genome.fa.s153.2.7.7.80.10.50.1000.20.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: Scaffold153
Parameters: 2 7 7 80 10 50 1000
Length:  3137677

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   

This is table  20  of  24  ( 2803 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)
2613727--2613761	3	11.7	3	100	0	70	68	0	0	31	0.90
2614194--2614267	27	2.7	27	78	15	73	37	0	1	60	1.05
2616394--2616440	16	3.1	14	82	14	58	51	0	0	48	1.00
2619163--2619221	27	2.2	28	79	14	70	47	0	5	47	1.24
2619256--2619293	18	2.2	18	95	4	69	28	31	0	39	1.57
2621702--2621729	14	2.0	14	100	0	56	28	21	0	50	1.49
2623780--2623860	21	3.8	21	74	12	67	50	2	1	45	1.22
2624008--2624049	23	1.9	23	85	9	61	35	14	4	45	1.66
2631528--2631557	7	4.3	7	100	0	60	73	0	0	26	0.84
2635618--2635656	21	1.9	21	84	5	53	53	7	2	35	1.43
2635780--2635837	22	2.6	23	81	8	75	50	5	5	39	1.47
2636320--2636360	22	1.9	21	85	5	55	48	0	0	51	1.00
2636332--2636373	21	2.0	21	86	9	59	42	0	0	57	0.99
2641932--2641999	33	2.1	33	97	0	127	39	14	13	32	1.85
2643019--2643054	11	3.2	11	92	4	54	33	0	0	66	0.92
2643024--2643070	6	8.3	6	81	13	64	34	0	0	65	0.93
2643024--2643120	17	5.6	17	72	18	67	39	0	1	59	1.04
2643011--2643068	24	2.6	22	80	17	66	32	0	1	65	1.03
2643024--2643068	11	4.1	11	91	0	63	33	0	0	66	0.92
2643579--2643692	58	2.0	58	91	0	183	9	18	16	55	1.68
2643675--2643980	62	5.0	61	78	6	289	13	16	18	51	1.76
2644151--2644324	64	2.8	63	85	2	233	11	16	18	54	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2645049--2645116	33	2.1	33	91	0	109	33	14	25	26	1.94
2645559--2645756	99	2.0	99	93	2	335	25	19	15	39	1.91
2648047--2648477	62	7.0	62	83	4	485	10	16	18	54	1.70
2648047--2648447	187	2.2	185	86	3	563	10	15	18	55	1.68
2649827--2649857	2	15.5	2	100	0	62	51	0	0	48	1.00
2650166--2650209	21	2.1	21	83	8	54	56	0	0	43	0.99
2650165--2650221	22	2.5	24	72	16	59	54	0	0	45	0.99
2651017--2651061	17	2.6	16	83	13	54	42	0	2	55	1.12
2653876--2653903	12	2.3	12	100	0	56	50	17	14	17	1.79
2655540--2655604	2	32.5	2	84	0	76	41	0	6	52	1.26
2657073--2657145	31	2.4	31	88	0	110	46	0	0	53	1.00
2657129--2657184	26	2.3	26	84	9	73	53	0	1	44	1.11
2657379--2657439	26	2.2	30	85	11	85	45	0	0	54	1.00
2658251--2658493	119	2.1	119	95	0	434	24	16	12	46	1.81
2658741--2658786	17	2.5	19	79	10	51	65	0	0	34	0.93
2658727--2658784	30	1.9	31	85	3	82	58	0	0	41	0.98
2660333--2660405	37	2.0	37	91	0	119	36	9	8	45	1.67
2662153--2662212	26	2.3	25	83	11	68	48	3	3	45	1.35
2662257--2662321	26	2.5	26	82	2	78	38	7	10	43	1.68
2662574--2662611	2	19.0	2	100	0	76	50	0	0	50	1.00
2663322--2663367	21	2.3	21	81	7	60	47	0	4	47	1.21
2663745--2663815	27	2.5	28	79	20	78	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2663795--2663843	16	3.1	16	71	28	50	48	0	0	51	1.00
2663796--2663846	15	3.4	15	73	26	54	50	0	0	49	1.00
2664892--2664923	6	5.7	6	85	14	50	0	46	0	53	1.00
2666295--2666453	82	1.9	82	100	0	318	19	12	12	55	1.68
2667117--2667147	2	15.5	2	100	0	62	0	0	48	51	1.00
2668315--2668344	4	7.5	4	100	0	60	26	0	23	50	1.50
2669318--2669355	17	2.2	17	90	0	58	21	0	0	78	0.74
2669308--2669363	11	5.4	11	80	14	57	23	1	0	75	0.90
2669658--2669690	2	16.5	2	100	0	66	48	0	0	51	1.00
2671641--2671668	2	14.0	2	100	0	56	50	0	0	50	1.00
2672947--2672975	2	15.0	2	92	7	51	51	0	0	48	1.00
2673409--2673459	17	3.1	16	78	13	50	56	0	1	41	1.10
2673404--2673464	18	3.4	17	76	13	59	55	0	1	42	1.09
2673509--2673545	19	1.9	19	88	0	56	64	2	2	29	1.21
2675019--2675050	2	16.0	2	100	0	64	50	0	0	50	1.00
2675496--2675531	2	18.0	2	100	0	72	50	0	0	50	1.00
2675770--2675839	21	3.2	21	72	11	61	55	1	0	42	1.08
2677266--2677310	2	22.5	2	100	0	90	51	0	0	48	1.00
2677465--2677511	20	2.5	20	82	6	62	53	2	0	44	1.12
2678205--2678262	17	3.5	16	76	6	62	39	1	1	56	1.19
2680578--2680629	22	2.4	22	86	0	77	38	0	0	61	0.96
2680594--2680621	14	2.0	14	100	0	56	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2680630--2680666	16	2.4	15	86	8	56	51	0	0	48	1.00
2682023--2682637	206	2.9	206	86	5	817	43	3	9	42	1.55
2682503--2682533	16	1.9	16	93	0	53	32	0	0	67	0.91
2683207--2683255	23	2.0	23	88	11	71	36	0	4	59	1.17
2683548--2683589	10	4.2	10	79	11	50	59	7	2	30	1.37
2683820--2683854	18	1.9	18	88	11	54	31	2	0	65	1.07
2684215--2684325	51	2.2	49	84	7	134	54	0	0	44	1.12
2684231--2684312	25	3.2	25	67	15	60	54	0	0	45	0.99
2685309--2685347	16	2.4	16	80	16	53	51	2	0	46	1.14
2685581--2685619	3	13.0	3	100	0	78	66	0	0	33	0.92
2687953--2687990	11	3.4	11	83	16	51	63	0	0	36	0.95
2687957--2688035	11	6.3	13	71	19	51	60	0	0	39	0.97
2688075--2688112	18	2.1	18	90	0	58	60	0	0	39	0.97
2689268--2689310	14	3.0	14	84	15	61	51	0	0	48	1.00
2689265--2689317	14	3.8	13	77	20	54	54	0	1	43	1.11
2689265--2689318	22	2.5	21	77	11	56	55	0	1	42	1.10
2689499--2689557	20	3.0	20	92	0	91	42	3	6	47	1.46
2689722--2689774	16	3.4	15	87	7	79	58	0	0	41	0.98
2690330--2690386	22	2.5	23	81	18	66	45	0	0	54	0.99
2690560--2690679	36	3.4	36	72	15	106	53	0	0	46	1.00
2693950--2693994	24	1.9	24	86	4	65	35	2	0	62	1.08
2695106--2695147	22	1.9	22	90	9	68	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2695874--2695931	23	2.6	23	77	2	64	55	0	0	44	0.99
2696046--2696090	22	2.0	24	86	8	67	71	2	22	4	1.15
2696811--2696865	24	2.3	24	81	9	67	60	3	5	30	1.37
2697174--2697208	3	11.7	3	100	0	70	65	0	0	34	0.93
2697207--2697233	3	9.0	3	100	0	54	33	0	0	66	0.92
2700288--2700318	5	6.2	5	100	0	62	38	0	0	61	0.96
2704756--2704784	2	14.5	2	100	0	58	48	0	0	51	1.00
2706987--2707014	2	14.0	2	100	0	56	50	0	0	50	1.00
2707491--2707525	18	2.0	18	88	5	54	80	0	2	17	0.84
2707488--2707518	13	2.3	14	94	5	55	80	0	0	19	0.71
2707662--2707697	2	18.0	2	94	0	63	47	2	0	50	1.15
2710000--2710031	13	2.4	13	94	5	55	53	9	0	37	1.34
2711271--2711667	63	6.7	62	71	13	242	56	17	14	11	1.67
2711345--2711507	54	2.9	54	82	7	173	58	17	15	9	1.62
2711511--2711558	19	2.5	19	78	18	55	56	18	8	16	1.65
2711624--2711721	49	2.0	49	91	0	160	63	15	10	11	1.52
2711761--2711828	26	2.6	26	80	2	82	35	2	2	58	1.28
2714143--2714181	2	19.5	2	100	0	78	48	0	0	51	1.00
2715004--2715438	62	7.0	62	81	3	437	53	17	15	13	1.72
2715006--2715438	187	2.3	186	84	1	526	54	17	15	13	1.72
2716817--2716865	15	3.3	15	81	16	57	32	0	2	65	1.04
2717412--2717464	27	1.9	28	88	3	81	26	3	0	69	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2717592--2717675	42	2.0	42	97	0	159	27	10	14	47	1.77
2719874--2719917	22	2.0	22	82	13	54	45	0	0	54	0.99
2720099--2720211	53	2.1	54	88	4	167	53	2	7	37	1.43
2721550--2721639	9	9.8	9	76	17	64	33	0	11	55	1.35
2721769--2721844	25	2.9	26	86	7	93	69	1	0	28	0.96
2721755--2721819	16	4.3	16	72	23	52	67	4	1	26	1.18
2721807--2721858	19	2.8	19	82	2	61	69	1	0	28	0.99
2721781--2721865	25	3.6	24	80	9	77	70	2	0	27	0.99
2721892--2721955	31	2.1	31	85	11	87	50	1	0	48	1.10
2722255--2722301	17	2.8	17	81	12	53	57	2	0	40	1.11

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