genome.fa.s74.2.7.7.80.10.50.1000.20.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: Scaffold74
Parameters: 2 7 7 80 10 50 1000
Length:  4633657

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  ( 2862 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)
3833224--3833257	11	2.9	12	86	8	52	29	0	0	70	0.87
3833564--3833592	11	2.7	11	94	5	51	27	0	0	72	0.85
3834370--3834418	20	2.2	23	82	17	68	36	4	0	59	1.17
3839641--3839692	24	2.2	24	85	0	68	28	3	0	67	1.08
3841045--3841076	2	16.0	2	100	0	64	50	0	50	0	1.00
3841425--3841478	20	2.8	20	73	15	51	44	0	0	55	0.99
3841418--3841483	16	4.1	17	75	24	63	42	0	0	57	0.98
3844157--3844183	2	13.5	2	100	0	54	0	48	0	51	1.00
3844210--3844257	16	2.9	16	79	14	53	68	0	0	31	0.90
3844279--3844362	27	3.1	27	68	11	64	55	3	0	40	1.17
3845776--3845871	41	2.6	38	80	12	110	38	9	3	48	1.51
3847380--3847424	17	2.9	15	78	15	56	35	0	0	64	0.94
3854961--3855000	2	20.0	2	100	0	80	50	0	50	0	1.00
3857267--3857291	13	1.9	13	100	0	50	32	0	4	64	1.12
3859975--3860002	2	14.0	2	100	0	56	50	0	0	50	1.00
3861034--3861067	2	17.0	2	93	0	59	47	0	2	50	1.16
3861464--3861498	2	17.5	2	93	0	61	48	0	2	48	1.16
3862184--3862223	21	1.9	21	100	0	80	42	5	10	42	1.60
3864240--3864303	21	3.0	21	78	17	62	50	0	1	48	1.10
3868315--3868372	2	30.0	2	87	6	84	44	1	1	51	1.21
3870037--3870074	5	7.6	5	96	0	58	52	0	47	0	1.00
3870365--3870411	17	2.8	17	81	12	62	44	0	2	53	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3870833--3870868	18	2.0	18	94	0	63	52	0	0	47	1.00
3870992--3871031	3	13.3	3	100	0	80	67	0	0	32	0.91
3872323--3872348	2	13.0	2	100	0	52	50	0	0	50	1.00
3877958--3878041	29	2.8	29	85	5	96	57	2	3	36	1.29
3879259--3879290	13	2.4	14	94	5	57	53	0	0	46	1.00
3879255--3879309	18	3.5	16	77	18	62	50	0	0	49	1.00
3879796--3879879	33	2.5	34	82	5	91	44	1	2	52	1.21
3879869--3879921	13	3.9	13	76	23	56	32	1	0	66	1.03
3879864--3879904	11	4.1	10	81	18	50	34	4	0	60	1.18
3879869--3879941	28	2.5	29	82	14	96	32	4	1	61	1.23
3884528--3884567	20	2.0	20	95	0	71	62	0	0	37	0.95
3884522--3884602	28	3.0	28	82	7	87	56	0	0	43	0.99
3886650--3886692	21	2.1	20	87	12	61	60	2	0	37	1.10
3888432--3888486	15	3.7	15	85	0	74	67	0	32	0	0.91
3888433--3888487	5	11.0	5	92	0	56	69	0	30	0	0.89
3888432--3888487	10	5.6	10	89	0	67	67	0	32	0	0.91
3889943--3889967	6	4.2	6	100	0	50	0	52	0	48	1.00
3890125--3890169	20	2.2	20	84	4	54	20	8	2	68	1.27
3892581--3892632	4	12.5	4	88	11	54	32	0	0	67	0.91
3892580--3892632	19	2.9	17	84	15	70	33	0	0	66	0.92
3894530--3894566	14	2.4	16	82	13	51	54	2	0	43	1.14
3894901--3894927	2	13.5	2	100	0	54	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)
3896154--3896186	16	2.0	17	88	5	50	60	0	0	39	0.97
3897607--3897644	16	2.4	17	83	16	55	2	39	0	57	1.12
3899754--3899793	16	2.5	16	88	8	55	42	5	27	25	1.75
3906050--3906087	18	2.1	19	85	14	53	65	0	7	26	1.19
3907116--3907180	29	2.3	28	81	7	69	29	3	1	66	1.16
3907645--3907680	17	2.1	18	89	5	56	36	0	0	63	0.94
3908682--3908741	13	4.8	12	75	17	59	51	1	1	45	1.21
3909482--3909507	4	6.5	4	100	0	52	23	0	0	76	0.78
3911364--3911420	18	3.2	17	80	7	53	56	0	0	43	0.99
3915423--3915501	26	3.1	25	76	15	74	56	0	0	43	0.99
3915418--3915509	8	10.8	8	69	25	55	58	0	0	41	0.98
3915426--3915492	33	2.0	33	94	0	116	55	0	0	44	0.99
3915425--3915510	33	3.0	27	72	23	70	58	0	0	41	0.98
3915478--3915512	18	2.0	17	88	5	52	65	0	0	34	0.93
3916315--3916343	2	14.5	2	100	0	58	0	51	0	48	1.00
3923439--3923476	14	2.7	14	84	8	51	47	7	5	39	1.55
3924875--3924923	19	2.5	20	80	16	66	65	0	2	32	1.04
3924862--3925013	38	4.1	37	72	16	102	55	0	1	42	1.08
3924886--3925010	7	16.8	8	68	23	51	58	0	0	41	0.98
3924958--3925001	21	2.1	21	87	8	63	54	0	0	45	0.99
3924909--3925005	28	3.5	28	72	19	78	55	0	0	44	0.99
3924898--3925009	30	3.9	29	74	15	90	57	0	0	42	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3924970--3925009	21	1.9	21	89	0	62	57	0	0	42	0.98
3924960--3925013	24	2.2	24	81	12	58	55	0	0	44	0.99
3925305--3925356	3	17.3	3	100	0	104	32	0	0	67	0.91
3925564--3925630	27	2.4	29	83	16	81	41	1	0	56	1.08
3925563--3925678	29	4.0	29	71	21	82	41	2	0	56	1.13
3925592--3925651	22	2.7	22	80	10	68	45	0	0	55	0.99
3927761--3927812	28	2.0	25	81	11	59	53	0	0	46	1.00
3928728--3928765	20	1.9	20	84	10	51	47	0	0	52	1.00
3931219--3931254	18	2.0	18	100	0	72	33	22	16	27	1.95
3933780--3933883	30	3.3	30	73	10	109	56	1	0	41	1.10
3933909--3933954	15	2.9	15	84	9	65	54	0	0	45	0.99
3934977--3935032	21	2.7	21	75	8	60	46	0	1	51	1.11
3934967--3935123	51	3.1	51	66	12	151	46	0	5	48	1.24
3934901--3935146	101	2.3	106	91	8	398	44	0	4	51	1.22
3935274--3935302	2	15.0	2	92	7	51	51	0	0	48	1.00
3935368--3935449	42	1.9	43	85	2	112	41	1	4	52	1.31
3935556--3935581	2	13.0	2	100	0	52	50	0	0	50	1.00
3935667--3935824	53	3.0	49	76	11	154	41	2	1	55	1.22
3935709--3935742	16	2.1	16	88	5	50	35	0	0	64	0.94
3935675--3935824	52	2.9	50	78	8	167	41	2	1	54	1.23
3940532--3940574	21	2.0	21	100	0	86	32	4	18	44	1.71
3947237--3947272	2	18.0	2	100	0	72	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)
3948690--3948728	2	19.5	2	100	0	78	0	48	0	51	1.00
3949421--3949453	15	2.2	15	100	0	66	24	0	12	63	1.28
3949946--3949972	2	13.5	2	100	0	54	48	0	0	51	1.00
3951447--3951480	2	17.0	2	100	0	68	50	0	0	50	1.00
3953052--3953094	22	2.0	22	86	9	61	37	6	4	51	1.50
3953877--3953904	2	14.0	2	100	0	56	50	0	0	50	1.00
3954753--3954789	13	2.8	13	87	0	56	37	0	0	62	0.96
3954852--3954893	6	7.0	6	84	10	59	38	0	0	61	0.96
3954852--3954893	13	3.5	12	83	9	59	38	0	0	61	0.96
3954849--3954900	17	3.4	16	77	20	65	44	1	0	53	1.11
3954851--3954886	17	2.1	17	100	0	72	41	0	0	58	0.98
3960605--3960681	31	2.4	32	75	14	79	49	0	1	49	1.09
3960955--3961003	21	2.3	21	86	6	64	73	0	8	18	1.07
3960955--3961003	22	2.3	21	85	3	62	73	0	8	18	1.07
3961456--3961495	21	2.0	20	85	5	53	32	0	0	67	0.91
3961901--3961946	24	1.9	24	82	8	58	36	0	2	60	1.09
3961917--3961956	18	2.3	18	87	8	57	40	0	0	60	0.97
3962525--3962563	21	1.9	20	89	5	60	56	0	5	38	1.22
3966403--3966441	3	13.0	3	94	0	69	0	35	0	64	0.94
3967479--3967511	2	16.5	2	100	0	66	51	0	0	48	1.00
3967511--3967535	2	12.5	2	100	0	50	52	0	48	0	1.00
3968671--3968703	3	11.0	3	93	0	57	0	30	33	36	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3975870--3975916	18	2.7	17	80	3	58	38	2	0	59	1.09
3975888--3975936	13	3.6	14	79	17	59	34	0	0	65	0.93
3976109--3976137	3	9.7	3	100	0	58	34	0	0	65	0.93
3976669--3976694	13	2.0	13	100	0	52	84	0	0	15	0.62
3977351--3977394	20	2.3	19	84	11	54	61	0	2	36	1.09
3977382--3977434	8	6.4	8	80	8	61	79	3	0	16	0.88
3977367--3977425	25	2.3	25	88	2	82	71	3	0	25	1.02
3977388--3977438	17	3.0	16	75	16	50	74	3	0	21	0.98
3977383--3977434	25	2.1	25	82	7	61	78	3	0	17	0.89
3977432--3977484	23	2.3	22	78	18	54	41	0	0	58	0.98

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