genome.fa.s3.2.7.7.80.10.50.1000.17.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: Scaffold3
Parameters: 2 7 7 80 10 50 1000
Length:  6198200

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   31   32   

This is table  17  of  32  ( 3795 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)
2581092--2581136	16	2.8	16	86	6	65	46	0	0	53	1.00
2581104--2581154	16	2.8	19	77	22	56	43	0	0	56	0.99
2581092--2581185	16	5.7	16	69	24	54	41	1	1	56	1.13
2581123--2581169	21	2.3	21	85	14	71	38	2	0	59	1.09
2589776--2589822	19	2.4	20	85	3	60	51	8	0	40	1.33
2589883--2589907	3	8.3	3	100	0	50	32	0	0	68	0.90
2590153--2590181	2	14.5	2	100	0	58	51	0	0	48	1.00
2592537--2592586	24	2.1	24	81	7	57	34	10	16	40	1.81
2593873--2593939	16	4.1	17	74	20	54	59	1	0	38	1.06
2593891--2593978	29	2.9	29	80	8	86	54	2	2	40	1.25
2593917--2593978	32	2.0	32	87	3	90	50	1	3	45	1.27
2594535--2594564	10	2.8	11	90	10	53	53	0	0	46	1.00
2594489--2594574	28	3.1	26	74	15	66	53	0	0	46	1.00
2595519--2595617	18	5.7	18	69	13	73	61	0	0	38	0.96
2595515--2595577	13	5.1	12	87	12	92	65	0	0	34	0.93
2595514--2595653	43	3.4	43	74	19	113	58	0	0	40	1.08
2595570--2595624	28	2.0	28	85	7	76	56	0	0	43	0.99
2595515--2595611	13	8.5	11	73	18	58	60	0	0	39	0.97
2595514--2595628	16	6.8	16	68	23	65	60	0	0	40	0.97
2600464--2600514	25	2.0	25	100	0	102	17	7	15	58	1.60
2602618--2602645	2	14.0	2	100	0	56	50	0	0	50	1.00
2602669--2602703	2	17.5	2	100	0	70	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2608991--2609233	102	2.3	104	89	3	366	46	8	0	44	1.37
2610381--2610424	2	22.0	2	100	0	88	50	0	0	50	1.00
2611855--2611886	14	2.3	14	94	0	55	0	9	0	90	0.45
2613425--2613463	19	2.0	19	85	5	51	46	0	0	53	1.00
2613505--2613542	14	2.7	14	84	8	51	52	2	0	44	1.14
2613493--2613539	23	2.0	23	88	8	69	51	2	0	46	1.13
2613938--2613976	17	2.2	17	86	9	51	46	0	0	53	1.00
2617644--2617687	22	1.9	22	86	9	61	52	0	0	47	1.00
2621193--2621316	6	20.7	6	93	0	104	0	62	0	37	0.95
2621193--2621316	8	15.5	8	82	0	104	0	62	0	37	0.95
2621322--2621355	2	17.0	2	100	0	68	0	0	50	50	1.00
2624041--2624065	2	12.5	2	100	0	50	52	0	0	48	1.00
2626771--2626812	20	2.1	20	86	0	57	38	0	4	57	1.20
2627253--2627302	14	3.7	14	81	10	68	14	32	0	54	1.40
2627528--2627662	20	6.8	20	72	0	99	31	28	10	29	1.90
2627540--2627645	40	2.7	40	92	0	167	32	28	11	28	1.91
2627587--2627660	10	7.4	10	75	11	62	33	25	10	29	1.90
2627532--2627662	40	3.3	39	86	4	156	32	28	10	28	1.90
2628687--2628729	18	2.4	18	84	7	52	53	4	23	18	1.63
2628700--2628752	18	2.9	17	77	5	52	41	5	24	28	1.77
2632077--2632120	17	2.5	18	85	3	63	68	0	0	31	0.90
2632317--2632379	29	2.2	29	88	2	92	53	3	1	41	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2640024--2640104	32	2.4	33	82	10	85	41	1	1	55	1.15
2644187--2644215	2	14.5	2	100	0	58	0	48	0	51	1.00
2646542--2646594	22	2.5	21	81	6	63	67	0	0	32	0.91
2647120--2647178	26	2.4	25	86	11	77	55	1	0	42	1.09
2647580--2647635	27	2.1	27	93	0	94	60	0	0	39	0.97
2647580--2647646	23	2.7	25	82	13	68	61	0	0	38	0.96
2647578--2647639	14	4.5	14	77	16	67	59	0	0	40	0.97
2648245--2648275	2	16.0	2	93	6	55	51	0	48	0	1.00
2652683--2652711	2	14.5	2	100	0	58	48	0	0	51	1.00
2652976--2653025	24	2.2	24	85	7	68	32	8	4	56	1.47
2659293--2659336	22	2.0	22	95	0	79	34	13	29	22	1.93
2659299--2659344	22	2.1	22	87	0	65	41	13	26	19	1.88
2659974--2660129	50	3.1	49	79	5	143	30	16	17	35	1.92
2660898--2660954	30	2.0	28	86	13	80	54	1	0	43	1.10
2660911--2660976	26	2.7	24	70	25	57	53	1	0	45	1.09
2663136--2663317	50	3.6	50	85	2	231	32	17	16	32	1.93
2666884--2666926	12	3.5	12	82	17	52	46	0	0	53	1.00
2666875--2666936	13	4.6	14	74	22	53	46	0	1	51	1.10
2667093--2667123	16	1.9	16	93	0	53	48	3	0	48	1.17
2667684--2667710	1	27.0	1	100	0	54	0	0	0	100	0.00
2670016--2670063	6	8.0	6	97	0	69	22	0	43	33	1.54
2670017--2670065	3	16.3	3	82	0	62	24	0	40	34	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2671033--2671061	12	2.4	12	100	0	58	65	0	0	34	0.93
2674708--2674746	20	2.0	20	85	10	53	35	0	0	64	0.94
2675207--2675236	2	15.0	2	100	0	60	50	0	0	50	1.00
2691218--2691288	24	3.1	24	76	17	78	49	0	2	47	1.16
2691250--2691305	19	3.0	18	70	17	51	44	0	1	53	1.11
2691374--2691427	22	2.6	20	77	13	56	29	7	0	62	1.22
2694511--2694547	3	12.3	3	100	0	74	67	0	0	32	0.91
2695854--2695888	2	17.5	2	87	0	52	42	0	5	51	1.25
2696053--2696077	2	12.5	2	100	0	50	48	0	0	52	1.00
2696120--2696146	2	13.5	2	100	0	54	0	48	0	51	1.00
2699561--2699603	15	2.8	16	79	13	54	55	2	2	39	1.25
2699680--2699724	19	2.3	19	84	7	54	26	2	0	71	0.98
2700687--2700755	23	2.9	23	83	14	79	59	1	0	39	1.06
2700683--2700755	22	3.3	22	81	11	78	58	1	0	39	1.06
2700983--2701012	15	2.0	15	93	0	51	53	16	13	16	1.73
2708418--2708456	16	2.2	19	86	13	57	41	2	0	56	1.13
2708458--2708501	24	1.9	22	81	9	52	52	4	2	40	1.34
2709000--2709024	2	12.5	2	100	0	50	52	0	0	48	1.00
2709886--2709915	2	15.5	2	93	6	53	50	0	0	50	1.00
2716198--2716447	84	3.0	84	87	5	355	23	7	37	32	1.82
2722135--2722159	2	12.5	2	100	0	50	0	48	0	52	1.00
2728608--2728640	3	11.0	3	100	0	66	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2728843--2728871	2	14.5	2	100	0	58	51	0	0	48	1.00
2729772--2730319	273	2.0	273	99	0	1087	37	10	18	34	1.84
2734463--2734563	53	1.9	53	89	4	159	43	1	2	51	1.28
2735011--2735054	3	15.0	3	90	4	72	68	0	2	29	1.02
2736564--2736589	7	3.7	7	100	0	52	57	0	0	42	0.98
2737106--2737136	2	15.5	2	100	0	62	51	0	0	48	1.00
2738029--2738071	2	22.5	2	86	9	63	46	2	0	51	1.13
2739057--2739090	2	17.0	2	88	11	52	0	50	2	47	1.16
2740940--2740979	20	2.0	20	85	0	53	72	0	0	27	0.85
2742854--2742888	2	17.5	2	100	0	70	48	0	0	51	1.00
2743678--2743730	4	13.2	4	91	0	61	45	47	7	0	1.31
2747725--2747806	24	3.4	24	67	18	62	40	0	0	59	0.97
2747724--2747816	22	4.2	22	69	16	68	40	0	0	59	0.98
2747738--2747839	22	4.4	25	75	18	96	43	0	0	56	0.99
2747764--2747839	6	11.3	7	73	24	58	40	0	0	59	0.98
2754307--2754343	8	4.8	8	90	6	58	64	0	0	35	0.94
2756744--2756773	2	15.0	2	100	0	60	50	0	0	50	1.00
2757595--2757638	20	2.2	21	84	8	56	40	0	0	59	0.98
2757585--2757658	17	4.5	17	69	17	57	39	0	0	60	0.97
2757639--2757678	21	1.9	21	90	10	64	40	0	0	60	0.97
2758927--2758997	21	3.4	21	81	13	83	52	1	2	43	1.24
2759056--2759088	17	1.9	17	88	11	50	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2759078--2759120	15	2.6	16	79	17	52	67	0	0	32	0.91
2759087--2759120	15	2.1	17	89	10	54	70	0	0	29	0.87
2759162--2759254	20	4.6	21	76	15	72	59	3	0	37	1.14
2759152--2759219	20	3.3	20	77	15	77	55	1	0	42	1.08
2759152--2759236	9	8.6	9	76	15	71	56	2	0	41	1.12
2764282--2764310	2	14.5	2	100	0	58	48	0	0	51	1.00
2767543--2767673	64	2.0	64	82	5	158	45	0	6	47	1.33
2767587--2767673	32	2.8	32	82	5	106	44	0	6	48	1.29
2770829--2770862	17	1.9	18	88	5	52	38	5	5	50	1.51
2775428--2775463	2	18.0	2	100	0	72	50	0	0	50	1.00

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   31   32