genome.fa.s220.2.7.7.80.10.50.1000.13.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  13  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)
2752256--2752296	21	2.0	21	95	0	73	56	0	2	41	1.13
2752290--2752370	17	4.5	17	72	17	58	60	0	1	38	1.05
2752259--2752370	34	3.3	33	76	8	102	58	0	1	39	1.08
2752285--2752370	18	4.7	19	68	18	58	60	0	1	38	1.04
2752450--2752474	13	1.9	13	100	0	50	0	92	0	8	0.40
2752938--2752971	16	2.1	16	94	0	59	32	2	0	64	1.08
2752996--2753046	13	4.2	13	80	12	54	54	0	0	45	0.99
2753544--2753579	14	2.7	13	91	4	54	63	0	0	36	0.94
2753562--2753604	22	2.0	22	85	0	59	58	0	0	41	0.98
2760295--2760320	12	2.2	12	100	0	52	50	15	0	34	1.45
2765388--2765418	2	15.5	2	100	0	62	51	0	0	48	1.00
2770010--2770050	14	2.9	15	78	7	50	48	0	0	51	1.00
2776728--2776782	17	3.2	17	72	12	58	47	0	0	52	1.00
2776787--2776847	25	2.5	25	81	2	61	57	1	0	40	1.08
2776970--2777004	10	3.6	10	84	7	54	31	0	0	68	0.90
2776970--2777011	16	2.4	19	88	11	63	30	0	0	69	0.89
2779119--2779162	15	2.9	15	83	6	54	52	2	0	45	1.13
2779736--2779790	2	29.0	2	76	10	53	52	1	0	45	1.11
2779733--2779790	16	3.6	16	88	2	71	53	1	0	44	1.10
2785942--2785983	2	21.0	2	100	0	84	50	0	0	50	1.00
2787928--2787967	15	2.5	16	88	8	55	57	0	0	42	0.98
2787928--2787970	16	2.6	17	85	10	63	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2788353--2788405	23	2.3	23	71	12	54	62	9	7	20	1.50
2788676--2788737	23	2.6	25	75	14	67	66	14	0	19	1.26
2789183--2789294	59	1.9	59	83	5	147	50	6	12	31	1.65
2791029--2791058	2	15.0	2	100	0	60	0	50	0	50	1.00
2793133--2793173	16	2.6	16	88	0	55	17	9	29	43	1.80
2793228--2793256	2	14.5	2	100	0	58	48	0	0	51	1.00
2799076--2799107	3	10.7	3	100	0	64	31	0	0	68	0.90
2805306--2805362	17	2.9	21	82	17	61	68	3	0	28	1.06
2805330--2805369	10	4.3	10	87	12	59	80	0	0	20	0.72
2805330--2805371	9	4.7	9	78	21	52	78	0	0	21	0.75
2805299--2805372	18	4.1	17	76	23	71	70	2	0	27	1.01
2806967--2807002	15	2.5	15	90	4	56	83	0	13	2	0.76
2806962--2807005	22	1.9	22	86	9	61	81	0	15	2	0.78
2808957--2808997	17	2.6	16	84	7	57	9	12	0	78	0.98
2811293--2811333	2	20.5	2	94	0	73	0	46	0	53	1.00
2816538--2816602	11	5.4	12	73	16	55	41	0	0	58	0.98
2819854--2819886	6	5.5	6	92	0	57	51	15	15	18	1.77
2822111--2822162	20	2.6	19	77	19	61	65	0	1	32	1.04
2822128--2822234	8	13.4	8	66	26	50	56	0	0	43	0.99
2822128--2822234	18	6.7	16	70	23	50	56	0	0	43	0.99
2822141--2822236	27	3.7	27	77	14	87	55	0	0	44	0.99
2822141--2822233	25	3.6	25	81	10	91	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2826055--2826085	2	16.0	2	93	6	55	51	0	0	48	1.00
2834755--2834790	2	18.0	2	88	0	54	47	2	2	47	1.31
2835248--2835295	21	2.2	22	85	14	64	33	4	0	62	1.14
2835238--2835297	22	2.8	22	78	12	70	35	3	0	61	1.12
2836899--2836968	34	2.1	34	88	0	104	24	28	35	11	1.90
2840213--2840540	58	5.6	58	81	5	349	16	17	33	32	1.92
2840273--2840541	117	2.3	115	86	5	380	16	18	33	31	1.93
2846445--2846483	20	2.0	20	89	0	60	30	15	10	43	1.80
2847253--2847310	29	2.0	29	86	6	82	55	3	0	41	1.17
2851015--2851143	52	2.5	52	88	0	195	30	17	16	36	1.91
2851015--2851163	52	2.9	52	86	2	183	31	16	16	35	1.91
2851152--2851176	13	1.9	13	100	0	50	36	16	16	32	1.90
2861989--2862016	2	14.0	2	100	0	56	50	0	0	50	1.00
2885448--2885524	26	3.0	26	88	1	120	54	5	22	18	1.63
2891508--2891553	22	2.1	22	100	0	92	41	13	4	41	1.63
2894501--2894535	3	11.7	3	87	0	52	25	0	0	74	0.82
2907453--2907487	15	2.3	15	95	0	61	42	0	28	28	1.56
2910796--2911176	190	2.0	190	98	0	735	41	14	17	26	1.88
2912235--2912283	13	3.6	14	75	8	57	34	12	12	40	1.80
2914722--2914754	13	2.5	13	95	0	57	30	15	12	42	1.83
2914707--2914786	33	2.4	33	91	0	133	32	12	12	42	1.80
2914774--2914826	20	2.7	19	79	2	61	33	16	13	35	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2915883--2915932	11	4.7	11	70	9	50	68	0	0	32	0.90
2915882--2915934	16	3.4	16	78	5	72	69	0	0	30	0.88
2915874--2915936	31	2.0	32	93	3	110	65	0	1	33	1.03
2918277--2918306	3	10.0	3	92	0	51	70	0	30	0	0.88
2920311--2920356	3	15.3	3	83	0	56	36	2	36	23	1.68
2922088--2922132	11	4.0	12	75	16	51	42	0	0	57	0.98
2922092--2922126	18	1.9	18	88	0	52	42	0	0	57	0.99
2922083--2922190	33	3.0	34	73	18	103	37	0	0	61	1.09
2922527--2922709	50	3.6	50	90	0	276	27	19	20	32	1.97
2927136--2927303	50	3.4	50	90	3	257	29	19	19	31	1.97
2927742--2927802	31	2.0	29	81	6	68	32	0	1	65	1.02
2927750--2927820	31	2.3	31	80	11	83	32	0	1	66	1.01
2927810--2927862	18	3.2	18	68	29	53	39	0	0	60	0.97
2927787--2927862	32	2.3	35	86	11	106	40	0	0	59	0.98
2927813--2927859	14	3.0	15	77	17	51	40	0	0	59	0.97
2927815--2927892	32	2.4	32	80	6	77	43	3	2	50	1.34
2928322--2928382	29	2.2	25	83	13	68	50	0	1	47	1.10
2928322--2928377	27	2.1	26	81	15	62	51	0	1	46	1.11
2928661--2928686	3	8.7	3	100	0	52	65	0	0	34	0.93
2928685--2928719	3	11.7	3	100	0	70	34	0	0	65	0.93
2931608--2931659	23	2.1	23	86	13	68	42	1	1	53	1.23
2931628--2931661	17	2.0	17	100	0	68	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2932585--2932622	11	3.5	11	79	13	51	63	0	0	36	0.95
2933188--2933248	14	4.2	14	74	15	52	37	0	0	62	0.96
2933165--2933291	68	1.9	66	81	12	152	40	2	0	56	1.12
2933563--2933607	2	23.0	2	86	4	65	44	0	4	51	1.21
2934091--2934169	30	3.0	26	76	20	83	46	0	1	51	1.08
2935712--2935749	20	1.9	20	88	0	58	47	0	0	52	1.00
2936219--2936288	28	2.4	29	73	4	70	50	1	0	48	1.09
2936977--2937021	22	2.0	23	82	4	56	57	0	0	42	0.98
2937447--2937487	3	13.7	3	100	0	82	68	0	0	31	0.90
2939157--2939209	21	2.8	19	75	13	56	35	0	3	60	1.15
2941564--2941611	24	2.0	24	87	0	69	64	0	0	35	0.94
2941604--2941656	18	2.9	17	83	8	52	54	1	0	43	1.11
2941560--2941660	24	4.0	25	69	23	61	58	0	0	40	1.05
2941733--2941770	15	2.5	15	95	4	67	44	0	0	55	0.99
2943409--2943456	14	3.2	15	77	19	55	43	0	0	56	0.99
2950345--2950380	16	2.3	16	90	4	56	41	0	5	52	1.24
2954191--2954254	2	33.5	2	80	9	62	51	3	0	45	1.17
2954183--2954288	23	4.4	25	70	10	87	51	2	0	45	1.15
2956566--2956596	6	5.2	6	100	0	62	64	19	0	16	1.29
2958969--2959057	44	2.0	45	84	8	119	40	8	19	31	1.82
2968295--2968322	4	7.0	4	100	0	56	0	25	0	75	0.81
2968450--2968492	15	2.9	16	83	13	56	51	0	2	46	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2971773--2971807	18	1.9	18	94	0	61	65	2	0	31	1.07
2973249--2973273	11	2.3	11	100	0	50	24	24	0	52	1.48
2973765--2973825	24	2.7	23	82	7	79	47	0	0	52	1.00
2973773--2973825	24	2.2	24	90	3	81	49	0	0	50	1.00
2981805--2981838	12	2.8	12	90	0	50	67	5	0	26	1.13
2983181--2983216	2	18.0	2	100	0	72	50	0	0	50	1.00
2985235--2985279	5	9.0	5	87	0	63	44	33	22	0	1.53
2988546--2988581	17	2.1	18	94	5	65	52	0	0	47	1.00
2988768--2988793	2	13.0	2	100	0	52	50	0	0	50	1.00
2991444--2991509	19	3.6	18	78	15	57	43	0	0	56	0.99

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