100	0	60	6	53	33	6	1.53
3608911--3608951	18	2.3	19	79	12	50	31	2	2	63	1.20
3608922--3608973	26	2.0	26	81	7	61	32	1	1	63	1.16
3612239--3612288	23	2.1	24	88	3	75	68	0	8	24	1.16
3614013--3614086	29	2.5	30	82	2	96	41	5	21	31	1.76
3615907--3615931	12	2.1	12	100	0	50	44	0	24	32	1.54
3616696--3616779	30	2.8	30	90	0	123	30	19	26	23	1.98
3618278--3618339	30	2.1	30	87	0	88	33	11	19	35	1.87
3619432--3619475	21	2.1	21	95	0	79	50	15	9	25	1.74
3619509--3619556	20	2.4	21	89	6	73	37	10	4	47	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3620626--3620673	19	2.5	20	82	3	62	29	12	6	52	1.63
3621816--3621855	21	1.9	22	90	10	66	12	10	40	37	1.77
3621947--3621996	20	2.7	19	84	9	59	30	26	24	20	1.98
3627121--3627324	45	4.5	45	91	1	320	28	23	12	35	1.91
3627933--3627976	17	2.6	17	100	0	88	31	29	13	25	1.94
3637580--3637657	23	3.4	23	77	17	65	16	1	26	55	1.49
3643550--3643810	45	5.8	45	90	0	405	28	25	11	34	1.91
3649866--3649967	34	2.8	37	86	10	158	42	14	14	28	1.85
3649866--3650001	37	3.8	35	82	9	159	41	13	14	30	1.85
3650565--3650598	15	2.2	15	89	5	50	29	0	2	67	1.05
3650557--3650600	10	4.2	10	82	8	52	27	2	2	68	1.14
3650698--3650738	21	2.0	21	85	0	55	24	7	2	65	1.30
3655522--3655573	16	3.2	16	79	15	54	78	7	13	0	0.94
3656647--3656682	18	2.0	18	88	0	54	19	8	30	41	1.81
3657110--3657405	36	8.4	35	75	12	169	26	18	14	40	1.89
3658075--3658733	105	6.3	104	89	4	870	33	26	18	22	1.96
3659280--3659381	34	2.8	37	89	10	167	43	14	14	27	1.85
3659280--3659415	37	3.8	35	84	9	168	41	13	14	29	1.85
3659989--3660022	18	1.9	18	88	5	52	29	0	2	67	1.05
3660116--3660149	16	2.1	16	88	0	50	32	5	0	61	1.20
3660130--3660180	21	2.4	22	80	3	59	27	3	1	66	1.20
3664628--3664674	23	2.0	23	92	8	78	0	14	10	74	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3665162--3665250	3	29.7	3	93	0	151	62	0	2	34	1.07
3665567--3666348	113	6.9	113	94	1	1354	30	18	13	38	1.89
3666981--3667799	83	9.8	84	98	1	1589	37	22	13	26	1.92
3668919--3668993	9	8.6	9	72	17	52	2	16	0	81	0.80
3668922--3668990	12	5.2	13	79	19	72	2	14	0	82	0.78
3668918--3668990	21	3.7	20	81	12	80	2	15	0	82	0.79
3679140--3679164	13	1.9	13	100	0	50	0	24	20	56	1.43
3679631--3679746	3	38.7	3	94	0	205	63	0	1	34	1.04
3681499--3681541	22	2.0	21	86	13	61	46	9	13	30	1.75
3687451--3687485	2	17.5	2	100	0	70	48	0	0	51	1.00
3691921--3691945	6	4.2	6	100	0	50	48	0	32	20	1.50
3692129--3692159	14	2.2	14	100	0	62	25	6	6	61	1.45
3693331--3694170	3	284.0	3	76	6	505	0	46	0	53	1.03
3694415--3694452	13	3.2	12	86	13	53	63	0	7	28	1.23
3696029--3696102	38	1.9	38	88	2	112	28	10	10	50	1.71
3696568--3696602	18	1.9	18	88	11	54	57	0	5	37	1.23
3697439--3697510	34	2.2	33	94	2	126	30	18	15	36	1.91
3697472--3697625	59	2.6	59	89	1	218	31	21	16	30	1.95
3709420--3709491	35	2.1	35	91	0	117	18	23	5	52	1.66
3709376--3709541	80	2.1	80	87	0	233	23	20	6	50	1.70
3709455--3709599	45	3.2	45	89	0	218	26	20	5	47	1.72
3709455--3709619	45	3.7	45	83	6	199	26	20	6	47	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3709682--3710227	81	6.7	81	89	2	751	31	24	11	32	1.90
3710177--3710634	68	6.7	68	85	1	603	30	23	13	32	1.93
3710847--3711061	55	3.9	55	86	1	288	33	19	13	33	1.90
3712605--3713060	45	10.0	45	86	4	509	44	9	23	22	1.82
3712859--3713064	20	8.9	25	68	23	137	46	10	23	19	1.80
3729380--3729420	20	2.0	20	100	0	82	29	14	17	39	1.89
3739093--3739140	18	2.6	18	90	6	69	22	25	33	18	1.97
3739117--3739145	12	2.3	13	94	5	51	17	24	41	17	1.90
3748878--3748912	18	1.9	18	94	0	61	14	48	22	14	1.79
3748954--3749004	21	2.4	21	83	6	68	21	29	21	27	1.99
3750364--3750437	24	3.1	24	81	11	98	17	14	13	54	1.72
3750578--3750652	32	2.4	31	84	6	98	13	20	33	33	1.91
3752605--3752644	18	2.4	17	87	8	55	20	47	22	10	1.79
3754080--3754167	12	7.3	12	73	5	79	15	11	12	60	1.59
3754080--3754167	36	2.4	36	83	3	115	15	11	12	60	1.59
3757766--3757848	24	3.5	24	78	3	87	14	13	12	60	1.60
3761518--3761579	24	2.6	24	78	0	79	17	9	17	54	1.69
3768690--3768744	20	2.8	19	80	5	65	40	14	20	25	1.90
3775774--3775812	21	1.9	20	89	5	60	38	7	10	43	1.67
3775622--3775927	152	2.0	153	82	1	373	38	15	10	34	1.82
3776788--3776857	30	2.3	30	87	0	104	21	24	21	32	1.98
3780146--3781260	200	5.6	194	78	9	825	39	13	14	33	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3780844--3780885	21	2.0	22	85	4	59	35	11	9	42	1.74
3780162--3781257	400	2.7	397	79	6	1104	39	13	13	33	1.84
3781449--3782059	226	2.7	224	90	2	965	32	15	13	38	1.86
3789850--3789874	2	12.5	2	100	0	50	52	0	0	48	1.00
3790896--3790920	12	2.1	12	100	0	50	84	0	8	8	0.79
3791253--3791292	19	2.1	19	85	0	53	50	5	17	27	1.67
3794849--3794898	17	2.8	18	90	6	84	36	0	22	42	1.54
3797724--3799334	200	8.1	199	78	9	1471	40	12	12	34	1.82
3797927--3798750	415	2.0	415	85	3	1131	41	12	12	33	1.80
3798558--3798931	179	2.1	179	85	2	500	40	12	13	33	1.82
3798917--3798962	20	2.2	20	82	14	58	28	10	13	47	1.76
3798171--3799333	582	2.0	587	84	5	1528	40	12	13	33	1.82
3799841--3799886	18	2.5	19	89	10	78	26	30	8	34	1.86
3799826--3799886	18	3.4	18	86	0	77	29	32	6	31	1.83
3805513--3805564	21	2.6	21	90	6	81	34	13	5	46	1.67
3805921--3805954	13	2.8	12	86	4	50	38	32	5	23	1.79
3809466--3809515	21	2.5	21	87	6	68	36	10	6	48	1.61
3812885--3812924	21	2.0	21	90	5	64	42	22	10	25	1.84
3812827--3814736	200	9.7	197	80	8	1488	38	14	13	33	1.86
3814867--3814905	20	2.0	20	100	0	78	46	10	15	28	1.78
3815078--3815468	215	1.8	215	88	1	595	32	14	13	39	1.85
3821281--3821333	27	1.9	28	85	11	74	58	18	15	7	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3822606--3822673	24	2.8	24	71	4	57	30	16	20	32	1.94
3826246--3826454	113	1.8	113	83	2	276	27	17	12	42	1.86
3828976--3829057	41	2.0	41	100	0	164	36	26	9	26	1.88
3831552--3831584	12	2.8	12	95	4	59	15	6	0	78	0.93
3844538--3844599	29	2.1	30	87	3	90	43	6	16	33	1.73
3845547--3845623	38	1.9	38	84	7	100	63	1	9	25	1.32
3846267--3846388	64	1.9	63	91	5	201	55	14	0	29	1.40
3846302--3846364	19	3.2	19	75	4	54	55	12	0	31	1.37
3846342--3846389	25	2.0	24	83	4	60	60	14	0	25	1.34
3846338--3846485	76	2.0	74	85	6	199	56	11	1	30	1.43

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