genome.fa.s117.2.7.7.80.10.50.1000.16.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: Scaffold117
Parameters: 2 7 7 80 10 50 1000
Length:  3231771

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

This is table  16  of  18  ( 2101 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)
2646670--2646740	32	2.2	32	82	2	81	52	2	7	38	1.44
2646847--2647449	204	2.9	205	92	3	940	36	8	12	41	1.74
2647677--2647715	19	2.1	19	85	0	51	33	0	0	66	0.92
2648873--2648908	18	1.9	19	94	5	65	47	13	5	33	1.67
2649065--2649113	19	2.4	21	80	10	57	44	0	0	55	0.99
2651211--2651250	3	13.3	3	100	0	80	32	0	0	67	0.91
2651545--2651628	15	5.8	15	74	10	68	33	4	1	60	1.25
2651545--2651602	29	2.0	29	86	6	82	32	1	0	65	1.03
2652677--2652726	15	3.5	15	76	15	52	42	0	2	56	1.11
2653138--2653197	22	2.6	25	79	15	83	48	0	0	51	1.00
2658985--2659028	3	14.7	3	100	0	88	31	0	0	68	0.90
2661601--2661642	16	2.9	14	83	13	57	66	0	0	33	0.92
2662334--2662393	24	2.4	25	75	5	59	30	3	0	66	1.07
2663880--2663932	18	2.9	18	77	0	52	54	3	37	3	1.36
2663861--2663938	30	2.6	30	84	8	88	53	2	37	6	1.40
2664595--2664632	2	19.0	2	100	0	76	50	0	0	50	1.00
2664409--2664845	223	2.0	223	99	0	865	32	10	16	41	1.81
2664818--2664845	2	14.0	2	100	0	56	50	0	0	50	1.00
2673806--2673840	3	11.7	3	100	0	70	0	0	34	65	0.93
2674921--2674975	22	2.5	22	85	8	67	45	0	0	54	0.99
2674932--2674980	7	6.9	7	80	13	55	44	0	0	55	0.99
2674924--2674986	29	2.1	30	85	2	83	46	1	0	52	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2674933--2674977	15	3.1	15	81	12	58	46	0	0	53	1.00
2679608--2679658	15	3.3	15	78	13	59	54	0	0	45	0.99
2679621--2679674	22	2.5	20	82	8	63	62	0	0	37	0.95
2679614--2679695	30	2.9	27	78	20	78	62	0	0	37	0.96
2679650--2679717	15	4.5	15	72	20	52	60	0	0	39	0.97
2679696--2679746	19	2.7	19	82	8	61	41	0	0	58	0.98
2679878--2679967	43	2.1	43	89	4	137	38	5	14	41	1.69
2680300--2680418	57	2.1	57	88	0	175	25	26	19	29	1.98
2684462--2684520	2	29.5	2	96	0	109	50	0	49	0	1.00
2686504--2686543	2	20.0	2	100	0	80	50	0	0	50	1.00
2686538--2686572	13	2.6	14	90	4	54	42	14	0	42	1.45
2686585--2686613	2	14.5	2	100	0	58	51	0	0	48	1.00
2690394--2690432	20	2.0	20	85	9	55	48	0	0	51	1.00
2690424--2690488	12	5.4	12	71	12	53	52	0	0	47	1.00
2690863--2690917	22	2.6	21	86	11	76	54	1	0	43	1.10
2692000--2692024	2	12.5	2	100	0	50	52	0	0	48	1.00
2694910--2694950	21	2.1	19	86	9	55	46	2	0	51	1.14
2695021--2695060	20	2.0	20	85	0	53	57	0	0	42	0.98
2695296--2695328	3	11.0	3	100	0	66	66	0	0	33	0.92
2695536--2695570	11	2.9	12	87	12	54	68	0	14	17	1.21
2696454--2696499	19	2.4	19	82	10	58	50	0	0	50	1.00
2699372--2699409	19	2.0	19	94	0	67	31	7	10	50	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2700038--2700096	10	6.3	9	75	16	50	66	3	0	30	1.08
2700062--2700117	16	3.6	15	85	7	76	58	5	0	35	1.21
2700557--2700584	4	7.0	4	100	0	56	75	0	25	0	0.81
2700997--2701085	32	2.8	32	76	8	90	47	0	0	52	1.00
2705541--2705593	16	3.2	16	74	10	52	22	0	3	73	0.99
2708486--2708531	22	2.1	21	81	18	51	45	4	6	43	1.49
2708967--2709004	3	12.7	3	100	0	76	68	0	0	31	0.90
2712774--2712804	2	15.5	2	100	0	62	48	0	0	51	1.00
2713005--2713057	18	2.8	18	72	16	54	32	1	3	62	1.24
2713011--2713063	18	2.8	19	80	11	65	33	1	3	60	1.26
2713253--2713291	20	2.0	20	89	0	60	56	2	7	33	1.41
2733093--2733127	16	2.2	16	100	0	70	28	37	8	25	1.85
2734415--2734452	2	19.0	2	100	0	76	50	0	50	0	1.00
2736377--2736410	7	4.7	7	96	3	59	58	0	0	41	0.98
2736370--2736411	14	3.0	13	86	13	57	59	0	0	40	0.97
2736944--2737030	44	2.0	44	95	0	156	33	6	5	54	1.51
2737837--2737888	26	2.0	25	82	10	61	55	1	0	42	1.10
2737901--2737961	16	4.0	16	75	20	51	55	0	0	44	0.99
2738499--2738542	20	2.2	20	88	8	63	34	0	6	59	1.24
2738560--2738592	16	1.9	17	88	11	50	51	0	3	45	1.16
2742041--2742079	17	2.4	16	91	8	69	38	0	0	61	0.96
2742079--2742119	3	14.0	3	89	5	66	31	2	0	65	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2742424--2742449	2	13.0	2	100	0	52	50	0	0	50	1.00
2742875--2742943	30	2.3	31	85	9	90	37	10	2	49	1.52
2743829--2743865	18	2.0	19	89	5	58	56	10	5	27	1.55
2744599--2744658	31	1.9	31	93	0	102	31	15	13	40	1.85
2747252--2747300	22	2.2	22	82	7	64	44	0	0	55	0.99
2747258--2747299	22	1.9	22	90	9	68	42	0	0	57	0.99
2747814--2747846	15	2.4	14	90	10	50	42	0	0	57	0.98
2763628--2763660	16	2.0	17	88	5	50	45	0	9	45	1.35
2765230--2765285	2	28.0	2	100	0	112	50	0	0	50	1.00
2766707--2766790	39	2.1	42	86	6	120	47	0	0	52	1.00
2766745--2766798	15	3.2	18	75	17	62	48	0	0	51	1.00
2766707--2766896	70	2.6	74	75	12	205	44	1	1	52	1.17
2766872--2766951	23	3.8	20	69	24	65	36	3	0	60	1.15
2767363--2767391	9	3.3	9	90	9	51	31	0	0	68	0.89
2768015--2768039	2	12.5	2	100	0	50	52	0	48	0	1.00
2769682--2769742	31	1.9	31	86	3	86	26	8	13	52	1.67
2770298--2770359	23	2.7	22	75	9	61	43	0	0	56	0.99
2770331--2770389	11	5.4	11	70	22	52	45	0	0	54	0.99
2770351--2770415	21	3.1	21	75	6	69	49	0	0	50	1.00
2770356--2770416	20	3.0	20	71	7	59	47	0	0	52	1.00
2770332--2770415	42	2.0	44	86	9	120	46	0	0	53	1.00
2770856--2770896	2	20.5	2	100	0	82	51	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2773532--2773556	1	25.0	1	100	0	50	0	100	0	0	0.00
2778650--2778682	2	16.5	2	100	0	66	48	0	0	51	1.00
2781155--2781186	2	16.0	2	100	0	64	50	0	0	50	1.00
2782310--2782339	2	15.0	2	92	0	51	46	0	3	50	1.18
2784609--2784658	25	2.0	25	96	0	91	44	10	0	46	1.37
2785976--2786013	2	19.0	2	100	0	76	50	0	0	50	1.00
2788654--2788756	26	4.0	26	73	9	68	23	4	22	49	1.69
2788660--2788738	26	2.9	26	79	5	86	24	3	21	50	1.65
2788655--2788758	24	4.1	24	74	16	75	23	5	22	49	1.71
2788713--2788767	24	2.3	24	81	3	58	25	5	21	47	1.72
2789918--2789964	21	2.2	21	96	0	85	29	14	27	27	1.96
2795255--2795282	14	2.0	14	100	0	56	57	14	7	21	1.61
2800641--2800825	34	5.5	34	87	3	257	40	26	7	25	1.82
2804890--2804952	19	3.3	19	90	0	90	34	19	17	28	1.94
2805258--2805444	34	5.5	34	87	3	261	39	26	8	25	1.84
2805258--2805444	102	1.8	101	93	1	320	39	26	8	25	1.84
2817893--2817959	1	67.0	1	78	0	62	88	4	7	0	0.64
2817893--2817959	16	4.1	16	80	5	80	88	4	7	0	0.64
2817891--2817956	32	2.0	34	94	5	118	84	4	10	0	0.75
2820427--2820473	23	2.0	23	100	0	94	36	12	4	46	1.62
2821134--2821172	2	19.5	2	100	0	78	0	48	0	51	1.00
2821479--2821531	20	2.5	22	79	17	67	62	0	5	32	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2825710--2825766	11	4.9	11	75	12	60	66	0	0	33	0.92
2825735--2825800	31	2.2	30	88	2	96	62	0	0	37	0.96
2826438--2826475	19	2.0	20	89	5	60	60	0	2	36	1.11
2826743--2826804	23	2.7	22	79	16	63	58	0	3	38	1.15
2826972--2827003	2	16.0	2	100	0	64	50	0	0	50	1.00
2827610--2827638	13	2.2	13	100	0	58	27	24	13	34	1.93
2827892--2827937	24	1.9	24	95	0	83	47	23	8	19	1.77
2827901--2827996	27	3.7	27	84	4	108	45	21	11	20	1.83
2831613--2831973	185	2.0	185	98	0	695	29	21	15	34	1.94
2832154--2832188	17	2.1	17	100	0	70	31	40	11	17	1.85

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