genome.fa.s8488.2.7.7.80.10.50.1000.16.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: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12876159

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   44   45   46   47   48   
          49   50   51   52   53   54   

This is table  16  of  54  ( 6450 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)
3805512--3805811	54	5.6	54	87	2	388	36	20	16	26	1.93
3816809--3816853	21	2.1	21	91	0	72	20	15	24	40	1.91
3818671--3818720	24	2.1	24	100	0	100	50	12	16	22	1.77
3820792--3820931	21	6.4	21	72	5	73	19	16	25	39	1.92
3820841--3820890	23	2.2	23	81	0	55	18	14	30	38	1.89
3823051--3823080	15	2.0	15	100	0	60	26	20	13	40	1.89
3827301--3827342	21	2.0	21	90	0	66	30	21	19	28	1.97
3840927--3841364	46	9.5	46	90	0	642	23	20	11	43	1.85
3840966--3841035	23	3.0	23	62	22	56	24	22	11	41	1.87
3841347--3841535	81	2.3	81	92	0	306	30	20	11	37	1.88
3846315--3846518	55	3.7	55	86	3	261	33	11	17	36	1.86
3846813--3846882	23	2.9	25	70	24	69	50	10	20	20	1.76
3851863--3852127	55	4.8	55	90	1	363	34	10	17	36	1.85
3852415--3852537	44	2.7	45	78	6	142	48	8	19	23	1.75
3853863--3853974	36	3.1	36	86	1	143	26	20	13	39	1.90
3853923--3854105	65	2.7	67	83	5	219	32	20	7	38	1.81
3854673--3854750	32	2.4	32	89	4	122	28	33	19	19	1.96
3854854--3855062	110	1.9	110	85	2	285	35	21	18	24	1.95
3856500--3856550	2	26.0	2	86	11	70	45	3	0	50	1.20
3856483--3856549	16	4.2	15	78	17	64	40	2	0	56	1.14
3856500--3856550	27	2.0	27	85	11	72	45	3	0	50	1.20
3869242--3869289	2	24.0	2	100	0	96	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3871195--3871224	15	2.0	15	100	0	60	20	13	26	40	1.89
3881596--3881623	13	2.2	13	100	0	56	32	39	0	28	1.57
3884278--3884634	41	8.6	41	72	7	258	28	19	18	33	1.95
3884278--3884615	82	4.1	83	76	11	336	28	19	18	33	1.95
3887646--3887863	42	5.1	42	78	8	217	24	26	18	30	1.98
3887647--3887868	85	2.6	84	80	7	241	24	26	17	31	1.97
3920531--3920564	18	1.9	18	88	5	52	35	5	5	52	1.50
3920911--3921009	44	2.2	44	87	0	135	29	20	19	31	1.97
3921047--3921092	22	2.0	23	87	4	67	30	26	21	21	1.99
3932654--3932822	76	2.2	76	86	4	236	31	1	10	56	1.40
3932680--3932833	75	2.0	76	87	3	222	29	1	9	59	1.37
3944915--3945069	83	2.0	80	81	10	185	28	3	9	58	1.45
3944939--3945096	81	2.0	81	83	5	203	27	2	10	59	1.43
3945733--3945773	21	1.9	22	90	5	66	19	4	0	75	0.98
3948243--3948297	23	2.4	22	80	14	58	36	1	5	56	1.33
3950875--3950953	21	3.7	21	75	8	70	31	15	16	36	1.90
3954329--3954392	30	2.1	30	94	0	110	35	26	20	17	1.94
3959734--3959776	20	2.3	18	84	11	52	32	11	4	51	1.59
3965668--3965793	65	1.9	65	82	6	157	26	22	22	29	1.99
3968301--3968374	22	3.5	22	90	3	107	20	18	24	36	1.95
3970995--3971137	65	2.2	64	81	6	155	27	24	19	27	1.99
3985107--3985171	2	33.0	2	93	3	114	50	0	1	47	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3985471--3985496	13	2.0	13	100	0	52	23	15	0	61	1.33
3986569--3986820	129	1.9	131	98	1	490	27	10	20	41	1.84
3988831--3988871	14	2.9	14	88	3	55	31	7	9	51	1.62
3990634--3990680	22	2.1	22	92	0	76	21	8	12	57	1.62
3992706--3992841	74	1.9	72	89	3	209	28	1	13	56	1.46
3993448--3993501	22	2.4	22	87	3	63	22	1	1	74	1.02
3999083--3999140	30	1.9	30	82	0	71	62	10	12	15	1.55
4000176--4000235	31	1.9	32	83	10	79	50	3	6	40	1.45
4000395--4000490	41	2.3	41	90	0	147	15	42	20	20	1.89
4001105--4001143	15	2.6	15	95	0	69	30	5	17	46	1.70
4005796--4005840	18	2.5	18	88	0	63	44	15	6	33	1.73
4007977--4008415	221	2.0	222	99	0	871	23	19	15	40	1.91
4013483--4013524	21	2.0	21	86	9	59	42	19	16	21	1.89
4022849--4022891	15	2.8	16	80	16	54	39	2	13	44	1.57
4026424--4026457	16	2.1	16	100	0	68	23	26	29	20	1.99
4030325--4030479	77	2.0	79	84	2	206	45	5	9	38	1.61
4030954--4030984	14	2.2	14	100	0	62	22	12	0	64	1.27
4032528--4032576	7	7.3	7	86	11	59	28	0	0	71	0.86
4032539--4032576	20	1.9	20	89	10	60	26	0	0	73	0.83
4032528--4032595	34	2.0	34	85	8	93	30	0	1	67	0.99
4032544--4032598	18	3.1	17	74	7	56	34	0	1	63	1.05
4033091--4033138	21	2.4	21	86	6	64	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4033061--4033158	49	2.0	50	82	9	121	56	0	4	39	1.19
4033109--4033160	27	1.9	27	88	7	79	57	0	1	40	1.10
4033093--4033170	25	3.0	25	77	17	79	56	0	2	41	1.13
4034063--4034103	17	2.4	17	83	0	55	39	36	2	21	1.67
4036056--4036096	3	13.7	3	84	0	55	29	0	39	31	1.57
4041761--4041826	30	2.2	30	94	0	114	21	19	24	34	1.96
4042892--4042936	4	11.0	4	85	4	54	24	6	26	42	1.79
4042892--4042930	12	3.2	12	88	0	60	25	7	25	41	1.82
4043371--4043459	39	2.2	40	84	2	108	57	22	7	12	1.61
4044662--4044702	22	1.9	22	85	14	59	14	24	53	7	1.66
4045514--4045556	4	10.2	4	80	9	50	69	4	0	25	1.07
4046405--4046430	13	2.0	13	100	0	52	46	30	7	15	1.74
4050312--4050344	16	2.0	17	94	5	59	36	0	18	45	1.49
4050394--4050465	14	5.5	14	76	18	50	45	4	9	40	1.56
4050561--4050600	17	2.5	15	88	8	53	45	0	2	52	1.14
4053363--4053442	11	6.9	12	73	8	76	2	33	0	63	1.08
4053379--4053421	12	3.7	12	75	6	52	2	32	0	65	1.06
4053381--4053442	23	2.7	23	97	0	115	3	35	0	61	1.12
4053749--4053834	30	2.9	29	81	10	104	11	26	38	23	1.89
4055685--4055797	37	3.2	36	75	7	115	45	2	6	46	1.42
4061840--4061866	14	1.9	14	100	0	54	44	0	7	48	1.31
4061812--4061982	37	4.6	38	75	5	152	40	3	8	47	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4061885--4061944	17	3.4	17	68	20	50	40	1	5	53	1.33
4069985--4070222	106	2.2	108	81	8	267	36	15	5	41	1.72
4072396--4072453	21	2.8	21	94	2	100	44	8	17	29	1.78
4073923--4074009	26	3.5	26	77	15	94	49	4	14	31	1.64
4074648--4074704	2	28.0	2	89	3	87	49	5	0	45	1.24
4075440--4075501	22	2.7	23	73	11	65	50	6	0	43	1.28
4076852--4076970	3	38.7	3	70	25	65	58	1	1	37	1.18
4086004--4086101	3	31.7	3	71	22	53	57	1	1	40	1.12
4086004--4086104	12	7.8	13	74	19	79	57	0	0	40	1.12
4085999--4086103	15	7.2	15	78	14	103	56	0	1	40	1.17
4088856--4088995	73	1.9	73	95	0	253	26	2	12	59	1.44
4107829--4107967	72	1.9	73	95	1	253	27	3	12	56	1.52
4107853--4108005	72	2.1	72	81	4	175	27	3	13	55	1.55
4108724--4108758	4	8.5	4	87	6	52	22	0	2	74	0.95
4119406--4119460	5	10.6	5	77	14	58	80	1	1	16	0.90
4119404--4119460	16	3.1	18	79	20	73	80	1	1	15	0.87
4121391--4121598	65	3.2	63	78	9	224	30	23	16	28	1.96
4129404--4129462	28	2.1	28	84	9	75	18	5	20	55	1.61
4130111--4130318	65	3.2	63	80	12	235	29	24	18	27	1.98
4130152--4130338	65	2.9	64	77	18	210	28	23	17	30	1.97
4146185--4146272	18	5.1	17	75	14	81	31	13	13	40	1.84
4148016--4148057	20	2.0	21	86	4	59	42	21	0	35	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4151349--4151659	46	6.7	46	91	1	480	21	23	12	42	1.87
4151636--4151685	25	2.0	25	100	0	100	16	28	16	40	1.89
4151590--4151728	71	2.0	71	95	0	251	20	24	14	41	1.89
4151544--4151776	117	2.0	117	93	0	394	21	23	13	41	1.88
4151661--4151776	46	2.5	46	92	0	196	21	22	13	42	1.88
4151778--4152178	81	5.0	81	85	2	511	30	20	12	35	1.90
4151778--4152178	161	2.5	161	86	3	527	30	20	12	35	1.90
4152710--4152761	21	2.5	21	100	0	104	30	21	15	32	1.94
4157126--4157420	46	6.4	46	88	1	412	24	21	12	42	1.87
4157418--4157831	81	5.0	81	82	8	483	29	20	12	36	1.90

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   44   45   46   47   48   
          49   50   51   52   53   54