genome.fa.s125.2.7.7.80.10.50.1000.15.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: Scaffold125
Parameters: 2 7 7 80 10 50 1000
Length:  3608436

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

This is table  15  of  18  ( 2131 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)
2653254--2653278	13	1.9	13	100	0	50	56	0	0	44	0.99
2657241--2657265	2	12.5	2	100	0	50	52	0	0	48	1.00
2657265--2657293	2	14.5	2	100	0	58	51	0	48	0	1.00
2659794--2659833	2	20.0	2	100	0	80	50	0	50	0	1.00
2670934--2670963	2	15.0	2	100	0	60	50	0	0	50	1.00
2671013--2671049	2	18.5	2	100	0	74	48	0	0	51	1.00
2672697--2672731	2	17.5	2	100	0	70	51	0	0	48	1.00
2672812--2672854	3	14.0	3	85	4	59	0	30	0	69	0.88
2683437--2683489	21	2.8	20	77	13	58	58	1	0	39	1.09
2684965--2685031	14	4.2	15	72	16	55	40	0	1	58	1.07
2686353--2686387	2	17.5	2	93	0	61	45	0	0	54	0.99
2687881--2687940	16	3.4	18	86	9	72	55	0	1	43	1.10
2688844--2688899	6	10.0	5	85	14	58	41	0	0	58	0.98
2688830--2688897	29	2.3	31	82	14	90	42	0	0	57	0.98
2688830--2688898	6	11.7	6	77	11	54	42	0	0	57	0.98
2688830--2688900	24	3.0	23	80	10	81	42	0	0	57	0.98
2693261--2693309	14	3.4	14	76	20	55	46	0	0	53	1.00
2693261--2693328	30	2.2	33	86	7	97	44	0	0	55	0.99
2693305--2693359	5	11.6	5	80	20	57	36	0	0	63	0.95
2693257--2693359	33	3.2	32	81	11	106	41	0	0	58	0.98
2693305--2693353	17	2.7	18	87	12	73	34	0	0	65	0.93
2693307--2693351	22	2.0	23	91	4	74	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2693309--2693367	27	2.3	26	88	8	86	32	0	0	67	0.91
2694443--2694467	3	8.3	3	100	0	50	68	32	0	0	0.90
2695097--2695155	31	1.9	31	92	0	100	27	1	20	50	1.57
2698082--2698107	2	13.0	2	100	0	52	50	0	0	50	1.00
2698687--2698766	38	2.1	39	83	2	99	53	3	3	38	1.37
2700742--2700780	6	7.0	6	88	11	57	46	0	53	0	1.00
2703468--2703511	2	22.0	2	95	0	79	47	0	0	52	1.00
2711770--2711808	21	1.9	21	85	15	55	17	2	15	64	1.41
2713325--2713376	27	1.9	27	84	7	70	53	0	1	44	1.11
2714579--2714603	2	12.5	2	100	0	50	48	0	0	52	1.00
2715319--2715356	2	19.5	2	89	5	60	50	0	0	50	1.00
2715686--2715744	9	6.9	9	74	18	54	42	0	0	57	0.98
2715701--2715761	17	3.6	17	78	10	54	37	0	0	62	0.96
2719184--2719265	29	2.8	30	88	5	132	43	2	0	53	1.13
2720868--2720956	8	10.8	8	70	23	60	38	2	0	59	1.10
2720854--2720932	28	2.9	28	76	16	85	39	3	0	56	1.17
2721114--2721142	13	2.1	14	93	6	51	37	0	0	62	0.96
2727238--2727262	3	8.3	3	100	0	50	32	0	32	36	1.58
2727905--2727934	2	15.0	2	100	0	60	50	0	50	0	1.00
2729881--2729921	21	2.0	22	90	9	68	46	0	0	53	1.00
2731467--2731491	13	1.9	13	100	0	50	72	4	0	24	1.02
2736515--2736564	17	2.9	17	82	5	57	48	6	2	44	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2744809--2744891	14	6.2	14	74	13	59	43	0	0	56	0.99
2744804--2744879	40	1.9	40	84	12	104	48	0	0	51	1.00
2747337--2747397	18	3.2	19	86	6	79	67	0	0	32	0.91
2747343--2747392	10	4.6	11	78	12	59	68	0	0	32	0.90
2747343--2747402	14	4.2	14	77	8	59	68	0	0	31	0.90
2748301--2748329	2	14.5	2	100	0	58	48	0	0	51	1.00
2748329--2748354	2	13.0	2	100	0	52	0	0	50	50	1.00
2749093--2749129	16	2.2	16	90	4	56	48	0	0	51	1.00
2749115--2749147	14	2.4	14	90	5	50	63	0	0	36	0.95
2749105--2749167	21	3.2	20	82	8	69	66	0	0	33	0.92
2752675--2752718	2	22.0	2	95	0	79	50	2	0	47	1.13
2759184--2759222	17	2.2	18	86	4	53	61	2	0	35	1.10
2761224--2761257	13	2.8	13	91	8	54	70	5	5	17	1.28
2763863--2763895	2	16.5	2	100	0	66	51	0	0	48	1.00
2765386--2765410	4	6.2	4	100	0	50	76	0	0	24	0.80
2765611--2765641	15	2.1	15	93	0	53	90	6	3	0	0.55
2770512--2770548	14	2.6	14	91	4	56	37	0	2	59	1.12
2773279--2773311	2	16.5	2	100	0	66	51	0	0	48	1.00
2776647--2776675	2	14.5	2	100	0	58	51	0	0	48	1.00
2785549--2785601	21	2.5	22	87	3	72	71	0	0	28	0.86
2790407--2790456	19	2.7	20	72	9	52	44	0	2	54	1.11
2790911--2790955	15	2.9	16	78	15	58	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2796102--2796127	2	13.0	2	100	0	52	50	0	0	50	1.00
2802577--2802606	12	2.4	13	88	11	53	36	0	0	63	0.95
2803507--2803542	18	2.0	18	100	0	72	44	0	0	55	0.99
2808247--2808277	2	15.5	2	100	0	62	48	0	0	51	1.00
2810362--2810398	2	18.5	2	100	0	74	51	0	0	48	1.00
2811271--2811304	12	2.9	12	91	4	52	70	0	5	23	1.09
2816326--2816350	6	4.2	6	100	0	50	68	0	0	32	0.90
2819391--2819432	22	1.9	22	90	0	66	40	0	9	50	1.35
2819522--2819576	26	2.2	24	77	6	56	54	0	1	43	1.10
2820928--2820960	9	3.3	10	87	12	50	54	0	0	45	0.99
2821357--2821386	2	15.0	2	100	0	60	50	0	0	50	1.00
2823970--2824021	22	2.4	22	100	0	104	46	17	5	30	1.71
2826450--2826475	3	8.7	3	100	0	52	34	0	65	0	0.93
2826475--2826514	5	8.0	5	94	0	71	57	0	42	0	0.98
2828679--2828713	13	2.7	13	100	0	70	28	17	14	40	1.88
2831135--2831183	24	2.0	24	96	0	89	24	20	22	32	1.98
2841779--2841873	31	3.4	31	65	24	91	49	6	8	35	1.59
2841773--2841877	53	2.0	53	98	0	201	49	5	10	34	1.61
2841779--2841864	22	3.2	28	64	23	67	50	6	8	34	1.59
2842120--2842190	28	2.5	29	73	17	76	39	2	1	56	1.23
2842245--2842286	12	3.5	12	81	9	50	33	4	2	59	1.31
2842725--2842759	11	3.0	11	84	15	52	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2842726--2842768	11	3.7	11	81	9	50	48	0	0	51	1.00
2846421--2846465	14	3.1	14	83	6	54	40	0	4	55	1.20
2852490--2852519	15	2.0	15	93	0	51	23	6	0	70	1.11
2853010--2853052	12	3.7	12	79	14	54	62	2	0	34	1.08
2856190--2856230	2	21.0	2	90	5	66	48	2	0	48	1.14
2856603--2856641	17	2.2	17	86	9	51	64	0	0	35	0.94
2858299--2858429	64	2.0	64	98	0	253	36	15	12	35	1.85
2860873--2860910	2	19.0	2	100	0	76	50	0	0	50	1.00
2872472--2872591	42	2.8	43	91	1	188	8	46	2	42	1.47
2875162--2875217	20	2.8	20	81	7	69	46	0	0	53	1.00
2879970--2880004	4	8.8	4	100	0	70	22	0	0	77	0.78
2880254--2880286	16	2.0	17	88	5	50	36	0	0	63	0.95
2881627--2881651	2	12.5	2	100	0	50	52	0	0	48	1.00
2883150--2883179	2	15.0	2	100	0	60	50	50	0	0	1.00
2883179--2883204	2	13.0	2	100	0	52	50	0	0	50	1.00
2884088--2884118	2	15.5	2	100	0	62	51	48	0	0	1.00
2890150--2890184	2	17.5	2	100	0	70	51	0	0	48	1.00
2890187--2890367	90	2.0	90	100	0	362	30	24	17	26	1.97
2892215--2892241	13	2.1	13	100	0	54	51	0	7	40	1.30
2892241--2892320	19	4.2	19	79	6	99	47	11	8	32	1.70
2892251--2892330	38	2.1	38	100	0	160	51	7	7	33	1.58
2892269--2892330	19	3.3	19	81	0	88	53	4	6	35	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2900046--2900084	20	1.9	21	89	5	62	48	0	0	51	1.00
2900377--2900453	24	3.2	24	72	27	81	57	9	6	27	1.54
2900372--2900470	49	2.0	49	90	3	155	55	9	9	26	1.61
2900377--2900456	25	3.2	25	71	25	80	57	8	6	27	1.53
2900490--2900534	22	2.0	23	91	8	74	57	2	4	35	1.31
2900922--2900946	2	12.5	2	100	0	50	48	0	0	52	1.00
2903169--2903197	6	5.0	6	91	8	51	17	0	0	82	0.66
2904720--2904791	33	2.2	33	87	7	103	44	4	2	48	1.36
2906580--2906606	2	13.5	2	100	0	54	51	0	0	48	1.00
2913605--2913664	25	2.4	25	88	2	84	36	3	0	60	1.14

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