genome.fa.s64.2.7.7.80.10.50.1000.15.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: Scaffold64
Parameters: 2 7 7 80 10 50 1000
Length:  7997333

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   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   

This is table  15  of  45  ( 5312 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)
2808642--2808687	16	2.7	17	83	10	67	34	2	0	63	1.07
2808636--2808699	11	5.2	12	79	18	62	31	1	1	65	1.11
2809046--2809102	19	3.0	19	78	19	73	35	1	10	52	1.46
2809546--2809572	7	3.9	7	100	0	54	29	14	29	25	1.95
2811878--2811940	25	2.5	24	75	10	63	42	4	1	50	1.32
2812587--2812658	37	1.9	38	86	8	103	37	0	4	58	1.18
2813801--2813840	2	20.0	2	100	0	80	50	0	0	50	1.00
2816172--2816232	27	2.3	27	85	0	77	27	3	3	65	1.24
2816386--2816427	22	1.9	22	85	0	57	50	0	0	50	1.00
2816452--2816519	18	3.4	21	71	21	65	33	1	0	64	1.02
2816468--2816498	16	1.9	16	93	0	53	35	0	0	64	0.94
2816437--2816506	28	2.5	27	76	17	72	35	1	1	61	1.14
2817233--2817264	2	16.0	2	100	0	64	50	0	50	0	1.00
2817275--2817302	13	2.2	13	100	0	56	71	0	21	7	1.09
2818481--2818521	21	2.0	21	90	9	66	29	0	0	70	0.87
2823810--2823860	20	2.5	20	81	6	59	54	0	1	43	1.11
2824171--2824220	21	2.5	20	84	12	66	40	2	0	58	1.10
2824217--2824288	17	4.0	18	75	13	60	52	4	0	43	1.20
2825560--2825818	127	2.0	127	91	1	421	32	22	16	27	1.96
2833828--2833862	2	17.5	2	100	0	70	51	0	0	48	1.00
2834528--2834596	29	2.4	29	92	0	111	52	4	0	43	1.21
2834530--2834596	14	4.6	16	70	17	56	53	4	0	41	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2834680--2834719	18	2.1	20	86	9	57	45	2	0	52	1.14
2837416--2837476	25	2.6	23	87	7	79	42	0	1	55	1.09
2837488--2837570	39	2.2	39	80	12	100	46	0	2	50	1.14
2843834--2843931	32	3.0	32	70	10	83	44	0	3	52	1.16
2844481--2844518	8	4.8	8	84	12	51	50	0	7	42	1.31
2844489--2844519	16	1.9	16	100	0	62	48	0	12	38	1.42
2847954--2848105	76	2.0	76	93	0	259	16	21	13	48	1.80
2850465--2850504	21	1.9	21	85	10	55	40	0	0	60	0.97
2850584--2850627	22	2.0	22	86	0	61	40	2	0	56	1.11
2850631--2850723	21	4.6	19	70	16	62	45	1	2	51	1.20
2850638--2850694	21	2.8	20	76	15	64	49	1	3	45	1.29
2850669--2850718	12	4.3	12	80	5	50	48	0	0	52	1.00
2850560--2850723	22	7.5	21	66	19	52	43	1	1	53	1.19
2851405--2851452	21	2.4	20	80	13	55	43	0	2	54	1.12
2858727--2858757	2	15.5	2	93	0	53	51	3	0	45	1.17
2858731--2858765	16	2.2	16	94	0	61	51	8	0	40	1.33
2858727--2858761	12	2.9	12	95	0	61	51	5	0	42	1.25
2859886--2859938	24	2.1	26	86	6	74	28	3	1	66	1.20
2860483--2860553	30	2.4	30	86	9	92	42	11	0	46	1.39
2860542--2860607	30	2.2	30	86	5	89	46	15	0	37	1.46
2860824--2860877	23	2.4	23	87	3	74	48	0	1	50	1.11
2863230--2863264	12	2.9	12	86	0	52	20	17	34	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2866214--2866257	2	22.0	2	95	0	79	47	2	50	0	1.13
2866597--2866621	2	12.5	2	100	0	50	0	52	0	48	1.00
2867747--2867774	3	9.3	3	100	0	56	35	0	32	32	1.58
2868682--2868737	5	11.6	5	83	11	55	75	0	25	0	0.81
2868703--2868747	19	2.4	19	88	0	63	66	2	31	0	1.04
2869633--2869722	33	2.7	34	78	11	89	47	0	0	52	1.00
2870002--2870038	18	2.0	19	89	5	58	72	0	0	27	0.84
2871579--2871611	13	2.5	13	95	0	57	54	15	21	9	1.68
2876227--2876251	3	8.3	3	100	0	50	32	0	0	68	0.90
2879605--2879640	2	18.0	2	88	0	54	0	50	2	47	1.15
2880376--2880405	2	15.0	2	100	0	60	50	0	50	0	1.00
2882807--2882899	25	3.8	26	75	19	76	40	0	1	58	1.05
2882815--2882912	50	1.9	51	82	10	121	37	0	1	61	1.03
2885343--2885378	2	18.0	2	94	0	63	47	0	2	50	1.15
2885757--2885830	32	2.6	29	78	17	82	52	1	1	44	1.17
2885807--2885875	6	11.7	6	73	14	63	59	0	1	39	1.06
2885752--2885848	30	3.4	28	74	24	85	54	2	1	42	1.19
2885828--2885871	11	4.2	11	80	11	56	61	0	2	36	1.09
2885829--2885876	17	3.0	17	85	11	66	58	0	4	37	1.18
2886151--2886180	16	1.9	15	93	6	51	43	3	0	53	1.17
2886447--2886514	3	21.7	3	88	8	100	32	1	0	66	1.01
2886812--2886852	20	2.0	20	85	0	55	39	0	0	60	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2890265--2890292	2	14.0	2	100	0	56	50	0	0	50	1.00
2892049--2892145	50	1.9	51	87	6	144	34	21	13	30	1.92
2895597--2895928	108	3.1	108	87	4	481	14	18	21	45	1.84
2898560--2898586	6	4.5	6	100	0	54	18	14	66	0	1.25
2899263--2899322	31	1.9	31	93	0	102	53	8	16	21	1.69
2900851--2901049	99	2.0	99	100	0	398	38	17	11	33	1.85
2903783--2903824	21	1.9	23	81	18	54	61	4	2	30	1.29
2904038--2904081	22	2.0	21	82	4	52	29	0	0	70	0.88
2904061--2904093	13	2.4	14	90	5	50	45	0	0	54	0.99
2904075--2904113	18	2.2	18	85	0	51	46	0	0	53	1.00
2904714--2904792	22	3.4	22	73	14	68	56	0	2	40	1.12
2904741--2904809	30	2.4	27	79	13	75	53	1	1	43	1.18
2906380--2906410	3	10.3	3	100	0	62	67	0	0	32	0.91
2907437--2907483	15	2.9	16	78	15	53	46	0	0	53	1.00
2912950--2912991	14	3.0	13	86	13	57	57	0	0	42	0.99
2912957--2912991	7	5.0	7	89	10	54	57	0	0	42	0.99
2917999--2918068	16	4.4	16	74	17	65	58	0	1	40	1.07
2918041--2918087	23	2.0	23	83	4	58	59	0	0	40	0.97
2918022--2918080	30	2.0	30	89	0	91	62	0	0	37	0.95
2918980--2919019	16	2.5	16	87	0	53	40	20	20	20	1.92
2922417--2922482	33	2.0	33	87	0	96	65	6	0	28	1.17
2922465--2922511	24	2.0	24	100	0	94	68	4	0	27	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2923385--2923423	14	3.1	14	79	20	50	38	0	0	61	0.96
2924701--2924730	15	1.9	16	93	6	53	46	23	6	23	1.75
2926426--2926453	2	14.0	2	100	0	56	50	0	0	50	1.00
2932067--2932094	2	14.0	2	100	0	56	50	0	0	50	1.00
2932318--2932354	2	18.5	2	94	0	65	0	48	2	48	1.15
2933613--2933654	11	3.8	11	84	6	50	45	0	0	54	0.99
2938472--2938516	18	2.6	17	83	13	56	42	4	0	53	1.21
2939081--2939126	17	2.8	17	77	12	51	45	0	0	54	0.99
2939086--2939180	23	4.0	23	72	15	68	41	1	0	57	1.05
2939104--2939148	9	4.9	9	79	15	56	40	0	0	60	0.97
2939104--2939159	5	11.6	5	78	14	64	37	0	0	62	0.95
2939105--2939176	19	3.9	19	78	10	78	40	1	0	58	1.07
2939104--2939155	14	3.7	14	80	10	61	36	0	0	63	0.95
2940449--2940520	22	3.2	23	72	20	62	41	0	5	52	1.24
2940639--2940675	14	2.7	14	80	19	51	59	2	0	37	1.12
2941734--2941796	29	2.2	28	77	8	65	49	0	4	46	1.23
2942324--2942358	3	11.7	3	100	0	70	65	0	0	34	0.93
2950622--2950655	17	2.0	17	94	0	59	20	0	41	38	1.53
2950647--2950810	81	2.0	83	82	8	201	40	2	35	21	1.67
2950831--2950888	14	4.2	14	73	22	52	53	0	1	44	1.10
2950830--2950885	26	2.1	28	86	6	80	53	0	1	44	1.11
2953759--2953802	2	22.0	2	100	0	88	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2959514--2959555	13	3.3	13	81	12	52	42	4	0	52	1.22
2965755--2965785	2	16.0	2	93	6	55	48	0	0	51	1.00
2966782--2966846	28	2.4	27	77	12	69	44	1	0	53	1.09
2966810--2966855	16	3.1	15	82	17	60	43	2	0	54	1.12
2969665--2969696	15	2.1	16	94	5	57	56	0	0	43	0.99
2972068--2972093	13	2.0	13	100	0	52	92	7	0	0	0.39
2972069--2972100	16	2.0	16	100	0	64	93	6	0	0	0.34
2972678--2972757	37	2.2	37	80	13	94	51	3	1	43	1.27
2983576--2983623	19	2.5	19	96	3	87	41	12	22	22	1.88
2986229--2986256	2	14.0	2	100	0	56	50	0	0	50	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   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45