genome.fa.s8105.2.7.7.80.10.50.1000.15.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: VEPZ01008105.1 Hibiscus syriacus cultivar Beakdansim tig00110637_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5962497

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   

This is table  15  of  30  ( 3521 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)
2751138--2751327	102	1.9	99	79	10	215	49	10	4	35	1.58
2772751--2772795	11	4.1	11	82	5	56	71	6	8	13	1.31
2772751--2772792	22	1.9	22	90	9	68	69	7	9	14	1.37
2780403--2780439	19	1.9	19	94	0	65	40	10	35	13	1.80
2785629--2785846	32	6.8	32	76	3	170	39	15	14	29	1.87
2785629--2785906	64	4.3	63	78	3	216	38	15	15	29	1.89
2785670--2785906	128	1.9	128	82	1	305	37	15	16	30	1.90
2791212--2791521	64	4.8	65	76	6	278	36	14	16	32	1.89
2791213--2791521	32	9.7	31	76	6	237	36	14	16	32	1.89
2791269--2791549	96	2.9	96	81	5	293	35	14	17	32	1.90
2799271--2799317	19	2.4	20	78	7	60	27	17	17	38	1.91
2800448--2800692	131	1.9	132	93	0	429	38	5	8	46	1.58
2803785--2803825	21	2.0	21	90	4	66	46	9	19	24	1.80
2822700--2822731	16	2.0	16	93	0	55	37	31	15	15	1.89
2825233--2825393	10	16.2	10	67	20	56	70	1	5	22	1.16
2825347--2825390	23	1.9	23	95	0	79	68	0	4	27	1.09
2825347--2825407	20	2.9	21	78	11	54	68	1	6	22	1.21
2825970--2826059	37	2.4	37	85	3	110	30	12	13	44	1.80
2826819--2828277	106	13.8	106	90	1	2108	23	17	24	34	1.96
2828653--2828689	18	2.0	19	89	5	58	43	29	5	21	1.75
2829102--2829156	22	2.5	22	96	0	101	25	12	25	36	1.91
2829783--2829825	15	2.8	16	79	17	54	0	9	6	83	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2829782--2829826	18	2.5	17	82	13	54	0	8	6	84	0.78
2833098--2833135	19	2.0	20	89	5	60	68	0	23	7	1.16
2834260--2834344	26	3.3	26	73	18	70	75	3	7	14	1.15
2834376--2834400	2	12.5	2	100	0	50	52	0	0	48	1.00
2834561--2834587	2	13.5	2	100	0	54	51	0	0	48	1.00
2834643--2834692	16	2.9	17	82	14	59	70	2	0	28	0.99
2835323--2835427	37	2.8	37	89	0	156	29	14	14	41	1.85
2842870--2842903	6	5.3	6	86	13	50	79	0	2	17	0.86
2842870--2842903	13	2.6	13	90	0	59	79	0	2	17	0.86
2850822--2851043	117	1.9	117	83	3	286	27	14	9	48	1.75
2854024--2854068	21	2.1	21	91	0	72	35	33	15	15	1.89
2854069--2854436	42	8.8	39	86	8	260	21	19	22	36	1.95
2854077--2854391	63	5.0	61	81	9	359	21	19	22	36	1.95
2854140--2854324	84	2.2	84	94	0	316	22	18	22	36	1.95
2854204--2854429	105	2.1	105	94	1	389	20	18	23	37	1.94
2855071--2855102	6	5.5	6	96	3	57	0	15	53	31	1.43
2855192--2855392	21	9.7	19	72	16	132	36	24	16	21	1.94
2855195--2855338	42	3.4	42	98	0	279	35	26	18	20	1.95
2855262--2855392	61	2.1	62	88	2	192	36	25	15	22	1.93
2857904--2858186	57	5.0	57	92	0	424	15	20	28	34	1.94
2859767--2859842	36	2.1	36	82	7	91	46	1	5	47	1.33
2860773--2860801	5	5.8	5	100	0	58	0	0	17	82	0.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2873138--2873189	27	1.9	27	84	0	68	46	0	3	50	1.20
2881554--2881603	2	25.0	2	100	0	100	50	0	0	50	1.00
2881757--2881810	13	4.2	13	85	0	63	42	11	18	27	1.84
2892666--2892773	44	2.5	44	81	6	121	34	20	13	31	1.92
2894466--2894509	12	3.7	12	100	0	88	15	15	0	68	1.22
2894450--2894490	17	2.5	17	96	4	75	14	17	0	68	1.22
2894466--2894573	12	9.2	12	78	17	63	10	16	0	73	1.10
2894507--2894552	13	3.5	13	93	0	74	6	17	0	76	1.00
2894438--2894531	18	4.9	18	75	21	77	13	18	0	68	1.22
2894533--2894595	13	4.8	12	81	14	63	3	14	1	80	0.90
2894520--2894599	37	2.2	34	80	10	88	3	16	1	78	0.95
2894536--2894604	26	2.7	25	76	10	70	4	15	1	78	0.98
2894534--2894599	27	2.5	26	83	9	80	3	15	1	80	0.91
2899543--2899579	13	2.7	14	84	15	51	67	0	16	16	1.23
2899616--2899683	25	2.9	23	80	10	68	73	7	8	10	1.25
2899638--2899692	25	2.2	25	87	6	76	74	5	5	14	1.18
2904502--2904549	17	2.8	17	78	15	53	6	2	27	64	1.28
2905747--2905828	43	1.9	43	84	0	110	28	23	19	29	1.98
2910025--2910077	3	18.0	3	84	3	72	62	0	1	35	1.06
2910038--2910116	6	13.2	6	97	0	68	46	0	0	53	1.00
2910064--2910120	3	19.0	3	92	0	96	36	0	0	63	0.95
2913914--2914251	43	7.8	43	91	0	496	18	24	23	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2919141--2919418	43	6.4	43	87	2	389	17	24	24	34	1.96
2919144--2919418	85	3.2	86	88	2	392	17	23	24	34	1.96
2923853--2923934	23	3.7	22	80	7	78	21	25	30	21	1.99
2923853--2923914	23	2.8	22	87	4	81	20	25	30	22	1.98
2927191--2927230	21	1.9	21	85	10	55	35	10	2	52	1.48
2929983--2930093	16	7.0	15	67	20	57	20	3	2	72	1.12
2929983--2930099	11	10.6	11	73	16	57	21	3	2	72	1.11
2929995--2930047	24	2.2	25	77	16	58	15	5	1	77	1.04
2930134--2930177	3	14.7	3	85	0	61	29	4	0	65	1.12
2930134--2930177	18	2.4	18	96	0	79	29	4	0	65	1.12
2930193--2930219	2	13.5	2	100	0	54	48	0	0	51	1.00
2930761--2930802	13	3.2	13	86	3	57	19	2	0	78	0.86
2930761--2930801	20	2.0	20	85	4	55	17	2	0	80	0.82
2931454--2931696	12	21.1	11	66	19	81	57	2	1	38	1.20
2931534--2931605	29	2.5	29	82	8	85	58	0	1	40	1.07
2931622--2931700	25	3.1	26	72	17	76	58	3	1	36	1.24
2931889--2931946	26	2.2	26	96	0	107	44	8	1	44	1.44
2935542--2935602	31	2.0	30	84	12	79	39	4	8	47	1.55
2937179--2937261	34	2.4	35	87	2	114	26	21	13	38	1.90
2938399--2938434	16	2.2	17	95	5	65	30	0	0	69	0.89
2939708--2939939	41	5.7	41	72	7	123	33	18	19	28	1.96
2939784--2939856	21	3.5	21	79	3	76	23	21	17	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2939846--2939957	20	5.6	20	81	4	127	37	19	20	22	1.94
2940508--2940552	19	2.4	19	92	0	72	48	26	15	8	1.74
2940548--2940665	53	2.2	53	89	1	184	11	21	22	45	1.82
2940623--2940678	14	3.6	14	74	21	58	10	23	25	41	1.86
2940615--2940702	33	2.6	33	94	1	158	11	25	22	40	1.87
2940548--2940727	20	10.1	19	69	20	120	11	22	20	45	1.84
2940553--2940719	86	1.9	87	86	3	239	11	22	21	44	1.83
2942872--2942938	21	3.2	21	66	6	55	25	35	19	19	1.95
2942825--2942938	42	2.7	41	81	5	104	23	35	18	21	1.95
2944289--2944324	14	2.6	14	100	0	72	30	0	27	41	1.56
2944431--2944543	33	3.4	33	91	0	181	46	20	21	11	1.81
2944446--2944543	14	6.3	14	71	21	70	47	20	21	10	1.79
2944431--2944524	19	5.5	19	69	23	82	45	19	22	12	1.83
2944549--2944699	19	8.7	19	69	21	107	15	23	19	41	1.89
2944553--2944679	33	3.9	32	89	8	202	14	23	19	42	1.88
2944546--2944678	66	2.0	66	98	0	257	15	23	19	41	1.90
2946970--2946994	12	2.1	12	100	0	50	0	28	0	72	0.86
2948056--2948112	20	2.8	20	100	0	114	26	24	21	28	1.99
2948335--2948423	20	4.4	20	77	8	108	39	23	21	15	1.92
2948455--2948508	14	3.5	14	77	22	63	11	20	20	48	1.80
2948437--2948507	33	2.2	33	84	0	88	19	19	21	39	1.93
2950083--2950173	42	2.2	42	84	2	121	23	15	39	21	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2950512--2950564	20	2.7	20	87	0	70	33	28	13	24	1.93
2950518--2950604	20	4.4	20	82	1	86	36	25	20	17	1.94
2950630--2950726	19	5.6	19	67	22	79	12	19	21	46	1.83
2950638--2950726	33	2.7	33	92	0	151	12	19	21	47	1.82
2950711--2950754	20	2.3	19	80	7	52	20	22	18	38	1.93
2951306--2951353	18	2.7	18	93	0	87	14	12	45	27	1.81
2952673--2952715	20	2.2	20	95	0	77	53	18	18	9	1.70
2953003--2953046	22	2.0	22	95	0	79	18	15	45	20	1.85
2953239--2953303	20	3.2	20	86	0	94	27	13	29	29	1.95
2953316--2953371	21	2.7	21	97	0	103	19	23	17	39	1.92

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