genome.fa.s7957.2.7.7.80.10.50.1000.19.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: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8646418

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   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   

This is table  19  of  43  ( 5063 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)
3722726--3722760	3	11.7	3	100	0	70	65	0	0	34	0.93
3726162--3726201	14	2.9	15	78	14	50	30	25	0	45	1.54
3726364--3726405	16	2.6	16	100	0	84	38	21	4	35	1.75
3728952--3729560	255	2.4	249	87	8	888	26	12	20	40	1.89
3729913--3729953	17	2.3	18	91	4	66	26	31	9	31	1.89
3731245--3731277	14	2.4	14	90	5	50	33	21	0	45	1.52
3731574--3731598	2	12.5	2	100	0	50	48	0	0	52	1.00
3751326--3751360	5	7.0	5	100	0	70	80	0	20	0	0.72
3752736--3752828	21	4.5	21	78	4	100	39	18	24	17	1.91
3752736--3752828	41	2.3	41	100	0	186	39	18	24	17	1.91
3752755--3752889	41	3.3	41	84	4	148	38	20	20	20	1.94
3752817--3752910	20	4.7	20	80	2	89	34	24	17	24	1.96
3753484--3753666	19	10.1	19	75	16	156	12	22	22	43	1.86
3753484--3753666	33	5.1	37	79	11	175	12	22	22	43	1.86
3753609--3753666	20	2.9	20	80	10	64	13	24	18	43	1.87
3755669--3755789	42	2.9	42	79	4	111	23	34	18	23	1.96
3757147--3757182	14	2.6	14	95	0	63	30	0	25	44	1.54
3757365--3757489	33	3.9	32	79	12	157	16	23	18	41	1.90
3757358--3757486	64	2.0	66	92	3	217	17	23	17	41	1.90
3759765--3759789	12	2.1	12	100	0	50	0	28	0	72	0.86
3759961--3760014	24	2.2	24	90	0	81	38	20	16	24	1.92
3761006--3761063	20	2.9	20	89	5	82	39	20	22	17	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3763083--3763199	20	6.4	19	74	13	75	42	24	18	13	1.87
3763102--3763168	19	3.5	19	81	4	80	38	23	22	14	1.92
3763157--3763214	14	3.9	14	79	16	71	48	25	17	8	1.75
3763141--3763220	32	2.5	33	95	2	144	46	23	18	11	1.81
3763221--3763318	20	5.3	19	74	15	71	13	20	23	42	1.87
3763790--3763834	18	2.5	18	92	0	81	13	13	44	28	1.81
3765438--3765481	22	2.0	22	95	0	79	18	15	45	20	1.85
3765669--3765721	20	2.7	20	93	0	88	24	18	28	28	1.98
3765669--3765763	20	4.7	20	78	2	82	24	17	23	34	1.96
3765752--3765844	20	4.5	21	78	4	100	17	24	18	39	1.91
3765752--3765844	41	2.3	41	100	0	150	17	24	18	39	1.91
3767545--3767597	2	26.5	2	96	0	97	0	47	0	52	1.00
3771481--3771546	34	1.9	34	96	0	123	24	25	28	21	1.99
3777274--3777345	20	3.6	20	94	3	119	33	23	19	23	1.97
3778823--3778853	16	1.9	16	93	0	53	32	3	0	64	1.09
3784805--3784829	4	6.2	4	100	0	50	24	0	0	76	0.80
3795313--3795409	47	2.0	48	88	2	142	32	10	10	46	1.72
3798999--3799037	19	2.1	19	90	0	60	28	2	17	51	1.59
3800560--3800938	112	3.4	111	75	6	334	39	16	11	31	1.85
3806373--3806425	20	2.7	19	91	2	79	13	1	56	28	1.47
3809955--3810046	45	2.0	45	95	0	166	29	22	6	41	1.79
3809972--3810045	25	3.2	25	62	31	63	29	22	8	39	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3809970--3810062	45	2.2	42	86	9	127	27	23	8	39	1.84
3814473--3814537	26	2.5	26	80	12	71	76	3	3	16	1.03
3814552--3814903	36	9.8	37	77	12	278	42	6	5	45	1.53
3814560--3814903	74	4.8	69	75	16	251	41	6	5	45	1.53
3815583--3816566	84	11.9	83	75	6	759	26	19	23	30	1.98
3815584--3816566	249	4.0	248	81	5	1052	26	19	23	30	1.98
3815583--3816566	165	5.9	163	80	6	887	26	19	23	30	1.98
3815707--3816469	414	1.8	414	91	0	1247	26	19	23	30	1.98
3822111--3823113	511	2.0	512	97	0	1882	29	26	15	27	1.96
3823713--3823777	26	2.5	26	82	12	71	75	3	4	16	1.10
3826189--3826222	16	2.1	16	94	0	59	32	8	26	32	1.87
3834291--3834362	20	3.6	20	74	7	74	29	23	20	26	1.99
3835131--3835169	20	2.0	20	94	0	69	28	23	28	20	1.99
3835145--3835287	59	2.4	59	96	0	259	30	20	19	28	1.97
3835194--3835278	20	4.3	20	68	14	59	36	20	16	27	1.93
3835313--3835368	19	2.9	19	97	0	103	21	16	30	32	1.95
3835606--3836594	505	2.0	490	93	3	1665	38	11	12	37	1.79
3844023--3844061	10	3.9	10	96	0	69	20	35	0	43	1.52
3844019--3844068	10	5.0	10	90	0	64	26	34	0	40	1.56
3844019--3844068	20	2.5	20	86	0	73	26	34	0	40	1.56
3844114--3844165	9	6.1	9	76	13	56	32	1	1	63	1.16
3844113--3844162	17	3.0	17	91	2	75	34	2	4	60	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3844122--3844167	16	2.9	16	87	6	58	30	2	2	65	1.16
3851646--3851688	19	2.2	20	87	4	61	30	0	27	41	1.56
3852108--3852147	21	2.1	19	86	13	55	35	0	7	57	1.27
3852261--3852362	48	2.1	49	94	1	179	28	15	8	47	1.76
3852802--3852852	23	2.3	23	93	3	86	52	7	11	27	1.65
3861559--3862092	46	11.6	46	90	0	807	21	20	13	43	1.87
3862490--3862675	94	2.0	95	79	10	202	24	23	12	39	1.90
3864805--3864858	13	4.4	13	77	13	69	18	48	20	12	1.81
3864807--3864850	23	1.9	23	95	0	79	18	50	20	11	1.77
3866250--3866284	18	1.9	18	88	0	52	54	0	17	28	1.43
3874294--3874350	25	2.3	25	87	0	78	47	12	5	35	1.64
3874423--3874480	25	2.2	24	77	14	62	48	3	8	39	1.51
3874675--3874700	2	13.0	2	100	0	52	50	0	0	50	1.00
3874719--3874778	23	2.6	23	79	10	59	40	0	0	60	0.97
3876094--3876130	19	2.1	18	90	10	58	45	5	10	37	1.62
3876240--3876271	14	2.3	15	89	10	50	34	3	6	56	1.40
3878079--3878124	20	2.3	21	88	7	69	65	15	0	19	1.28
3878547--3878600	23	2.5	22	78	6	65	33	16	20	29	1.95
3885073--3885098	12	2.2	12	100	0	52	84	0	0	15	0.62
3887406--3887478	2	36.5	2	100	0	146	50	0	0	49	1.00
3890181--3890294	59	1.9	59	96	0	210	32	14	8	43	1.77
3891152--3891500	43	8.1	42	78	6	304	25	20	19	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3891167--3891425	131	2.0	133	81	3	310	26	21	18	33	1.96
3891983--3892021	20	2.0	20	89	0	60	61	2	0	35	1.10
3891963--3892019	29	1.9	30	82	10	73	63	1	1	33	1.15
3891984--3892038	20	2.8	20	80	5	58	63	3	1	30	1.22
3897662--3897874	86	2.5	86	89	0	318	24	21	21	32	1.98
3897662--3897936	86	3.2	85	85	3	259	25	20	21	32	1.97
3898087--3899696	106	15.3	106	93	2	2680	21	18	25	34	1.96
3907571--3907656	27	3.5	24	80	13	95	30	17	16	36	1.92
3908663--3908750	43	2.0	45	86	6	126	26	10	11	52	1.69
3915488--3915663	82	2.1	84	84	6	225	33	18	21	26	1.96
3915488--3915663	42	4.2	40	73	16	128	33	18	21	26	1.96
3915631--3915782	41	3.7	39	75	7	126	32	16	17	33	1.92
3915515--3915684	82	2.0	82	80	8	184	34	18	18	28	1.95
3916787--3916868	42	2.0	42	87	4	121	29	14	20	35	1.93
3925113--3925179	21	3.2	21	76	4	64	41	13	38	5	1.69
3925543--3925676	43	3.1	43	80	6	112	34	25	14	25	1.94
3944416--3944481	2	33.0	2	100	0	132	50	0	0	50	1.00
3946347--3947733	692	2.0	691	97	0	2621	34	16	18	30	1.93
3961066--3961116	13	3.9	13	94	0	84	50	13	0	35	1.42
3961137--3961185	16	3.0	16	74	14	55	57	24	0	18	1.41
3961691--3961753	27	2.4	27	91	2	101	44	15	15	23	1.86
3973087--3973132	21	2.2	20	84	3	56	13	15	26	45	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3977853--3977888	18	2.0	18	100	0	72	38	5	5	50	1.49
3978911--3979055	41	3.6	40	69	15	100	37	16	11	34	1.85
3978843--3979139	83	3.6	83	80	5	325	36	17	12	33	1.88
3988709--3988874	85	2.0	85	82	7	203	30	15	20	33	1.94
3988846--3988884	13	3.0	13	88	0	60	33	17	23	25	1.96
3989868--3989914	16	2.9	16	90	0	76	55	17	0	27	1.42
3990683--3990722	18	2.2	18	90	0	62	22	47	20	10	1.79
3990723--3990906	29	6.2	29	81	4	188	33	2	18	46	1.61
3993788--3993857	33	2.1	33	97	0	131	22	15	17	44	1.86
3994821--3994854	18	1.9	17	88	5	50	23	0	26	50	1.50

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   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43