genome.fa.s2890.2.7.7.80.10.50.1000.12.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: VEPZ01002890.1 Hibiscus syriacus cultivar Beakdansim tig00005974_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5046466

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  12  of  21  ( 2516 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)
2838289--2838334	23	2.0	23	95	0	83	39	6	8	45	1.61
2838362--2838401	17	2.5	15	88	8	53	45	0	2	52	1.14
2839690--2839728	19	2.1	19	85	0	51	56	2	5	35	1.35
2840898--2840930	11	3.0	11	100	0	66	72	0	27	0	0.85
2842447--2842565	60	2.0	60	88	0	175	32	18	23	25	1.97
2843407--2843452	23	2.0	23	91	0	74	50	10	2	36	1.50
2848299--2848352	15	3.7	15	85	9	76	62	0	35	1	1.06
2848299--2848361	15	4.6	13	84	11	58	61	0	36	1	1.05
2848300--2848363	14	4.7	13	81	16	60	60	0	37	1	1.06
2848375--2848415	21	2.0	21	95	0	73	26	0	17	56	1.41
2848393--2848501	50	2.3	47	84	7	141	34	1	10	53	1.45
2848886--2848911	4	6.5	4	100	0	52	23	0	23	53	1.46
2849993--2850058	27	2.4	27	85	10	98	37	16	28	16	1.91
2850197--2850312	60	1.9	60	91	0	187	32	20	23	23	1.98
2850789--2850921	65	2.1	64	83	7	162	29	21	15	33	1.94
2856632--2856736	44	2.4	44	88	0	156	29	20	20	29	1.98
2858529--2858569	21	2.0	21	85	0	55	34	14	21	29	1.93
2858696--2858737	14	2.9	15	78	7	59	23	0	19	57	1.41
2859370--2859522	65	2.4	65	81	7	170	30	20	16	32	1.95
2860661--2860699	17	2.5	15	87	8	51	53	2	0	43	1.14
2860722--2860771	23	2.1	24	88	3	75	56	6	4	34	1.43
2860751--2860789	16	2.4	16	91	8	62	46	7	0	46	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2861034--2861076	16	2.6	18	78	17	56	67	0	2	30	1.03
2861034--2861075	11	3.8	11	84	9	59	69	0	2	28	1.01
2865395--2865463	29	2.3	31	75	5	70	23	27	27	21	1.99
2865665--2865716	20	2.7	20	87	3	79	65	1	30	1	1.14
2865754--2865796	21	2.0	21	95	0	77	25	0	16	58	1.38
2865740--2865768	8	3.6	8	100	0	58	13	0	24	62	1.32
2865999--2866115	60	2.0	60	89	0	180	22	26	17	33	1.96
2867933--2868031	50	2.1	50	86	7	143	50	8	1	40	1.39
2868101--2868170	11	6.6	11	81	14	85	0	35	0	64	0.94
2868101--2868170	31	2.2	32	94	2	124	0	35	0	64	0.94
2868653--2868720	28	2.4	28	95	0	118	33	23	5	36	1.79
2871588--2871648	31	1.9	32	86	3	88	36	6	4	52	1.49
2874790--2874867	31	2.5	31	100	0	156	19	8	16	55	1.67
2876201--2876278	31	2.5	32	81	8	90	55	11	10	23	1.66
2879331--2879392	30	2.0	30	82	14	74	46	4	12	35	1.64
2883187--2883255	23	3.0	23	78	2	75	30	14	13	42	1.84
2883252--2883356	11	9.4	11	72	4	68	15	8	21	54	1.68
2883251--2883300	22	2.2	23	96	3	93	14	4	22	60	1.51
2883234--2883349	57	2.1	56	86	1	160	18	9	19	52	1.72
2884394--2884449	26	2.2	26	87	3	78	44	10	12	32	1.77
2885538--2885594	30	1.9	29	89	3	87	45	10	12	31	1.76
2885871--2885913	19	2.3	19	84	8	52	53	2	0	44	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2885842--2885916	30	2.6	29	80	14	84	48	2	0	49	1.15
2886462--2886521	27	2.2	27	80	11	70	40	0	3	56	1.16
2888824--2888866	21	2.0	21	100	0	86	23	41	4	30	1.74
2892667--2893205	110	4.9	110	91	1	832	29	24	14	31	1.94
2892615--2893205	165	3.6	165	89	2	841	29	24	14	31	1.95
2892593--2893430	55	15.1	56	89	3	520	28	23	15	32	1.95
2894783--2894841	10	5.9	11	79	20	60	13	10	0	76	1.02
2894795--2894854	27	2.1	29	88	11	90	11	13	0	75	1.06
2894773--2894852	31	2.5	30	79	18	83	10	13	0	76	1.02
2904776--2904807	16	2.0	16	93	0	55	34	31	9	25	1.87
2907964--2908005	17	2.5	17	88	0	57	16	21	47	14	1.82
2908325--2908355	15	2.1	15	93	0	53	41	0	3	54	1.16
2932634--2932715	21	3.9	21	78	7	76	25	36	23	14	1.93
2934945--2934991	11	4.0	11	84	15	67	21	0	25	53	1.46
2934945--2934996	25	2.1	25	100	0	104	26	0	23	50	1.50
2939758--2939798	17	2.3	18	87	4	57	39	0	12	48	1.41
2939843--2939868	12	2.2	12	100	0	52	57	0	0	42	0.98
2956229--2956818	54	10.9	54	85	2	243	35	17	14	31	1.91
2956312--2956836	54	9.7	53	88	2	683	37	17	13	32	1.88
2959245--2959593	172	2.0	175	98	1	677	33	20	11	34	1.88
2961584--2961836	54	4.7	54	78	3	197	33	16	16	33	1.91
2961655--2962160	54	9.4	54	80	6	230	37	16	13	32	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2961759--2962181	54	7.8	54	88	3	611	38	17	12	31	1.86
2964262--2964299	17	2.2	17	100	0	76	23	0	18	57	1.40
2968180--2968414	29	8.1	29	97	0	425	17	25	10	45	1.80
2969090--2969198	53	2.1	51	83	8	132	41	12	21	24	1.88
2975242--2975274	15	2.1	17	88	11	52	54	3	0	42	1.15
2975278--2975339	29	2.1	30	84	3	81	37	17	4	40	1.71
2977854--2977939	44	2.0	44	85	0	118	33	25	16	24	1.95
2977911--2977970	21	2.9	21	92	0	93	33	31	13	21	1.92
2978101--2978147	21	2.2	21	84	0	58	27	23	10	38	1.88
2978690--2978743	22	2.5	22	96	0	99	33	24	14	27	1.94
2989883--2989922	19	2.1	19	85	0	53	20	7	5	67	1.34
3001909--3001956	20	2.5	20	83	10	55	50	4	12	33	1.59
3003471--3003511	21	1.9	22	90	5	66	39	12	19	29	1.88
3006712--3006766	21	2.7	20	78	13	58	29	21	20	29	1.98
3008175--3008225	2	26.0	2	96	4	95	49	0	0	50	1.00
3008637--3008680	17	2.6	17	78	3	54	68	0	0	31	0.90
3015471--3015543	23	3.2	23	84	0	92	38	19	8	34	1.81
3015956--3016028	23	3.2	23	88	0	110	36	21	6	34	1.81
3015069--3016414	485	2.8	487	95	1	2377	40	10	7	41	1.68
3016406--3016848	183	2.4	182	92	2	728	33	17	14	34	1.90
3018059--3018097	3	13.0	3	88	0	60	28	33	2	35	1.71
3018063--3018101	12	3.2	12	92	0	60	25	33	5	35	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3019595--3020539	200	4.7	199	94	1	1574	30	17	15	36	1.91
3020416--3020660	121	2.0	123	95	1	440	28	14	16	40	1.88
3020216--3020860	321	2.0	323	98	0	1240	29	17	15	37	1.91
3020539--3021260	200	3.6	200	97	0	1358	29	18	15	36	1.92
3020016--3021060	521	2.0	523	97	0	1959	29	17	15	36	1.91
3019816--3021783	721	2.7	720	96	2	3556	29	18	15	36	1.91
3021137--3021383	123	2.0	123	96	0	458	28	14	16	40	1.88
3021260--3021783	183	2.7	198	87	9	862	29	19	15	36	1.92
3021884--3021944	19	3.3	18	88	2	59	52	11	1	34	1.47
3021896--3021944	19	2.6	19	96	0	89	55	10	2	32	1.45
3023735--3023800	33	2.0	33	90	0	105	22	48	0	28	1.51
3023834--3023898	21	3.1	21	93	0	103	16	30	10	41	1.83
3026126--3026168	20	2.3	18	85	14	61	20	16	11	51	1.75
3026314--3026373	20	3.0	20	83	13	79	18	15	13	53	1.73
3026098--3026570	181	2.6	182	88	1	671	26	16	13	43	1.85
3027957--3027984	3	9.3	3	100	0	56	32	0	0	67	0.91
3029250--3029283	3	11.3	3	100	0	68	35	0	0	64	0.94
3029924--3029957	2	17.0	2	100	0	68	50	0	0	50	1.00
3036484--3036582	25	3.8	25	73	10	83	50	1	8	40	1.39
3036441--3036597	85	1.9	84	84	6	210	49	1	6	42	1.39
3036394--3036623	31	7.8	30	75	11	174	50	2	7	40	1.44
3036525--3036623	29	3.4	29	82	10	87	53	1	5	40	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3036488--3036623	58	2.4	54	78	8	139	52	1	6	38	1.36
3040422--3040454	3	11.3	3	87	6	50	39	0	0	60	0.97
3054535--3054723	54	3.5	54	86	3	256	33	17	24	23	1.96
3054534--3054849	55	5.8	53	85	5	228	33	15	25	25	1.95
3054700--3054893	55	3.6	54	86	6	259	31	13	24	29	1.94
3054542--3054934	110	3.6	108	76	10	318	33	16	25	24	1.95
3058196--3058353	21	7.8	20	70	7	77	37	25	17	18	1.93
3058321--3058514	20	9.6	20	82	6	87	35	26	18	19	1.95
3058321--3058514	40	4.8	39	84	3	217	35	26	18	19	1.95
3058321--3058513	60	3.2	60	83	3	253	35	26	18	19	1.95

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21