genome.fa.s8323.2.7.7.80.10.50.1000.20.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: VEPZ01008323.1 Hibiscus syriacus cultivar Beakdansim tig00111027_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5101972

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   

This is table  20  of  26  ( 3017 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)
3887487--3887533	20	2.3	20	89	10	78	17	17	10	55	1.69
3887273--3887745	181	2.6	182	89	1	716	26	16	14	42	1.86
3887811--3888526	230	3.1	229	97	0	1337	39	7	8	44	1.63
3890174--3890215	16	2.7	15	85	10	57	52	4	14	28	1.62
3892544--3892576	2	16.5	2	100	0	66	48	0	0	51	1.00
3897692--3897785	24	4.0	24	78	2	100	45	12	12	28	1.79
3899636--3899660	2	12.5	2	100	0	50	52	0	0	48	1.00
3900761--3900792	16	2.0	16	93	0	55	15	6	0	78	0.95
3903182--3903263	32	2.5	33	88	3	123	54	17	3	24	1.58
3907816--3907840	2	12.5	2	100	0	50	48	0	52	0	1.00
3916386--3916418	17	1.9	17	93	0	57	66	0	0	33	0.92
3916437--3916473	17	2.2	17	86	13	51	37	8	0	54	1.30
3917466--3917521	20	2.8	20	94	0	94	26	21	8	42	1.82
3926496--3926544	20	2.5	20	83	3	55	30	10	6	53	1.59
3930266--3930328	31	2.0	31	84	6	83	33	22	4	39	1.75
3940681--3940709	2	14.5	2	100	0	58	48	0	0	51	1.00
3954625--3954680	28	2.0	28	82	0	67	32	16	16	35	1.90
3960466--3960574	37	2.9	38	89	4	168	41	14	12	31	1.84
3961176--3961239	30	2.1	31	88	8	96	28	3	1	67	1.15
3961197--3961295	20	5.0	19	72	13	67	23	3	1	72	1.04
3961189--3961295	49	2.2	48	79	15	123	22	2	1	72	1.07
3961203--3961282	25	3.2	24	72	19	67	22	3	1	72	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3961330--3961379	26	1.9	26	88	8	75	20	6	2	72	1.16
3964061--3964119	14	4.2	13	78	18	57	79	3	13	3	0.98
3965406--3965615	116	1.8	116	88	4	325	31	24	19	24	1.98
3965692--3965795	36	2.9	35	87	7	102	30	23	11	34	1.90
3965716--3965795	36	2.2	36	95	2	142	32	21	11	35	1.89
3965810--3965968	37	4.4	36	82	3	185	25	20	12	42	1.87
3965810--3965968	73	2.2	73	86	1	212	25	20	12	42	1.87
3966036--3966152	34	3.4	34	90	1	171	41	16	8	33	1.78
3966476--3966865	185	2.1	185	93	1	667	45	7	3	43	1.49
3967495--3967603	37	2.9	37	91	0	164	42	13	10	33	1.78
3968119--3968188	2	35.5	2	91	2	106	45	0	1	52	1.09
3968212--3968359	4	36.2	4	72	11	68	24	2	1	72	1.03
3968274--3968359	17	5.2	17	75	9	70	17	2	1	79	0.91
3968279--3968359	25	3.7	21	74	19	76	16	2	1	80	0.89
3968281--3968359	22	3.7	20	73	21	70	15	2	1	81	0.87
3968274--3968353	38	2.1	38	86	6	110	17	2	1	78	0.92
3968378--3968436	30	2.0	30	83	6	75	18	6	3	71	1.23
3970443--3970512	26	2.7	26	82	8	79	72	1	5	20	1.12
3972020--3972053	10	3.2	10	91	8	50	67	0	0	32	0.91
3972747--3972835	36	2.6	36	84	7	123	37	8	19	34	1.83
3972809--3972975	67	2.5	65	84	4	217	35	10	21	31	1.88
3973055--3973757	84	8.5	84	79	6	680	25	19	24	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3972978--3973757	165	4.7	165	77	5	739	25	19	24	31	1.98
3977759--3977835	8	9.0	8	72	13	55	75	1	5	18	1.06
3979334--3979367	10	3.3	10	88	8	50	70	0	0	29	0.87
3980027--3980166	37	4.4	31	76	16	135	34	10	18	37	1.84
3980122--3980288	67	2.5	66	81	8	203	35	10	19	33	1.87
3980273--3980674	164	2.5	164	87	0	563	25	19	24	31	1.98
3980277--3980904	84	7.6	83	75	4	509	24	18	24	32	1.97
3980368--3980904	249	2.2	247	88	2	763	24	19	24	31	1.98
3982777--3982846	34	2.1	34	100	0	140	35	24	14	25	1.93
3984777--3984842	4	17.2	4	73	14	50	74	1	4	19	1.07
3984780--3984813	18	1.9	17	100	0	59	76	0	0	23	0.79
3986465--3986548	37	2.3	37	83	6	109	44	19	4	32	1.71
3991103--3991163	21	3.2	21	65	29	64	42	21	4	31	1.74
3991055--3991164	35	3.1	35	92	3	168	44	20	4	30	1.71
3992210--3992262	21	2.5	21	75	6	54	45	30	3	20	1.69
3994281--3994446	90	1.8	90	82	7	212	38	9	11	40	1.74
3998582--3998772	60	3.2	60	81	8	203	34	23	5	37	1.77
3998891--3999007	60	2.0	60	84	0	153	38	3	23	35	1.72
4002621--4002793	56	3.0	56	94	3	283	31	16	25	27	1.96
4007927--4007965	20	2.0	20	84	0	51	23	7	23	46	1.78
4008121--4008160	21	1.9	21	89	0	62	10	25	40	25	1.86
4008143--4008203	20	2.9	21	87	7	79	18	26	34	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4014992--4015062	15	5.0	15	70	17	62	54	2	0	42	1.14
4014997--4015080	42	2.0	42	90	6	136	50	3	1	45	1.27
4015168--4015243	26	3.0	26	67	20	70	36	15	3	43	1.66
4018966--4019058	31	2.7	35	75	16	104	21	18	26	33	1.96
4018977--4019050	31	2.4	31	90	0	121	20	21	24	33	1.97
4019241--4019520	42	6.6	42	77	9	248	34	20	20	24	1.96
4023563--4023772	65	3.3	63	77	9	201	26	19	23	30	1.98
4026421--4026487	21	3.2	19	72	17	53	23	22	23	29	1.99
4032164--4032373	65	3.3	62	79	9	217	27	18	24	30	1.98
4033146--4033252	41	2.6	41	86	4	135	29	16	18	34	1.94
4033270--4033469	83	2.5	81	80	2	240	30	19	19	31	1.96
4051930--4052246	54	5.9	54	88	0	463	28	17	21	32	1.96
4051932--4052283	108	3.3	108	86	1	490	28	17	20	32	1.96
4051930--4052283	162	2.2	162	86	0	501	28	17	20	32	1.96
4051930--4052283	54	6.6	54	86	1	431	28	17	20	32	1.96
4055110--4055159	24	2.1	24	85	7	66	26	2	12	60	1.43
4055634--4055668	18	2.0	17	88	5	52	14	8	0	77	0.99
4065166--4065215	24	2.1	24	85	7	66	26	2	12	60	1.43
4065691--4065724	17	2.1	16	88	5	50	14	8	0	76	1.01
4069805--4069981	54	3.3	53	88	3	264	25	18	21	33	1.96
4077163--4077223	31	2.0	31	96	0	113	29	9	13	47	1.74
4077581--4077625	23	2.0	23	90	0	72	33	15	2	48	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4077582--4077631	23	2.2	23	85	0	64	38	14	2	46	1.56
4082781--4082827	14	3.7	14	71	26	50	44	0	4	51	1.21
4082780--4082829	23	2.1	24	96	3	93	48	0	4	48	1.20
4083521--4083563	14	3.1	14	100	0	86	20	20	6	51	1.71
4085101--4085298	97	2.0	98	86	3	272	40	10	24	24	1.87
4085313--4085439	28	4.4	29	82	8	136	49	0	1	48	1.10
4085366--4085428	6	11.3	6	73	26	59	47	0	0	52	1.00
4085297--4085436	21	6.4	21	74	19	94	50	0	1	48	1.09
4085443--4085627	31	5.8	30	75	20	153	50	3	4	41	1.40
4085409--4085621	65	3.3	63	76	15	193	48	2	4	43	1.38
4085450--4085496	24	1.9	25	82	4	60	55	4	2	38	1.31
4085508--4085598	43	2.2	40	86	7	119	47	3	5	43	1.42
4085528--4085620	29	3.0	29	70	19	78	48	3	5	43	1.42
4085610--4085712	22	4.8	22	75	11	88	48	8	5	36	1.58
4085637--4085729	21	4.4	20	73	14	80	48	7	6	37	1.57
4085766--4085806	15	2.6	16	88	7	57	41	2	9	46	1.50
4085779--4085817	20	2.0	19	90	5	60	41	2	7	48	1.45
4085904--4085947	21	2.2	20	87	4	61	20	0	20	59	1.39
4085910--4085978	35	2.0	35	91	0	111	23	0	18	57	1.40
4085911--4085978	21	3.6	21	68	25	69	23	0	19	57	1.41
4086367--4086504	2	72.0	2	73	18	107	45	4	1	48	1.31
4086717--4086767	17	2.8	18	85	8	59	27	29	0	43	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4086722--4086777	27	2.1	27	83	6	69	30	26	0	42	1.56
4086861--4087017	12	12.5	13	71	17	68	45	3	4	47	1.39
4086917--4086971	18	3.1	18	87	7	69	47	1	5	45	1.36
4086943--4087018	2	38.5	2	79	7	84	47	0	2	50	1.15
4090109--4090173	30	2.1	31	85	2	87	47	1	4	46	1.32
4090210--4090248	18	2.2	18	90	0	60	35	2	0	61	1.10
4105521--4105591	30	2.4	30	85	0	97	39	15	14	30	1.87
4106718--4106774	16	3.7	15	78	15	55	29	1	3	64	1.20
4106729--4106775	16	2.9	16	83	3	58	29	2	4	63	1.25
4109040--4109124	35	2.5	33	76	14	82	28	7	9	55	1.58

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