genome.fa.s89.2.7.7.80.10.50.1000.16.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: Scaffold89
Parameters: 2 7 7 80 10 50 1000
Length:  5168001

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   

This is table  16  of  27  ( 3236 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)
2490078--2490115	18	2.1	18	95	0	67	42	0	0	57	0.98
2490166--2490225	23	2.6	23	89	0	84	40	0	0	60	0.97
2492556--2492591	18	2.0	18	88	0	54	44	0	0	55	0.99
2493780--2493898	62	1.9	62	100	0	238	25	5	10	58	1.52
2493791--2493919	62	2.1	61	84	8	163	29	6	10	54	1.58
2495342--2495370	3	10.0	3	92	7	51	0	34	0	65	0.93
2499250--2499290	20	2.0	21	90	9	66	14	7	4	73	1.22
2499288--2499319	3	10.7	3	100	0	64	31	0	0	68	0.90
2502881--2502913	2	16.5	2	100	0	66	48	0	51	0	1.00
2507281--2507368	11	8.1	11	71	16	51	38	3	2	55	1.29
2507340--2507379	21	1.9	21	84	0	53	40	7	5	47	1.54
2509071--2509113	2	21.5	2	100	0	86	51	0	0	48	1.00
2515231--2515273	5	8.6	5	97	0	59	18	0	74	6	1.04
2515228--2515273	15	3.1	15	90	0	65	19	0	71	8	1.11
2516231--2516260	4	7.5	4	100	0	60	23	0	0	76	0.78
2519619--2519645	4	6.8	4	100	0	54	77	0	0	22	0.76
2519767--2519792	2	13.0	2	100	0	52	50	0	0	50	1.00
2525901--2525934	2	17.0	2	100	0	68	50	0	0	50	1.00
2527750--2527788	19	2.1	18	90	4	60	48	0	0	51	1.00
2547505--2547532	2	14.0	2	100	0	56	50	0	0	50	1.00
2552035--2552069	3	11.7	3	100	0	70	65	0	0	34	0.93
2552445--2552523	12	7.1	11	75	18	58	29	0	0	70	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2552433--2552530	35	3.0	32	76	20	105	33	1	0	65	1.00
2552583--2552648	2	37.5	2	71	24	51	45	0	0	54	0.99
2552583--2552648	9	7.5	10	79	19	60	45	0	0	54	0.99
2552583--2552648	26	2.6	27	75	22	70	45	0	0	54	0.99
2552661--2552701	20	2.0	20	85	0	55	43	0	0	56	0.99
2562969--2562994	11	2.4	11	100	0	52	76	0	0	23	0.78
2563430--2563487	21	2.8	20	79	10	71	56	0	0	43	0.99
2565575--2565643	24	2.8	24	72	14	59	50	1	0	47	1.09
2566315--2566356	20	2.1	20	86	8	59	42	0	2	54	1.13
2566380--2566419	19	2.2	19	86	13	57	62	0	0	37	0.95
2566380--2566429	18	2.7	19	81	9	59	56	0	0	44	0.99
2572716--2572760	4	11.2	4	95	0	81	51	24	2	22	1.60
2572758--2572800	2	21.5	2	100	0	86	51	0	0	48	1.00
2579549--2579592	21	2.0	22	95	4	81	54	0	0	45	0.99
2580091--2580126	15	2.4	15	90	0	54	55	2	0	41	1.14
2580232--2580263	16	1.9	17	93	6	57	43	0	0	56	0.99
2580564--2580592	13	2.2	13	100	0	58	48	6	0	44	1.29
2581394--2581419	2	13.0	2	100	0	52	50	0	0	50	1.00
2581898--2581953	25	2.3	25	84	3	69	50	1	3	44	1.29
2586636--2586678	18	2.4	18	80	7	52	51	0	0	48	1.00
2586616--2586688	27	2.9	27	76	8	73	53	0	0	46	1.00
2586642--2586730	43	2.0	46	82	10	114	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2594739--2594781	15	2.9	15	82	6	52	55	0	0	44	0.99
2595530--2595567	17	2.2	17	90	0	58	36	0	2	60	1.11
2596990--2597051	16	3.9	16	77	8	72	45	20	12	20	1.84
2596985--2597058	16	4.6	17	71	18	70	45	20	12	21	1.83
2597093--2597133	20	2.0	20	95	0	73	51	17	0	31	1.46
2597096--2597141	20	2.3	20	84	0	56	54	15	0	30	1.41
2609990--2610024	2	17.5	2	100	0	70	51	0	48	0	1.00
2615886--2615948	22	2.9	21	79	11	65	53	0	0	46	1.00
2615896--2615972	26	3.2	24	77	14	68	57	5	0	37	1.21
2617803--2617838	2	18.5	2	94	5	65	50	0	0	50	1.00
2622116--2622178	32	2.0	31	90	9	101	47	0	0	52	1.00
2622108--2622175	10	6.8	10	73	20	54	45	0	0	54	0.99
2622103--2622192	32	2.9	31	80	16	98	44	1	2	52	1.20
2622584--2622624	19	2.1	20	90	4	66	51	0	0	48	1.00
2628006--2628037	2	16.0	2	100	0	64	0	50	0	50	1.00
2628438--2628487	11	4.5	11	76	16	50	34	0	0	66	0.92
2628427--2628485	19	2.9	19	85	12	66	32	0	0	67	0.91
2628491--2628550	28	2.1	28	87	0	84	45	8	8	38	1.65
2629028--2629076	19	2.6	19	81	12	57	44	0	0	55	0.99
2629568--2629642	32	2.3	33	79	4	80	54	0	2	42	1.14
2629607--2629659	27	2.0	27	88	7	81	56	0	0	43	0.99
2632776--2632818	23	1.9	23	85	4	61	32	2	0	65	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2633116--2633289	94	1.9	94	90	0	276	45	6	4	42	1.51
2633255--2633307	23	2.3	23	78	12	56	52	0	1	45	1.11
2633295--2633327	18	1.9	18	88	11	52	60	0	0	39	0.97
2635456--2635551	36	2.6	36	90	3	138	38	3	14	43	1.61
2638822--2638854	11	3.0	11	95	0	57	60	0	3	36	1.12
2662762--2662907	72	2.0	73	86	4	206	39	19	11	29	1.87
2665430--2665482	16	3.3	16	79	10	63	52	0	0	47	1.00
2665850--2665893	23	2.0	21	83	12	54	65	11	2	20	1.35
2666674--2666786	59	1.9	59	82	5	140	50	7	11	30	1.65
2667520--2667571	8	6.4	8	81	16	54	0	15	0	84	0.62
2667519--2667559	9	4.3	9	88	11	64	0	12	0	87	0.53
2667528--2667575	12	3.9	12	79	20	55	0	18	0	81	0.70
2667518--2667571	20	2.7	19	91	8	81	0	14	0	85	0.61
2667658--2667713	29	2.0	28	86	10	78	51	0	1	46	1.11
2668805--2668847	23	2.0	21	81	9	50	53	0	0	46	1.00
2672582--2672674	32	2.8	32	79	12	82	63	1	1	34	1.09
2672663--2672716	22	2.5	22	82	8	58	53	0	0	46	1.00
2674355--2674393	2	19.5	2	100	0	78	48	0	0	51	1.00
2676134--2676175	21	2.0	21	90	4	68	38	9	7	45	1.64
2681334--2681367	13	2.7	13	90	4	52	91	0	8	0	0.43
2683975--2684028	27	2.0	27	82	10	65	55	0	0	44	0.99
2692775--2692815	21	1.9	22	90	5	66	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2696293--2696358	33	1.9	34	84	6	89	60	0	0	39	0.97
2696293--2696362	35	2.0	35	85	0	95	61	0	0	38	0.96
2702086--2702125	19	2.1	19	85	4	53	47	0	0	52	1.00
2702139--2702218	13	6.3	13	75	13	51	60	1	0	38	1.05
2702164--2702207	21	2.1	21	83	8	54	63	2	0	34	1.07
2706981--2707005	4	6.2	4	100	0	50	24	0	0	76	0.80
2707079--2707136	23	2.5	23	83	5	73	41	0	1	56	1.09
2708214--2708248	18	1.9	18	88	11	54	40	0	0	60	0.97
2708570--2708661	17	5.3	17	67	24	50	59	1	0	39	1.04
2708577--2708703	8	16.4	8	66	25	60	59	1	0	38	1.07
2708618--2708704	19	4.6	19	68	26	60	60	2	0	36	1.09
2708608--2708709	39	2.6	40	75	20	99	60	1	0	37	1.08
2709469--2709560	37	2.4	39	80	10	109	66	0	0	33	0.92
2709524--2709598	23	3.1	23	75	14	71	64	0	0	36	0.94
2709545--2709620	27	2.8	28	80	15	79	57	0	0	42	0.98
2710058--2710124	26	2.6	26	76	9	66	58	1	1	38	1.17
2710857--2710903	19	2.5	19	83	12	62	59	0	0	40	0.97
2710865--2710904	19	2.1	19	90	9	64	62	0	0	37	0.95
2710909--2710941	11	2.8	12	81	9	50	54	0	0	45	0.99
2715334--2715388	26	2.1	26	100	0	110	29	3	21	45	1.69
2715812--2715844	14	2.3	15	89	5	50	24	0	9	66	1.20
2722073--2722115	12	3.6	12	78	12	52	41	0	9	48	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2723017--2723062	23	2.0	23	87	8	67	65	0	0	34	0.93
2724520--2724557	3	12.7	3	94	0	67	28	0	2	68	1.03
2724853--2724886	17	2.0	17	94	0	59	70	2	0	26	1.01
2724854--2724894	17	2.4	17	87	4	55	70	2	2	24	1.11
2725132--2725176	18	2.5	18	82	7	56	51	4	0	44	1.21
2725162--2725204	20	2.2	20	88	8	63	41	2	0	55	1.12
2725270--2725307	3	12.7	3	100	0	76	68	0	0	31	0.90
2726718--2726771	25	2.1	26	83	10	67	48	0	1	50	1.11
2726813--2726870	30	1.9	30	82	6	73	53	1	10	34	1.45
2727223--2727265	21	2.0	21	81	0	50	48	2	0	48	1.14

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