genome.fa.s8523.2.7.7.80.10.50.1000.14.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: VEPZ01008523.1 Hibiscus syriacus cultivar Beakdansim tig00111392_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4657139

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

This is table  14  of  18  ( 2060 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)
3514281--3514340	4	15.0	4	81	13	70	25	3	21	50	1.64
3523484--3523774	149	2.0	145	92	2	483	36	14	22	26	1.92
3523901--3523935	3	11.7	3	100	0	70	65	0	0	34	0.93
3532276--3532322	21	2.2	21	100	0	94	19	29	4	46	1.68
3534871--3534918	16	2.9	16	87	9	62	64	0	4	31	1.12
3541346--3541401	27	2.0	27	86	3	76	53	14	3	28	1.57
3541583--3541646	23	2.8	23	92	2	103	28	21	14	35	1.92
3547284--3547326	16	2.7	16	81	0	59	30	4	30	34	1.78
3547299--3547378	21	3.8	20	79	11	79	31	3	30	35	1.75
3547600--3547637	20	1.9	20	84	10	51	73	10	2	13	1.19
3551691--3551747	25	2.3	24	80	14	62	38	5	17	38	1.72
3555065--3555112	15	3.0	15	80	20	53	45	4	0	50	1.21
3562776--3562817	21	2.0	21	85	4	57	52	2	9	35	1.47
3564132--3564192	19	3.0	20	73	17	54	67	3	3	26	1.22
3565373--3565483	57	1.9	57	92	0	186	45	7	8	39	1.61
3565439--3565528	45	2.0	45	95	0	144	42	6	11	40	1.67
3565645--3565725	42	1.9	43	97	2	155	50	13	14	20	1.77
3573099--3573150	21	2.5	21	81	3	61	38	19	25	17	1.93
3573139--3573232	20	4.7	20	77	7	91	34	23	18	24	1.96
3573792--3573831	19	2.1	19	90	0	62	55	25	15	5	1.60
3573832--3573898	20	3.4	20	93	2	118	10	17	23	47	1.79
3573881--3573968	33	2.6	33	92	1	140	11	25	25	38	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3573936--3573993	20	2.9	20	77	10	55	13	22	18	44	1.85
3575568--3575610	20	2.2	20	95	0	77	53	18	18	9	1.70
3575888--3575931	22	2.0	22	86	8	63	18	11	45	25	1.82
3576119--3576232	20	5.7	20	82	2	120	24	18	25	31	1.97
3576099--3576234	41	3.3	41	78	2	148	24	17	24	33	1.96
3576222--3576314	41	2.3	41	98	0	141	17	23	19	39	1.92
3576222--3576297	21	3.7	21	76	3	91	15	23	19	40	1.90
3576248--3576314	20	3.3	20	79	4	89	17	22	17	41	1.90
3579023--3579063	2	20.5	2	100	0	82	51	0	0	48	1.00
3582406--3582460	2	27.5	2	100	0	110	50	0	0	49	1.00
3584666--3584705	18	2.2	18	86	8	55	42	2	0	55	1.13
3585081--3585150	27	2.6	25	76	13	68	52	5	0	41	1.25
3601004--3601490	257	1.9	252	83	7	635	26	11	19	41	1.86
3602908--3602982	30	2.5	30	86	0	105	18	24	28	29	1.98
3602942--3603008	30	2.2	29	81	5	71	23	20	25	29	1.99
3603002--3603077	30	2.5	30	82	4	91	21	21	32	25	1.97
3603063--3603167	30	3.5	30	93	0	174	26	15	32	25	1.95
3606192--3606269	36	2.2	36	100	0	156	21	25	14	38	1.91
3612954--3613033	15	5.1	15	70	15	54	28	2	2	66	1.18
3612964--3613038	24	3.1	25	77	11	75	30	2	2	64	1.21
3614245--3614278	16	2.1	16	88	0	50	64	0	0	35	0.94
3617523--3617570	25	2.0	26	84	12	66	50	4	2	43	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3619117--3619180	15	4.3	15	76	11	60	46	6	9	37	1.61
3619109--3619197	45	2.0	44	84	6	117	50	6	10	32	1.62
3619132--3619196	15	4.4	15	76	3	69	47	7	10	33	1.67
3619520--3619582	23	2.7	23	82	5	72	47	1	1	49	1.20
3619560--3619615	20	2.8	20	75	17	53	50	1	0	48	1.11
3619922--3620036	40	2.8	41	85	3	162	51	16	13	18	1.77
3621850--3621905	27	2.1	27	100	0	112	41	33	3	21	1.70
3623929--3623971	22	1.9	23	86	13	63	48	4	0	46	1.22
3624156--3624235	39	1.9	41	83	16	103	53	2	0	43	1.14
3624172--3624322	32	4.5	32	69	19	87	54	2	0	43	1.14
3624250--3624282	3	11.0	3	100	0	66	66	0	0	33	0.92
3626694--3626737	18	2.6	16	82	10	52	50	6	0	43	1.29
3628009--3628041	13	2.3	15	90	10	52	63	3	0	33	1.10
3634331--3634368	2	19.0	2	100	0	76	50	0	0	50	1.00
3635013--3635105	21	4.6	20	78	4	96	38	18	24	18	1.92
3635010--3635105	41	2.3	41	98	0	183	39	17	23	18	1.92
3635013--3635105	20	4.6	20	78	4	96	38	18	24	18	1.92
3635091--3635168	41	1.9	41	83	0	102	39	21	15	23	1.91
3635136--3635187	20	2.6	20	93	0	86	26	28	19	25	1.98
3635709--3635775	19	3.5	19	83	2	80	49	23	16	10	1.77
3635771--3635935	19	9.1	19	73	15	134	13	24	19	43	1.87
3635776--3635910	33	3.9	33	87	5	144	12	24	20	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3635889--3635935	20	2.3	20	75	13	51	14	25	12	46	1.80
3637932--3638054	42	2.9	42	79	7	115	23	35	17	22	1.95
3637988--3638054	21	3.2	21	66	6	55	23	35	20	19	1.95
3639408--3639443	14	2.6	14	95	0	63	30	0	25	44	1.54
3639550--3639603	20	2.8	19	91	5	90	46	20	20	12	1.83
3639608--3639725	19	6.7	19	66	19	76	13	23	20	42	1.88
3639612--3639705	33	2.8	33	98	0	179	12	24	19	43	1.85
3641997--3642021	12	2.1	12	100	0	50	0	28	0	72	0.86
3643900--3643956	20	2.8	20	94	0	96	38	17	22	21	1.93
3643975--3644038	19	3.6	19	86	14	93	14	21	18	45	1.85
3644159--3644195	14	2.6	14	86	0	56	48	21	0	29	1.50
3646063--3646129	19	3.5	19	83	4	89	37	23	23	14	1.93
3646118--3646206	14	5.9	14	75	20	81	47	25	17	8	1.77
3646102--3646211	32	3.4	32	96	2	195	46	24	19	10	1.80
3646113--3646199	18	5.2	18	69	30	77	49	22	17	10	1.77
3646218--3646313	19	5.6	17	72	21	78	11	19	22	45	1.82
3646240--3646297	14	3.9	14	79	16	71	8	17	25	48	1.75
3646223--3646313	32	2.8	33	94	3	166	10	18	23	47	1.80
3646298--3646352	20	2.8	19	83	8	65	16	23	23	36	1.94
3646825--3646869	18	2.5	18	88	0	72	17	15	40	26	1.90
3648187--3648224	20	1.9	20	88	0	58	50	21	15	13	1.78
3648488--3648531	22	2.0	22	95	0	79	18	15	45	20	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3648719--3648812	20	4.7	20	80	2	89	23	18	24	34	1.96
3648739--3648874	41	3.3	42	78	5	118	20	20	20	38	1.94
3648699--3648813	20	5.7	20	78	5	88	23	17	23	35	1.95
3648802--3648894	21	4.6	20	79	4	105	18	23	18	39	1.92
3648802--3648897	41	2.3	41	96	0	174	18	22	17	40	1.91
3649264--3649296	13	2.3	15	90	10	52	63	3	0	33	1.10
3660985--3661067	20	4.2	20	88	0	121	39	20	19	20	1.92
3661613--3661718	20	5.3	20	96	0	194	45	24	18	11	1.82
3674887--3674922	3	11.7	3	88	5	54	36	0	2	61	1.11
3680161--3680229	24	2.9	24	73	0	66	43	17	11	27	1.83
3680927--3681000	29	2.5	28	83	12	87	40	24	5	29	1.77
3681031--3681060	13	2.3	13	100	0	60	13	23	46	16	1.82
3687096--3687165	24	2.9	24	80	0	86	44	17	11	27	1.82
3687857--3687930	29	2.5	28	83	12	87	40	24	5	29	1.77
3688995--3689062	29	2.3	29	82	0	82	41	25	4	29	1.75
3689092--3689121	13	2.3	13	100	0	60	13	23	46	16	1.82
3689132--3689170	11	3.8	11	80	19	57	35	25	20	17	1.95
3689132--3689170	19	2.0	20	95	5	71	35	25	20	17	1.95
3690211--3690254	7	6.3	7	86	0	61	47	34	0	18	1.49
3690475--3690512	7	5.4	7	87	0	58	47	36	2	13	1.56
3690223--3690543	167	1.9	167	90	5	509	39	22	9	27	1.86
3692586--3692612	11	2.5	11	100	0	54	25	25	22	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3698510--3698535	12	2.2	12	100	0	52	46	7	30	15	1.74
3703790--3703866	31	2.5	31	78	2	82	28	31	25	14	1.95
3703743--3703866	63	2.0	63	82	3	151	26	29	27	16	1.97
3704736--3704772	7	5.3	7	93	0	65	27	24	29	18	1.98
3704763--3704820	17	3.3	17	79	9	62	12	22	44	20	1.84
3704823--3704906	20	4.3	19	92	3	96	28	26	23	21	1.99
3704823--3704906	9	8.6	10	71	15	68	28	26	23	21	1.99
3704835--3704907	20	3.7	20	92	1	112	30	23	23	23	1.99
3711155--3711231	31	2.5	31	80	2	91	27	31	27	14	1.95
3711108--3711231	63	2.0	63	82	6	153	25	29	28	16	1.97

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