genome.fa.s8128.2.7.7.80.10.50.1000.12.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: VEPZ01008128.1 Hibiscus syriacus cultivar Beakdansim tig00110683_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4987688

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

This is table  12  of  20  ( 2387 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)
2810103--2810279	74	2.4	73	91	1	284	45	15	16	21	1.85
2810313--2810440	67	1.9	67	95	0	229	41	14	25	19	1.88
2810313--2810406	20	4.3	20	72	17	89	39	14	26	19	1.90
2815162--2815190	12	2.3	13	94	5	51	20	13	44	20	1.85
2822957--2822998	17	2.5	17	96	0	75	19	30	11	38	1.88
2830631--2830660	2	15.0	2	100	0	60	50	0	0	50	1.00
2832132--2832162	2	15.5	2	100	0	62	51	0	0	48	1.00
2832327--2832399	13	5.6	13	90	0	101	36	19	16	27	1.93
2834599--2834642	19	2.3	19	92	0	70	27	13	18	40	1.88
2838238--2838279	15	2.9	14	89	7	57	0	21	2	76	0.90
2838238--2838279	20	2.1	20	86	8	59	0	21	2	76	0.90
2838343--2838396	20	2.7	20	97	0	99	1	33	12	51	1.51
2838782--2838870	3	28.7	3	84	4	106	60	0	0	39	0.97
2839117--2839172	17	3.2	17	68	26	53	17	25	8	48	1.76
2839100--2839763	113	5.9	113	91	2	993	31	18	14	34	1.92
2840493--2840962	83	5.6	83	92	1	735	38	22	12	27	1.90
2840489--2840962	167	2.8	167	93	2	767	37	22	12	27	1.90
2842110--2842198	1	89.0	1	72	0	70	0	13	0	86	0.57
2842110--2842201	15	6.1	14	81	12	103	0	14	0	85	0.59
2842110--2842198	39	2.3	39	88	7	130	0	13	0	86	0.57
2854459--2854500	15	2.9	14	89	7	57	0	21	2	76	0.90
2854459--2854500	20	2.1	20	86	8	59	0	21	2	76	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2854564--2854617	20	2.7	20	97	0	99	0	35	12	51	1.40
2855003--2855079	3	24.7	3	84	5	91	61	0	0	38	0.96
2866190--2866242	26	2.0	26	96	0	97	13	20	41	24	1.88
2866436--2866508	33	2.1	33	85	7	92	24	12	12	50	1.74
2870016--2870055	21	1.9	21	89	0	62	20	25	20	35	1.96
2870010--2870062	21	2.5	21	81	0	61	22	24	20	32	1.98
2870052--2870107	20	2.8	20	97	0	103	35	16	21	26	1.94
2870091--2870198	20	5.4	20	89	0	162	27	26	19	25	1.99
2870052--2870158	40	2.7	39	81	5	99	31	22	19	26	1.98
2870071--2870198	60	2.1	60	84	2	159	29	25	19	25	1.98
2871019--2871072	24	2.2	24	90	0	81	22	18	20	38	1.93
2873171--2873205	18	1.9	18	94	0	61	54	25	2	17	1.57
2873376--2873664	20	15.4	20	73	12	238	34	21	18	25	1.96
2873404--2873541	34	3.9	34	80	10	159	36	23	16	23	1.94
2873376--2873580	74	2.8	74	88	3	297	35	21	17	25	1.95
2873448--2873664	114	1.9	113	87	2	319	34	21	19	24	1.97
2873376--2873664	94	3.1	94	75	7	282	34	21	18	25	1.96
2873663--2873716	20	2.7	20	82	5	65	11	16	27	44	1.82
2873838--2873874	14	2.6	14	100	0	74	48	21	0	29	1.50
2875306--2875355	21	2.4	21	79	0	55	18	16	42	24	1.89
2875456--2875495	18	2.2	18	100	0	80	15	25	27	32	1.95
2875901--2875956	20	2.8	20	91	0	85	35	23	19	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2876000--2876087	20	4.4	20	83	0	95	22	18	22	36	1.95
2876368--2876420	21	2.5	21	78	0	61	30	32	15	22	1.94
2877938--2878024	20	4.4	20	82	4	97	50	21	14	12	1.76
2877938--2878024	19	4.5	19	84	4	86	50	21	14	12	1.76
2878391--2878433	22	2.0	22	85	0	59	23	16	37	23	1.94
2878609--2878702	20	4.7	20	89	0	134	26	21	24	27	1.99
2878686--2878741	20	2.8	20	97	0	103	26	21	16	35	1.94
2878738--2878778	21	2.0	21	90	0	64	41	19	21	17	1.90
2879640--2879667	2	14.0	2	100	0	56	50	0	0	50	1.00
2882622--2882663	3	14.7	3	85	9	61	73	0	0	26	0.83
2882620--2882664	14	3.2	14	90	9	74	75	0	0	24	0.80
2883290--2883537	38	6.2	38	75	12	169	40	17	17	24	1.90
2883295--2883445	80	1.9	81	87	4	225	40	17	15	26	1.89
2883308--2883524	119	1.8	119	86	4	312	40	17	15	25	1.90
2884176--2884593	217	1.9	217	89	1	651	34	16	14	34	1.89
2884553--2884646	42	2.3	42	84	1	118	34	18	22	25	1.96
2884322--2885147	257	3.2	256	85	3	1043	34	16	16	32	1.92
2885061--2885150	42	2.2	41	83	2	108	36	18	18	25	1.94
2886916--2887009	8	11.2	8	75	7	71	6	17	0	76	0.98
2886917--2886970	17	3.3	15	80	12	54	3	14	0	81	0.82
2886916--2887017	33	3.0	33	82	5	123	6	16	0	76	0.99
2886950--2887009	17	3.4	17	76	17	59	8	15	0	76	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2891277--2891315	20	2.0	20	94	0	69	64	7	5	23	1.40
2892331--2892357	2	13.5	2	100	0	54	48	0	0	51	1.00
2892855--2892894	3	14.0	3	84	10	57	67	0	0	32	0.91
2892855--2892894	20	2.0	20	95	0	71	67	0	0	32	0.91
2894812--2894838	13	2.1	13	100	0	54	51	0	7	40	1.30
2895798--2895852	18	3.1	18	70	12	51	10	20	5	63	1.46
2895850--2895904	17	3.2	17	75	10	58	23	12	3	60	1.49
2895793--2895904	34	3.3	34	78	9	120	18	16	4	59	1.53
2897211--2897280	20	3.3	21	70	16	63	41	4	5	48	1.46
2900597--2900687	30	3.0	30	84	6	121	32	25	18	23	1.97
2901068--2901193	47	2.8	45	88	5	182	30	23	7	38	1.81
2901298--2901419	40	3.0	40	98	0	235	33	27	16	22	1.95
2904137--2904171	18	2.0	17	94	5	61	60	0	5	34	1.21
2921623--2921655	16	2.1	16	100	0	66	24	6	6	63	1.40
2921920--2921962	18	2.4	18	88	0	59	23	4	0	72	1.04
2922001--2922046	8	5.8	8	78	16	51	23	2	2	71	1.08
2922001--2922046	20	2.3	21	78	17	53	23	2	2	71	1.08
2922010--2922096	43	2.1	42	82	4	104	21	8	2	67	1.28
2922076--2922146	30	2.2	29	80	14	70	19	9	4	66	1.38
2922208--2922331	67	1.9	65	80	9	144	25	5	2	66	1.26
2923364--2923403	17	2.4	16	84	12	53	7	7	2	82	0.92
2929470--2929512	18	2.4	18	92	0	68	20	6	0	72	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2929562--2929608	12	4.2	11	81	13	60	17	10	0	72	1.12
2929560--2929603	22	2.0	22	86	0	61	20	9	0	70	1.14
2929575--2929630	23	2.5	22	80	8	58	14	14	1	69	1.27
2929649--2929712	5	11.8	5	79	17	58	14	7	1	76	1.07
2929649--2929740	34	2.6	34	81	14	98	16	8	1	73	1.13
2929692--2929753	32	1.9	32	84	12	83	19	8	0	72	1.09
2933599--2933653	22	2.5	22	96	0	101	30	20	18	30	1.96
2935207--2935245	18	2.0	20	90	9	64	35	0	23	41	1.55
2943334--2943459	61	2.1	61	89	0	189	29	14	23	33	1.94
2946301--2946941	129	5.1	123	85	11	801	49	7	4	38	1.52
2946301--2946941	247	2.6	242	89	7	950	49	7	4	38	1.52
2949453--2949545	42	2.2	43	88	1	134	27	24	25	21	1.99
2949472--2949591	43	2.9	42	78	7	120	28	20	24	26	1.99
2949558--2949701	42	3.4	42	75	9	125	28	15	22	33	1.95
2950069--2950181	42	2.7	42	84	2	120	7	24	20	47	1.75
2950084--2950199	42	2.8	42	86	2	153	6	25	19	48	1.72
2950083--2950199	21	5.6	21	83	6	139	5	25	19	48	1.71
2952754--2952778	10	2.5	10	100	0	50	24	8	0	68	1.16
2952472--2953540	364	2.9	364	86	2	1472	31	16	11	40	1.85
2953815--2953927	29	3.9	29	77	4	102	39	10	3	46	1.56
2953958--2954032	22	3.2	22	67	17	60	56	0	4	40	1.18
2953951--2954048	49	1.9	51	87	8	146	57	0	3	39	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2954100--2954149	21	2.3	21	93	3	82	24	4	0	72	1.02
2954209--2954324	28	4.0	29	74	12	78	45	1	9	43	1.46
2954225--2954324	30	3.4	28	81	13	112	47	2	8	43	1.44
2954230--2954357	58	2.2	58	81	5	143	48	2	7	42	1.43
2959439--2959504	19	3.4	19	75	8	62	34	0	10	54	1.35
2960088--2960133	4	12.0	4	84	9	60	26	2	0	71	0.97
2960152--2960236	41	2.0	42	80	10	95	24	10	0	64	1.25
2961729--2961771	18	2.4	18	100	0	86	41	0	18	39	1.51
2964897--2964962	5	12.6	5	73	13	53	21	6	3	69	1.24
2966659--2966720	19	3.2	19	75	6	54	32	0	12	54	1.38

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