genome.fa.s196.2.7.7.80.10.50.1000.24.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: Scaffold196
Parameters: 2 7 7 80 10 50 1000
Length:  7488280

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   46   47   

This is table  24  of  47  ( 5587 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)
3666239--3666311	20	3.6	20	81	3	101	31	19	13	35	1.91
3666218--3666311	41	2.3	41	96	0	170	30	18	12	38	1.88
3666218--3666293	21	3.7	21	78	3	91	30	17	11	40	1.85
3671135--3671187	20	2.7	20	85	5	63	39	15	16	28	1.89
3671218--3671277	19	3.0	20	81	9	70	31	13	13	41	1.83
3671749--3671855	30	3.5	30	69	18	103	42	13	17	27	1.86
3671679--3671885	50	3.9	50	80	14	225	42	12	17	27	1.85
3671746--3671868	62	2.0	62	95	0	219	43	13	17	26	1.85
3673952--3674003	26	2.0	26	92	0	86	32	21	17	28	1.96
3682089--3682124	13	2.8	13	95	0	63	36	19	13	30	1.91
3682556--3682598	20	2.1	20	82	4	50	23	41	23	11	1.87
3684696--3684721	13	2.0	13	100	0	52	38	15	15	30	1.88
3684678--3684741	32	2.0	33	90	3	103	42	15	14	28	1.86
3687038--3687080	20	2.2	20	86	0	59	67	0	32	0	0.91
3692120--3692170	20	2.5	21	93	3	86	35	19	9	35	1.85
3700250--3700289	17	2.4	17	87	8	55	82	0	0	17	0.67
3703608--3703651	20	2.2	20	88	8	63	45	13	13	27	1.81
3703651--3703688	20	1.9	20	94	0	67	39	7	15	36	1.77
3704754--3704959	67	3.1	66	77	8	218	29	30	14	26	1.95
3704802--3705136	177	1.9	177	81	4	408	30	31	14	23	1.95
3704966--3705611	67	9.4	67	75	7	291	31	30	14	23	1.95
3705079--3705687	140	4.4	141	81	5	603	30	29	15	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3708810--3709179	88	4.2	87	77	5	321	31	26	10	32	1.89
3710838--3711071	119	2.0	119	98	0	450	41	18	13	26	1.88
3716161--3716194	11	3.0	11	95	4	59	38	0	0	61	0.96
3717648--3717672	13	1.9	13	100	0	50	36	16	16	32	1.90
3719740--3719781	15	2.8	16	82	10	61	50	2	16	30	1.58
3723637--3723885	85	2.9	85	77	8	256	46	14	21	18	1.83
3723761--3723999	123	2.0	120	82	8	297	47	14	21	16	1.82
3723677--3724072	204	1.9	205	82	6	489	46	14	21	17	1.83
3723884--3724108	84	2.7	85	80	6	246	45	14	23	17	1.84
3723967--3724105	43	3.3	42	69	14	115	45	13	23	17	1.84
3728521--3728641	52	2.3	52	97	0	224	28	18	18	34	1.94
3728521--3728661	52	2.7	51	90	4	212	30	17	18	33	1.94
3728650--3728674	13	1.9	13	100	0	50	36	16	16	32	1.90
3728740--3728764	13	1.9	13	100	0	50	32	16	16	36	1.90
3728718--3728784	33	2.0	33	88	0	98	40	13	11	34	1.81
3728822--3728863	21	2.0	21	90	0	66	35	14	14	35	1.86
3735931--3735967	3	12.3	3	88	0	56	29	29	0	40	1.57
3737784--3737826	23	2.0	22	90	9	70	37	9	6	46	1.63
3738079--3738284	44	4.7	43	71	12	161	39	18	20	20	1.92
3738182--3738352	44	3.9	43	74	11	123	40	18	23	16	1.90
3738473--3738863	70	5.7	70	73	5	283	42	9	23	24	1.84
3738486--3738874	35	11.3	35	73	2	248	42	10	23	24	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3739152--3739581	90	4.8	90	83	7	520	29	14	27	28	1.96
3739152--3739573	177	2.4	176	84	7	541	29	14	27	27	1.95
3744603--3745191	155	3.8	153	76	7	514	25	17	18	38	1.93
3745213--3745368	61	2.6	61	92	0	258	30	16	19	33	1.94
3747153--3747294	69	2.1	69	100	0	284	35	15	14	34	1.88
3750093--3750371	153	1.8	153	88	0	423	40	18	16	24	1.91
3753670--3753720	20	2.5	20	87	6	68	35	15	15	33	1.90
3753709--3753746	20	2.1	19	85	14	53	47	13	10	28	1.76
3754854--3754918	33	2.0	32	85	11	87	32	18	13	35	1.90
3754947--3754983	19	1.9	19	100	0	74	35	16	16	32	1.91
3754968--3754994	13	2.1	13	100	0	54	40	14	14	29	1.86
3754949--3755013	32	2.0	32	90	3	103	40	15	15	29	1.88
3763609--3763633	13	1.9	13	100	0	50	32	16	16	36	1.90
3763589--3763652	33	1.9	33	87	12	96	29	18	15	35	1.92
3763962--3764942	488	2.0	488	99	0	1953	28	17	18	35	1.94
3773303--3773360	20	3.0	20	84	2	73	31	10	12	46	1.74
3777223--3777501	140	2.0	140	93	0	477	33	21	19	25	1.97
3779766--3779799	16	2.2	15	89	5	50	88	5	5	0	0.64
3779780--3779806	12	2.2	12	100	0	54	92	7	0	0	0.38
3781127--3781705	28	20.6	27	82	5	545	30	28	16	24	1.97
3781126--3781705	56	10.3	56	81	4	623	30	28	16	24	1.97
3781126--3781705	84	6.9	83	83	4	619	30	28	16	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3782787--3782875	30	3.3	29	69	28	88	26	17	12	42	1.85
3782787--3782896	50	2.2	50	88	0	157	30	17	12	40	1.87
3794827--3794880	10	5.2	10	84	6	72	87	11	1	0	0.63
3794826--3794877	17	3.2	16	84	7	70	88	9	1	0	0.59
3794842--3794888	10	4.6	10	86	2	58	85	12	2	0	0.70
3794826--3794877	1	52.0	1	80	0	50	88	9	1	0	0.59
3796232--3796266	14	2.6	13	86	8	52	34	11	14	40	1.82
3796309--3796999	28	24.5	28	80	4	737	30	29	15	24	1.96
3798072--3798185	50	2.3	50	81	3	131	32	14	10	42	1.79
3799075--3799114	20	2.0	20	85	9	55	22	17	10	50	1.76
3806989--3807013	13	1.9	13	100	0	50	32	16	16	36	1.90
3806969--3807033	33	2.0	33	88	11	98	32	18	15	33	1.92
3807063--3807118	19	2.9	19	89	2	76	33	16	19	30	1.94
3807064--3807135	20	3.7	19	80	10	74	34	12	19	33	1.89
3807863--3807936	19	3.7	19	82	8	78	28	17	17	36	1.93
3809173--3809249	33	2.3	33	81	0	91	29	14	29	25	1.95
3810254--3810304	20	2.5	20	96	0	93	11	25	37	25	1.90
3810745--3810784	13	3.1	13	85	0	53	40	12	12	35	1.81
3814129--3814153	13	1.9	13	100	0	50	32	16	16	36	1.90
3814162--3814290	52	2.5	52	90	0	213	37	16	17	28	1.91
3820667--3820739	20	3.7	20	80	14	80	38	16	15	30	1.89
3821757--3821793	17	2.2	17	100	0	74	21	29	5	43	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3824402--3824508	30	3.5	31	72	7	101	40	15	16	27	1.89
3825315--3826037	59	12.2	59	84	6	801	27	18	27	27	1.98
3825704--3825801	48	2.0	48	86	0	133	28	12	28	30	1.93
3825752--3826037	61	4.7	61	83	3	328	28	18	26	26	1.98
3825752--3826037	123	2.3	121	81	6	362	28	18	26	26	1.98
3827027--3827083	1	57.0	1	75	0	51	5	5	1	87	0.72
3831034--3831059	13	2.0	13	100	0	52	38	15	15	30	1.88
3831016--3831079	32	2.0	33	87	3	94	40	17	14	28	1.88
3831517--3831583	37	1.9	35	88	11	102	32	11	25	29	1.92
3832208--3832263	20	2.8	20	97	0	103	41	19	14	25	1.89
3835233--3835279	4	11.8	4	95	0	85	74	0	2	23	0.93
3835823--3835968	20	6.8	20	72	18	114	30	13	10	45	1.78
3835843--3836018	71	2.5	71	86	3	239	30	14	11	43	1.82
3843739--3843838	11	9.1	11	79	15	93	83	14	3	0	0.77
3843737--3843848	41	2.7	40	87	6	145	82	15	2	0	0.79
3843739--3843808	1	70.0	1	78	0	59	87	10	2	0	0.65
3843795--3843846	4	13.8	4	78	11	56	78	19	1	0	0.84
3843739--3843848	9	10.7	10	76	15	93	82	14	2	0	0.77
3843737--3843848	51	2.2	50	83	12	131	82	15	2	0	0.79
3845093--3845573	28	16.8	28	86	4	532	30	30	16	21	1.95
3853868--3854328	28	16.5	28	82	5	486	29	27	17	26	1.97
3853868--3854373	84	6.0	83	83	4	557	29	27	17	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3855646--3855671	13	2.0	13	100	0	52	30	15	15	38	1.88
3855710--3855785	21	3.7	21	80	3	100	28	17	11	42	1.84
3855731--3855803	20	3.6	20	81	3	101	31	19	13	35	1.91
3855710--3855803	41	2.3	41	98	0	179	29	18	12	39	1.88
3860558--3860591	13	2.6	13	90	0	50	0	8	38	52	1.33
3860573--3860675	41	2.6	38	75	13	98	5	16	30	47	1.70
3862449--3862822	42	8.9	42	75	6	287	38	18	27	16	1.91
3862382--3862820	84	5.2	84	78	9	364	36	17	27	17	1.93
3863161--3863213	19	2.7	20	79	8	63	41	15	15	28	1.87
3877078--3877123	18	2.5	19	82	10	60	80	8	8	2	0.99

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   46   47