genome.fa.s79.2.7.7.80.10.50.1000.19.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: Scaffold79
Parameters: 2 7 7 80 10 50 1000
Length:  4189514

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   

This is table  19  of  26  ( 3105 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)
2630446--2630500	28	2.0	28	85	3	76	7	14	72	5	1.24
2631389--2631427	18	2.1	19	85	4	53	38	10	0	51	1.36
2633670--2633734	33	2.0	33	96	0	121	29	6	24	40	1.79
2633758--2633791	2	17.0	2	100	0	68	0	50	0	50	1.00
2635083--2635147	33	2.0	33	96	0	121	40	24	6	29	1.79
2637369--2637398	14	2.1	15	93	6	53	23	0	0	76	0.78
2637779--2637825	23	2.0	24	87	4	69	68	0	0	31	0.90
2643570--2643655	17	5.6	16	73	18	58	50	0	0	50	1.00
2643555--2643621	26	2.5	24	81	15	71	49	0	0	50	1.00
2643568--2643620	26	2.1	25	86	10	72	50	0	0	49	1.00
2643643--2643700	21	2.8	21	78	0	62	50	1	0	48	1.11
2643895--2643923	14	2.0	15	93	6	51	37	0	0	62	0.96
2643910--2643997	30	3.0	29	73	15	83	48	0	0	51	1.00
2643939--2643998	21	3.0	20	80	9	68	45	0	0	55	0.99
2643910--2643990	27	2.9	27	78	9	74	48	0	0	51	1.00
2643881--2643997	57	2.1	55	83	12	141	47	0	0	52	1.00
2643965--2644007	21	2.0	21	82	8	52	48	2	0	48	1.14
2644253--2644277	2	12.5	2	100	0	50	48	0	0	52	1.00
2644889--2644934	3	15.7	3	90	4	76	71	0	0	28	0.86
2645880--2645924	21	2.0	22	87	8	65	37	0	0	62	0.96
2645873--2645934	32	1.9	32	84	12	83	40	0	0	59	0.97
2645920--2646034	27	4.0	29	71	17	78	60	0	0	39	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2645925--2646002	24	3.1	26	82	10	92	58	0	1	39	1.06
2645971--2646017	24	2.0	24	82	0	58	59	0	0	40	0.97
2646131--2646159	2	14.5	2	100	0	58	0	48	0	51	1.00
2650537--2650571	18	2.0	18	88	5	54	34	0	25	40	1.56
2650577--2650647	34	2.1	34	82	10	83	38	1	0	60	1.06
2650597--2650666	34	1.9	34	83	13	86	38	2	1	57	1.23
2654498--2654523	2	13.0	2	100	0	52	50	0	0	50	1.00
2655774--2655812	4	9.8	4	94	0	69	28	0	23	48	1.51
2660388--2660415	2	14.0	2	100	0	56	50	0	50	0	1.00
2664413--2664447	2	17.5	2	100	0	70	51	0	48	0	1.00
2672063--2672095	14	2.3	15	94	5	59	51	6	0	42	1.26
2681237--2681382	68	2.1	68	100	0	292	34	6	11	47	1.65
2685350--2685444	46	2.1	46	95	0	172	23	14	33	28	1.94
2694940--2694988	20	2.3	21	82	13	64	0	24	0	75	0.80
2695110--2695172	25	2.6	25	80	12	76	76	0	0	23	0.79
2695116--2695183	18	3.9	17	76	16	68	73	0	0	26	0.83
2695252--2695281	15	2.0	15	93	0	51	0	23	3	73	0.98
2695253--2695310	13	4.7	13	72	18	52	0	32	1	65	1.03
2697487--2697550	6	11.8	6	73	18	52	40	0	0	59	0.97
2697487--2697550	11	6.0	11	75	14	53	40	0	0	59	0.97
2697488--2697578	15	5.7	17	74	13	63	45	0	0	54	0.99
2697492--2697556	21	3.0	22	80	15	73	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)
2697486--2697596	33	3.2	35	79	14	106	46	0	0	52	1.06
2700263--2700289	13	2.1	13	100	0	54	51	0	0	48	1.00
2700685--2700761	30	2.4	32	81	14	97	51	1	1	45	1.17
2711331--2711366	17	2.1	17	94	0	63	41	2	8	47	1.48
2711600--2711648	22	2.1	24	81	11	57	67	2	10	20	1.30
2711782--2711814	13	2.4	14	90	5	50	0	12	3	84	0.72
2711782--2711814	7	4.9	7	88	7	50	0	12	3	84	0.72
2711978--2712053	33	2.3	33	95	0	134	30	2	5	61	1.31
2712120--2712182	21	3.1	20	75	18	60	52	0	1	46	1.10
2712150--2712221	25	2.8	25	74	4	72	51	0	1	47	1.09
2712132--2712200	19	3.5	20	80	13	72	52	0	0	47	1.00
2712337--2712409	34	2.1	35	82	7	87	63	1	0	35	1.04
2714224--2714253	1	30.0	1	93	0	51	0	3	0	96	0.21
2714335--2714372	19	1.9	21	89	10	62	44	0	0	55	0.99
2714374--2714416	23	1.9	21	86	13	59	41	2	0	55	1.12
2714525--2714674	9	15.3	10	67	18	59	60	0	0	38	1.07
2714516--2714578	11	5.4	12	79	12	78	65	1	1	31	1.12
2714516--2714670	5	31.8	5	65	20	62	59	0	0	39	1.07
2714516--2714675	47	3.4	46	75	11	132	59	0	0	39	1.07
2714533--2714668	54	2.5	53	75	15	129	58	0	0	40	1.09
2714563--2714614	22	2.4	22	80	6	61	55	0	0	44	0.99
2714560--2714675	16	7.5	15	72	25	75	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2714867--2714898	5	6.4	5	96	0	55	0	21	0	78	0.76
2715597--2715635	13	3.1	13	85	3	53	43	0	0	56	0.99
2715964--2716035	27	2.7	26	73	14	65	56	6	0	36	1.26
2716039--2716089	23	2.2	23	82	6	59	37	3	3	54	1.37
2717959--2717997	20	2.0	20	90	5	62	58	2	0	38	1.12
2718221--2718268	3	16.0	3	100	0	96	33	0	0	66	0.92
2719193--2719237	3	15.0	3	100	0	90	66	0	0	33	0.92
2719607--2719633	14	1.9	14	100	0	54	70	0	7	22	1.12
2719918--2719959	21	2.0	20	86	13	59	57	0	0	42	0.99
2719917--2719968	22	2.4	21	82	17	63	51	0	0	48	1.00
2722769--2722811	2	21.5	2	100	0	86	51	0	48	0	1.00
2722919--2722947	2	15.0	2	92	7	51	48	0	0	51	1.00
2724494--2724556	21	3.2	20	82	8	76	52	0	0	47	1.00
2724520--2724563	16	2.8	16	78	0	52	47	0	0	52	1.00
2734746--2734784	2	19.5	2	100	0	78	51	48	0	0	1.00
2734991--2735039	24	2.0	26	88	8	75	71	4	0	24	1.03
2734991--2735028	12	3.1	13	81	11	53	76	0	0	23	0.79
2739511--2739558	19	2.3	21	79	10	55	45	0	0	54	0.99
2739524--2739570	21	2.2	21	88	7	69	40	0	0	59	0.97
2739516--2739586	23	3.1	23	76	15	67	42	0	0	57	0.98
2751865--2751889	10	2.5	10	100	0	50	64	20	0	16	1.30
2753305--2753360	25	2.1	27	83	9	71	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)
2753322--2753384	32	1.9	32	87	3	90	42	0	0	57	0.99
2753660--2753723	7	9.1	7	94	0	110	45	15	14	25	1.83
2755802--2755828	2	13.5	2	100	0	54	51	0	48	0	1.00
2756238--2756291	26	2.0	26	85	3	72	59	0	0	40	0.98
2756261--2756292	15	2.0	17	88	11	50	62	0	0	37	0.95
2756664--2756732	16	4.2	16	75	22	56	42	0	2	55	1.15
2756664--2756742	32	2.5	31	77	20	76	43	0	2	54	1.14
2758317--2758355	12	3.2	12	85	3	51	56	0	2	41	1.13
2759654--2760042	81	4.8	81	81	0	397	18	22	17	41	1.91
2763246--2763281	11	3.3	11	96	0	63	47	0	0	52	1.00
2768279--2768318	2	21.0	2	85	10	57	0	52	0	47	1.00
2768543--2768605	27	2.3	27	89	5	83	50	1	0	47	1.10
2770018--2770068	3	17.0	3	88	8	77	1	33	1	62	1.17
2771974--2772004	2	15.5	2	93	0	53	0	51	0	48	1.00
2772275--2772331	29	2.0	28	83	10	71	42	3	0	54	1.17
2773492--2773532	5	7.8	5	84	10	55	56	0	0	43	0.99
2773492--2773532	11	3.9	10	84	9	55	56	0	0	43	0.99
2774028--2774090	27	2.2	29	78	13	69	50	0	0	49	1.00
2778518--2778559	18	2.2	18	87	8	57	42	0	0	57	0.99
2779608--2779643	14	2.5	15	86	4	56	41	0	0	58	0.98
2780435--2780493	26	2.3	25	85	8	82	47	1	0	50	1.11
2780452--2780502	12	4.2	12	75	9	50	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2780451--2780500	26	2.0	26	84	7	68	56	0	0	44	0.99
2781315--2781348	2	17.0	2	100	0	68	50	0	0	50	1.00
2781348--2781373	2	13.0	2	100	0	52	50	0	50	0	1.00
2783588--2783634	2	23.5	2	100	0	94	48	0	0	51	1.00
2785125--2785176	17	2.9	17	76	20	61	40	0	0	59	0.97
2785127--2785181	16	3.2	17	76	20	60	41	0	0	58	0.98
2785127--2785197	36	1.9	37	81	13	85	46	0	0	53	1.00
2786902--2786931	2	15.0	2	100	0	60	50	0	0	50	1.00
2789715--2789745	4	7.8	4	100	0	62	51	22	0	25	1.48
2790699--2791065	194	1.9	194	93	0	626	44	7	11	37	1.68

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