genome.fa.s114.2.7.7.80.10.50.1000.11.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: Scaffold114
Parameters: 2 7 7 80 10 50 1000
Length:  3219552

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  11  of  13  ( 1458 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)
2648265--2648290	2	13.0	2	100	0	52	50	0	0	50	1.00
2652950--2652974	2	12.5	2	100	0	50	52	0	0	48	1.00
2654660--2654684	10	2.5	10	100	0	50	44	8	8	40	1.63
2659180--2659222	6	6.5	6	85	15	50	37	0	0	62	0.95
2659355--2659397	19	2.2	19	83	8	50	62	4	0	32	1.15
2659355--2659397	13	3.2	13	81	15	52	62	4	0	32	1.15
2660362--2660409	21	2.3	21	81	0	60	27	4	2	66	1.21
2660739--2660789	13	4.1	12	82	12	59	68	1	0	29	1.00
2660739--2660786	24	2.1	21	88	11	69	70	2	0	27	0.98
2668303--2668374	32	2.2	32	82	4	83	56	1	0	41	1.07
2672412--2672436	2	12.5	2	100	0	50	52	0	48	0	1.00
2677922--2677987	28	2.3	30	76	10	75	54	4	0	40	1.21
2677917--2677958	20	2.0	20	86	4	57	47	0	0	52	1.00
2678147--2678176	3	10.0	3	92	0	51	70	0	0	30	0.88
2679350--2679383	2	17.5	2	93	6	61	47	0	0	52	1.00
2688199--2688246	3	16.0	3	91	0	78	33	0	4	62	1.14
2688389--2688415	3	9.0	3	100	0	54	33	0	0	66	0.92
2689758--2689794	2	18.5	2	100	0	74	0	48	0	51	1.00
2689794--2689826	2	16.5	2	100	0	66	48	0	0	51	1.00
2691644--2691692	2	26.5	2	84	15	70	51	0	0	48	1.00
2693236--2693277	2	22.5	2	81	13	54	47	2	0	50	1.14
2693833--2693867	18	1.9	18	88	0	52	77	0	0	22	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2695270--2695360	32	2.9	32	86	1	112	57	7	4	30	1.47
2695733--2695759	1	27.0	1	100	0	54	0	0	0	100	0.00
2703648--2703809	71	2.3	72	84	2	209	30	22	9	37	1.87
2704561--2704604	11	3.8	11	85	8	52	36	2	0	61	1.09
2705395--2705447	3	17.7	3	100	0	106	32	0	0	67	0.91
2705978--2706008	2	15.5	2	100	0	62	48	0	0	51	1.00
2706937--2706987	17	3.1	17	81	13	54	43	0	3	52	1.19
2706941--2706988	16	2.9	16	84	9	53	43	0	4	52	1.20
2712846--2712878	2	16.5	2	100	0	66	48	0	0	51	1.00
2714751--2714819	33	2.0	35	81	10	81	50	0	0	49	1.00
2719297--2719332	17	2.2	17	90	5	56	27	16	8	47	1.75
2722630--2722661	2	16.0	2	100	0	64	50	0	0	50	1.00
2723904--2724030	44	2.9	44	100	0	254	51	2	25	21	1.60
2725066--2725139	32	2.3	32	92	0	121	33	13	17	35	1.89
2725063--2725126	19	3.7	19	70	23	68	32	12	18	35	1.89
2727541--2727653	51	2.3	51	85	13	148	30	21	12	36	1.90
2727639--2727715	27	2.8	27	84	5	93	22	32	20	24	1.98
2727668--2727984	79	4.0	79	87	4	433	26	27	15	30	1.96
2742564--2742596	3	11.0	3	100	0	66	33	0	0	66	0.92
2744415--2744439	1	25.0	1	100	0	50	100	0	0	0	0.00
2756717--2756766	16	3.1	16	72	18	50	58	0	0	42	0.98
2757404--2757473	24	2.9	24	71	19	65	54	0	1	44	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2757404--2757473	23	2.8	25	72	10	72	54	0	1	44	1.09
2766070--2766095	2	13.0	2	100	0	52	50	0	0	50	1.00
2766115--2766228	30	3.8	30	70	15	83	46	7	0	44	1.38
2775293--2775333	15	2.9	15	79	17	52	46	0	0	53	1.00
2775760--2775784	2	12.5	2	100	0	50	52	0	0	48	1.00
2775915--2775971	20	2.8	20	80	12	62	73	3	0	22	0.98
2776005--2776447	224	2.0	221	90	3	703	52	6	3	37	1.43
2776313--2776350	17	2.3	17	90	4	60	76	7	0	15	1.01
2776321--2776359	20	2.0	19	85	5	51	79	7	0	12	0.93
2785670--2785718	24	2.0	24	100	0	98	20	16	28	34	1.94
2791853--2791889	18	2.2	17	86	13	51	10	10	5	72	1.25
2803947--2803976	14	2.1	14	100	0	60	33	0	0	66	0.92
2803951--2803991	19	2.4	16	84	15	55	31	0	0	68	0.90
2810909--2810941	2	17.0	2	93	6	59	48	0	0	51	1.00
2811962--2811995	2	17.0	2	87	0	50	47	2	2	47	1.32
2812572--2812626	7	8.8	6	80	11	51	45	0	5	49	1.25
2812813--2812856	22	2.0	22	86	0	61	52	2	0	45	1.13
2821468--2821552	34	2.5	34	96	0	152	34	3	22	40	1.71
2822523--2822573	2	25.5	2	100	0	102	50	0	49	0	1.00
2834592--2834632	18	2.3	19	79	12	50	19	12	17	51	1.76
2839093--2839126	2	17.0	2	100	0	68	0	50	0	50	1.00
2839126--2839150	2	12.5	2	100	0	50	48	52	0	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2845044--2845078	2	17.5	2	100	0	70	48	0	0	51	1.00
2849324--2849354	2	15.5	2	100	0	62	48	0	51	0	1.00
2857272--2857342	27	2.6	28	81	2	90	26	5	19	47	1.71
2857439--2857478	20	2.0	20	85	0	53	15	42	5	37	1.68
2859931--2859976	21	2.1	22	84	4	58	30	17	30	21	1.96
2861859--2861929	27	2.6	27	82	6	81	25	7	22	45	1.77
2862026--2862065	20	2.0	20	85	0	53	15	42	5	37	1.68
2875718--2875752	19	1.9	18	88	11	54	74	0	11	14	1.08
2876426--2876468	18	2.4	17	81	14	50	48	0	0	51	1.00
2887450--2887502	2	26.5	2	100	0	106	50	0	0	49	1.00
2888828--2888853	3	8.7	3	100	0	52	69	0	0	30	0.89
2895382--2895412	3	10.3	3	92	0	53	38	0	0	61	0.96
2900367--2900391	2	12.5	2	100	0	50	52	0	48	0	1.00
2901933--2901981	23	2.3	20	82	10	53	36	14	10	38	1.80
2902658--2902703	23	2.1	21	84	11	58	47	2	2	47	1.26
2902988--2903066	25	3.2	24	74	16	65	34	0	2	63	1.08
2904147--2904216	13	5.2	13	72	17	54	40	2	0	57	1.14
2906879--2906918	18	2.2	18	86	0	53	7	62	12	17	1.52
2909397--2909441	2	23.0	2	90	4	74	48	0	0	51	1.00
2910851--2910880	2	15.0	2	100	0	60	50	0	50	0	1.00
2912464--2912514	2	25.5	2	100	0	102	50	0	49	0	1.00
2916674--2916707	6	5.7	6	96	0	50	26	35	5	32	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2918861--2918892	13	2.4	14	94	5	57	59	0	0	40	0.97
2922800--2922845	23	2.0	23	95	0	83	50	17	2	30	1.58
2926599--2926623	2	12.5	2	100	0	50	48	0	0	52	1.00
2927058--2927098	6	6.8	6	88	0	55	34	26	17	21	1.95
2929639--2929680	3	14.0	3	100	0	84	33	0	0	66	0.92
2932548--2932578	2	15.5	2	100	0	62	0	48	0	51	1.00
2933389--2933421	13	2.6	13	90	4	50	24	6	15	54	1.63
2934468--2934502	2	17.5	2	100	0	70	48	0	0	51	1.00
2934973--2935011	17	2.3	18	91	8	64	51	0	0	48	1.00
2935967--2936000	3	11.3	3	87	0	50	58	0	5	35	1.22
2937433--2937484	10	4.9	10	75	13	50	30	0	3	65	1.10
2937472--2937526	28	2.0	28	86	10	78	45	0	0	54	0.99
2937605--2937691	35	2.4	35	80	7	93	44	1	1	52	1.15
2937627--2937694	35	1.9	36	87	3	102	44	0	1	54	1.09
2937667--2937714	20	2.4	19	80	13	53	50	0	0	50	1.00
2937818--2937873	27	2.1	27	93	0	94	25	16	1	57	1.49
2944861--2944919	3	19.7	3	100	0	118	32	0	0	67	0.91
2947126--2947171	2	23.0	2	100	0	92	50	0	0	50	1.00
2948062--2948088	2	13.5	2	100	0	54	48	0	51	0	1.00
2950933--2950970	2	19.0	2	88	0	58	47	2	2	47	1.30
2952963--2953343	189	2.0	189	86	1	521	27	11	23	37	1.89
2955615--2955676	2	31.0	2	96	0	115	0	48	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2958705--2958738	2	17.0	2	100	0	68	50	0	0	50	1.00
2959785--2959821	2	18.5	2	100	0	74	51	0	0	48	1.00
2960780--2960809	2	15.0	2	92	0	51	46	3	0	50	1.18
2966916--2966953	2	19.5	2	94	5	69	50	50	0	0	1.00
2966953--2966980	2	14.0	2	100	0	56	0	50	0	50	1.00
2967777--2967803	2	13.5	2	100	0	54	51	0	0	48	1.00
2972757--2972784	6	4.7	6	100	0	56	64	17	0	17	1.30
2972906--2972934	7	4.3	7	95	4	51	27	0	0	72	0.85
2974154--2974191	2	19.0	2	100	0	76	50	0	0	50	1.00
2984849--2984879	13	2.4	13	94	0	53	48	0	0	51	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13