genome.fa.s57.2.7.7.80.10.50.1000.20.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: Scaffold57
Parameters: 2 7 7 80 10 50 1000
Length:  4071704

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  20  of  27  ( 3137 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)
2640998--2641079	42	2.0	42	82	4	103	48	1	1	48	1.17
2641878--2641920	14	3.0	15	86	10	54	67	2	0	30	1.03
2642363--2642435	2	36.5	2	94	0	128	46	2	0	50	1.15
2645997--2646036	14	2.9	14	88	3	64	47	0	0	52	1.00
2647777--2647808	2	16.0	2	93	0	55	50	3	0	46	1.17
2648732--2648757	4	6.5	4	100	0	52	26	0	23	50	1.50
2649065--2649098	16	2.1	16	88	0	50	41	0	0	58	0.98
2649609--2649647	19	2.1	18	95	4	69	51	0	0	48	1.00
2650690--2650726	2	18.5	2	88	0	56	51	5	0	43	1.24
2650690--2650722	12	2.8	12	100	0	66	51	6	0	42	1.26
2656644--2656682	17	2.2	18	86	4	53	35	10	2	51	1.50
2657594--2657654	8	7.0	9	80	14	65	65	0	0	34	0.93
2657602--2657653	25	2.1	25	96	0	95	63	0	0	36	0.95
2657798--2657846	16	2.9	17	75	22	57	40	0	0	59	0.98
2657798--2657848	18	2.9	18	83	16	63	39	0	0	60	0.97
2657819--2657905	40	2.2	39	80	12	97	36	1	0	62	1.03
2657854--2657912	22	2.6	22	76	12	57	40	1	0	57	1.09
2660066--2660091	2	13.0	2	100	0	52	50	0	0	50	1.00
2661347--2661389	18	2.5	17	80	20	54	41	2	0	55	1.12
2661379--2661447	30	2.3	31	82	2	77	50	0	1	47	1.09
2662003--2662046	21	2.2	19	88	8	61	34	0	4	61	1.16
2662477--2662519	16	2.7	17	82	13	56	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2662495--2662539	15	3.1	15	83	6	56	48	0	0	51	1.00
2662487--2662537	25	2.1	25	85	3	68	50	0	0	49	1.00
2664389--2664417	9	3.3	9	95	4	51	55	0	0	44	0.99
2664388--2664416	13	2.1	14	93	6	51	58	0	0	41	0.98
2683886--2683921	17	2.2	16	90	5	54	52	0	2	44	1.15
2684486--2684624	16	9.4	16	71	15	77	46	3	0	48	1.24
2684494--2684589	15	6.4	15	77	20	71	48	3	0	47	1.17
2688286--2688313	2	14.0	2	100	0	56	50	50	0	0	1.00
2688313--2688346	2	17.0	2	100	0	68	50	0	0	50	1.00
2691134--2691195	5	13.0	5	70	16	51	40	4	0	54	1.22
2691120--2691211	43	2.1	43	86	4	123	41	6	2	50	1.40
2691134--2691195	9	6.5	10	70	15	51	40	4	0	54	1.22
2691134--2691195	14	4.4	14	74	11	54	40	4	0	54	1.22
2691527--2691667	73	1.9	73	94	0	246	43	7	9	39	1.66
2694766--2694791	2	13.0	2	100	0	52	50	50	0	0	1.00
2698164--2698199	18	2.1	17	89	5	54	33	0	0	66	0.92
2702308--2702350	22	2.0	22	100	0	86	41	23	25	9	1.84
2702690--2702730	21	2.0	20	85	4	55	51	0	0	48	1.00
2702757--2702812	18	3.1	18	81	2	67	42	3	1	51	1.29
2703222--2703258	15	2.4	16	82	8	51	45	0	0	54	1.00
2703360--2703419	31	1.9	32	86	10	88	55	0	0	45	0.99
2704874--2704906	3	11.0	3	100	0	66	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2705149--2705259	53	2.2	48	80	12	116	54	0	1	43	1.10
2711340--2711814	169	3.0	157	85	8	572	42	6	9	41	1.64
2711619--2711664	2	24.0	2	79	16	53	52	0	2	45	1.13
2712028--2712063	17	2.1	18	89	5	56	47	0	0	52	1.00
2712352--2712451	21	4.8	20	74	16	78	58	0	2	40	1.10
2712354--2712454	7	14.4	7	71	20	52	56	0	1	41	1.10
2712365--2712450	29	3.1	28	80	14	90	59	0	2	38	1.10
2713002--2713068	30	2.4	26	73	21	64	62	0	0	37	0.95
2719085--2719136	19	2.7	19	84	3	68	59	0	1	38	1.08
2727650--2727684	18	1.9	18	94	0	61	54	0	2	42	1.15
2728988--2729044	28	2.1	27	83	3	69	36	1	0	61	1.07
2729117--2729145	2	14.5	2	100	0	58	0	48	0	51	1.00
2735387--2735418	3	10.7	3	93	0	55	31	3	31	34	1.73
2736334--2736387	9	5.8	10	75	14	53	29	0	0	70	0.88
2736318--2736387	35	2.0	36	83	8	90	32	0	0	67	0.91
2736304--2736387	27	3.1	27	80	13	102	33	0	0	66	0.92
2736336--2736387	8	6.0	8	82	14	59	28	0	0	71	0.87
2736715--2736764	18	2.6	19	81	9	57	62	0	2	36	1.07
2737202--2737226	4	6.2	4	100	0	50	24	0	0	76	0.80
2737558--2737616	29	2.1	28	83	3	73	35	3	0	61	1.13
2738218--2738257	20	2.0	20	85	5	53	45	2	2	50	1.28
2738209--2738252	16	2.7	17	79	10	56	43	2	2	52	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2740463--2740510	8	6.1	8	95	2	53	45	0	0	54	0.99
2740469--2740510	2	21.0	2	95	0	75	47	0	0	52	1.00
2741151--2741670	262	2.0	261	86	3	724	23	12	29	34	1.92
2752820--2752858	20	1.9	21	84	5	53	56	0	2	41	1.13
2754473--2754516	22	2.0	22	82	13	54	27	2	2	68	1.14
2754898--2754937	15	2.7	15	88	3	55	50	0	0	50	1.00
2754968--2755009	18	2.3	18	88	8	59	64	0	0	35	0.94
2754968--2755005	9	4.0	10	83	10	53	63	0	0	36	0.95
2755015--2755076	23	2.6	25	84	10	92	41	3	1	53	1.27
2755028--2755103	23	3.5	24	84	13	94	42	2	0	55	1.14
2755010--2755074	20	3.1	20	79	16	69	46	3	1	49	1.27
2755159--2755185	3	9.0	3	100	0	54	66	0	0	33	0.92
2755675--2755730	23	2.3	25	76	20	64	42	1	0	55	1.10
2755732--2755773	19	2.2	19	91	4	66	57	0	0	42	0.99
2755800--2755844	23	2.0	23	86	8	65	57	0	0	42	0.98
2755837--2755862	7	3.7	7	100	0	52	53	0	0	46	1.00
2756282--2756312	5	6.2	5	92	0	53	41	3	0	54	1.16
2756281--2756310	15	2.0	15	100	0	60	40	6	0	53	1.27
2756423--2756481	18	3.4	16	78	15	64	32	0	1	66	1.02
2756697--2756734	19	2.0	19	94	0	67	60	0	2	36	1.11
2756921--2756971	16	3.1	16	74	23	52	54	0	0	45	0.99
2756901--2756984	32	2.9	27	70	17	69	54	0	1	44	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2756921--2756990	32	2.2	32	80	12	83	54	0	0	45	0.99
2759151--2759200	17	2.9	18	79	8	59	46	0	0	54	1.00
2759123--2759207	44	2.0	41	82	11	100	48	0	0	51	1.00
2759187--2759224	20	1.9	19	89	5	58	36	0	0	63	0.95
2760173--2760206	17	1.9	18	88	5	52	32	0	0	67	0.91
2763003--2763060	29	2.0	29	100	0	116	41	6	24	27	1.80
2767132--2767173	18	2.3	18	87	0	57	33	9	38	19	1.84
2769413--2769446	2	17.0	2	100	0	68	0	50	0	50	1.00
2772834--2772895	32	1.9	33	83	9	83	45	0	0	54	0.99
2772891--2772931	13	3.1	13	89	3	55	48	0	0	51	1.00
2772896--2772934	13	2.9	13	92	3	60	48	0	0	51	1.00
2773979--2774015	8	4.5	8	86	6	56	35	0	5	59	1.20
2774018--2774065	16	3.0	16	82	14	55	62	0	0	37	0.95
2774001--2774056	28	2.0	28	86	6	78	57	0	0	42	0.99
2774016--2774067	17	3.1	17	78	13	63	65	0	0	34	0.93
2774116--2774160	20	2.2	21	92	4	74	48	4	0	46	1.22
2774129--2774188	30	2.0	31	83	9	79	51	1	1	45	1.21
2782310--2782351	16	2.6	17	77	11	52	57	2	4	35	1.33
2783574--2783602	2	14.5	2	100	0	58	0	51	0	48	1.00
2787779--2787835	11	5.0	11	78	6	51	50	0	0	49	1.00
2787779--2787821	12	3.7	11	84	9	50	44	0	0	55	0.99
2787972--2788014	4	11.5	4	85	9	56	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)
2787972--2788014	14	2.9	14	86	6	59	51	0	0	48	1.00
2787979--2788013	18	2.0	17	94	5	61	54	0	0	45	0.99
2789590--2789623	17	1.9	18	94	5	61	32	0	0	67	0.91
2789590--2789641	17	3.2	17	82	15	58	34	0	0	65	0.93
2791086--2791120	17	2.1	17	94	0	61	37	20	17	25	1.94
2796650--2796714	16	3.7	17	75	13	51	49	0	0	50	1.00
2797327--2797392	33	2.0	33	96	0	123	30	10	12	46	1.75
2797328--2797400	33	2.2	33	92	2	119	36	9	10	42	1.73
2800930--2800969	21	1.9	21	89	0	62	60	2	27	10	1.42
2801623--2801651	2	14.5	2	100	0	58	51	0	0	48	1.00

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