genome.fa.s220.2.7.7.80.10.50.1000.12.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: Scaffold220
Parameters: 2 7 7 80 10 50 1000
Length:  3999181

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  12  of  19  ( 2201 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)
2560363--2560414	17	3.1	17	74	20	56	55	0	0	44	0.99
2560608--2560653	18	2.6	18	82	6	58	45	6	2	45	1.41
2560659--2560713	3	17.7	3	80	17	60	65	0	1	32	1.03
2564361--2564414	13	4.4	13	75	13	51	53	0	0	46	1.00
2564349--2564413	30	2.1	31	83	11	80	55	0	0	44	0.99
2568035--2568096	13	4.9	13	75	18	60	35	1	0	62	1.05
2568463--2568526	3	21.3	3	93	0	110	31	0	3	65	1.08
2569455--2569509	14	4.1	14	74	4	51	43	0	0	56	0.99
2569420--2569518	38	2.6	38	78	12	112	47	0	0	52	1.00
2570133--2570157	2	12.5	2	100	0	50	52	0	0	48	1.00
2571623--2571721	38	2.6	38	80	6	94	45	1	2	51	1.19
2571696--2571725	15	1.9	16	93	6	53	50	0	3	46	1.18
2571711--2571745	17	1.9	19	88	11	56	51	2	5	40	1.40
2575072--2575125	16	3.3	15	78	17	54	64	1	1	31	1.14
2581150--2581180	12	2.7	12	95	5	55	19	16	25	38	1.92
2581177--2581228	12	4.0	12	74	16	50	44	0	9	46	1.36
2585898--2585923	12	2.2	12	100	0	52	15	34	26	23	1.94
2585926--2585976	12	3.9	12	78	16	57	43	5	11	39	1.66
2585932--2585988	27	2.1	27	90	0	87	40	5	19	35	1.74
2587036--2587077	22	1.9	22	90	9	68	52	0	2	45	1.13
2587061--2587115	22	2.5	22	79	11	58	56	0	0	43	0.99
2587065--2587141	26	2.9	25	75	14	75	57	0	0	42	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2588492--2588522	3	10.3	3	100	0	62	35	0	0	64	0.94
2588710--2588739	3	10.0	3	100	0	60	33	0	0	66	0.92
2588853--2588935	25	3.2	25	70	16	71	56	0	0	43	0.99
2588868--2588957	18	5.2	18	66	20	57	60	0	0	40	0.97
2588861--2588943	27	3.2	27	74	15	77	61	0	0	38	0.96
2588861--2588908	9	5.3	9	78	9	53	58	0	0	41	0.98
2589117--2589157	15	2.7	16	77	7	50	65	0	19	14	1.26
2592058--2592105	16	3.0	15	82	11	51	60	2	0	37	1.09
2601005--2601044	17	2.4	17	91	0	62	37	5	2	55	1.35
2602195--2602241	24	2.0	24	100	0	94	21	21	19	38	1.94
2604582--2604610	13	2.3	13	94	5	51	37	0	0	62	0.96
2604647--2604688	22	1.9	22	90	0	66	45	0	0	54	0.99
2605452--2605481	2	15.0	2	100	0	60	50	0	0	50	1.00
2610865--2610921	24	2.4	24	91	5	89	26	12	29	31	1.92
2613260--2613320	32	1.9	32	96	0	113	49	6	11	32	1.65
2613403--2613434	16	2.0	16	100	0	64	25	12	25	37	1.91
2616506--2616569	25	2.4	25	84	12	74	40	4	0	54	1.21
2617066--2617118	18	3.1	17	73	7	54	67	0	7	24	1.16
2618181--2618227	19	2.4	21	73	23	57	46	0	0	53	1.00
2618164--2618230	14	5.1	13	72	18	50	50	0	0	49	1.00
2618525--2618578	25	2.2	25	86	6	74	35	9	7	48	1.63
2618601--2618650	17	2.9	17	87	3	73	56	4	0	40	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2618675--2618709	17	1.9	17	88	11	52	51	0	0	48	1.00
2618825--2618859	14	2.5	14	95	0	61	42	2	0	54	1.15
2618852--2618878	7	3.9	7	100	0	54	55	0	0	44	0.99
2624125--2624189	32	2.0	33	90	3	105	46	0	0	53	1.00
2624115--2624245	18	7.5	17	71	20	76	41	0	0	58	1.04
2624120--2624241	32	4.2	27	75	18	93	41	0	0	57	1.04
2624090--2624237	19	8.2	18	68	23	66	41	0	0	58	1.03
2635231--2635262	3	10.7	3	100	0	64	31	0	0	68	0.90
2635363--2635420	28	2.2	28	85	11	79	44	0	0	55	0.99
2635370--2635428	28	2.2	25	80	14	64	47	0	0	52	1.00
2643167--2643216	20	2.6	19	78	6	57	48	0	0	52	1.00
2644708--2644737	13	2.3	13	100	0	60	53	0	0	46	1.00
2644757--2644798	21	2.0	21	86	9	59	54	0	4	40	1.21
2644723--2644799	24	3.3	24	68	24	58	53	0	3	42	1.19
2644904--2644943	18	2.2	18	90	0	62	40	0	10	50	1.36
2645109--2645229	2	65.0	2	66	19	57	43	2	1	52	1.24
2648710--2648766	8	7.2	8	73	23	50	47	0	0	52	1.00
2648710--2648771	16	3.9	16	79	12	65	48	0	0	51	1.00
2655217--2655246	12	2.5	12	94	0	51	33	26	23	16	1.96
2655766--2655801	17	2.1	17	89	0	54	52	0	0	47	1.00
2655769--2655819	19	2.6	20	81	9	61	49	0	1	49	1.12
2656091--2656163	16	4.1	17	77	13	67	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)
2656123--2656165	9	5.0	9	86	11	54	39	0	0	60	0.97
2656958--2657009	24	2.2	24	82	6	61	50	0	0	50	1.00
2657099--2657147	20	2.5	21	77	12	59	42	0	0	57	0.99
2657164--2657225	21	3.0	21	75	15	67	38	0	1	59	1.07
2658107--2658133	2	13.5	2	100	0	54	51	0	0	48	1.00
2658941--2658970	2	14.5	2	93	6	51	50	0	3	46	1.18
2659215--2659261	22	2.1	22	84	7	60	51	0	0	48	1.00
2662752--2662800	2	24.0	2	79	4	53	46	2	2	48	1.25
2663740--2663792	27	2.0	27	85	7	72	35	11	16	35	1.85
2664045--2664091	3	15.3	3	95	4	85	65	0	0	34	0.93
2667455--2667496	16	2.6	16	88	0	57	16	9	26	47	1.77
2668080--2668111	16	1.9	17	93	6	57	59	0	0	40	0.97
2670104--2670166	21	3.0	21	80	15	67	44	0	1	53	1.10
2670149--2670249	47	2.1	50	87	5	145	38	0	0	60	1.04
2670280--2670308	14	2.0	15	93	6	51	34	0	3	62	1.12
2670348--2670396	19	2.5	19	90	3	80	53	0	0	46	1.00
2670502--2670529	2	14.0	2	100	0	56	50	0	0	50	1.00
2675273--2675308	17	2.2	17	95	5	65	33	0	0	66	0.92
2675511--2675552	11	3.9	11	78	6	50	30	0	2	66	1.04
2678543--2678823	138	2.0	139	96	0	519	29	14	18	37	1.91
2685821--2685850	7	4.1	7	95	4	51	83	0	0	16	0.65
2685848--2685876	2	14.5	2	100	0	58	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)
2696661--2696719	28	2.1	28	81	12	68	59	1	0	38	1.08
2699975--2700114	55	2.5	55	83	4	165	41	19	13	25	1.88
2701083--2701136	21	2.6	21	82	5	65	16	16	14	51	1.76
2709151--2709175	13	1.9	13	100	0	50	64	4	24	8	1.38
2709678--2709719	15	2.8	15	82	13	59	57	0	0	42	0.99
2710224--2710261	11	3.6	10	89	10	58	0	13	0	86	0.56
2710399--2710431	16	2.0	17	88	5	50	27	0	3	69	1.03
2710654--2710687	11	2.9	12	82	8	52	73	2	0	23	0.97
2710887--2711035	14	9.2	15	68	23	54	61	2	1	34	1.16
2711041--2711099	4	15.8	4	72	13	54	1	20	1	76	0.96
2711036--2711092	15	3.9	15	79	6	64	1	19	1	77	0.95
2711040--2711101	29	2.2	27	85	8	79	1	19	1	77	0.94
2711038--2711101	19	3.3	18	77	16	65	1	18	1	78	0.92
2712682--2712724	19	2.1	21	87	8	63	44	0	0	55	0.99
2712850--2712874	3	8.3	3	100	0	50	32	0	0	68	0.90
2713746--2713774	3	10.0	3	92	7	51	31	0	0	68	0.89
2722485--2722509	12	2.1	12	100	0	50	68	0	16	16	1.22
2722475--2722525	22	2.4	21	80	3	57	74	0	17	7	1.05
2729507--2729531	1	25.0	1	100	0	50	100	0	0	0	0.00
2730832--2730874	21	2.0	21	86	8	61	20	27	0	51	1.48
2730842--2730887	21	2.2	21	84	0	56	28	21	0	50	1.49
2731114--2731153	15	2.7	15	88	7	55	32	0	25	42	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2736538--2736786	75	3.3	75	85	2	336	29	8	21	40	1.82
2736597--2736713	39	3.1	39	65	12	98	24	9	23	42	1.83
2738613--2738699	24	3.7	23	67	18	63	54	1	1	43	1.15
2738600--2738717	41	2.9	38	76	18	105	56	0	1	40	1.15
2738648--2738696	24	2.0	24	84	7	64	53	0	2	44	1.12
2745953--2745978	7	3.7	7	100	0	52	11	0	42	46	1.40
2749429--2749489	2	30.5	2	81	6	70	45	1	0	52	1.10
2750511--2750552	9	4.8	9	85	2	59	47	0	0	52	1.00
2751358--2751397	16	2.4	16	87	4	53	70	2	0	27	1.01
2751412--2751452	20	2.1	20	86	4	57	46	0	0	53	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19