genome.fa.s247.2.7.7.80.10.50.1000.24.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: Scaffold247
Parameters: 2 7 7 80 10 50 1000
Length:  4737410

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   

This is table  24  of  29  ( 3470 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)
3779149--3779195	21	2.3	20	82	10	60	31	19	4	44	1.70
3781325--3781350	13	2.0	13	100	0	52	38	15	15	30	1.88
3785369--3785509	42	3.3	42	70	12	126	46	12	23	18	1.82
3785363--3785551	84	2.2	85	83	4	222	46	12	22	18	1.83
3785706--3785986	78	3.5	78	69	14	226	42	14	22	20	1.88
3785616--3785964	166	2.1	166	90	0	556	42	14	21	21	1.88
3785936--3786066	45	2.9	45	82	5	140	45	15	20	19	1.86
3786121--3786213	35	2.6	34	81	6	96	46	8	23	21	1.79
3789487--3789525	13	3.0	13	88	0	60	38	17	12	30	1.88
3789535--3789614	21	3.6	22	86	6	108	36	11	23	28	1.89
3789602--3789632	10	3.1	10	90	0	53	41	6	29	22	1.78
3789656--3789792	53	2.6	53	94	1	238	27	17	17	37	1.92
3789762--3789832	20	3.5	20	77	11	74	29	12	16	40	1.86
3791480--3791638	45	3.5	45	81	0	183	41	14	25	18	1.88
3791575--3792012	81	5.5	80	76	10	368	41	12	23	23	1.88
3791587--3792012	235	1.8	233	86	4	615	40	12	23	23	1.88
3791807--3792038	81	2.9	81	81	3	207	41	12	21	24	1.88
3791890--3792157	127	2.1	127	80	3	299	42	13	20	23	1.87
3792007--3792185	81	2.2	80	83	3	216	46	13	17	22	1.83
3793118--3793142	9	2.8	9	100	0	50	0	8	0	92	0.40
3795702--3795733	3	10.7	3	93	0	55	37	0	34	28	1.57
3801984--3802027	22	2.1	21	83	8	54	43	9	4	43	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3802072--3802096	12	2.1	12	100	0	50	44	8	8	40	1.63
3802865--3802914	19	2.5	20	90	3	75	32	16	16	36	1.90
3805813--3805857	15	2.9	16	87	9	67	28	24	6	40	1.80
3808735--3809136	151	2.7	150	80	6	418	37	19	19	24	1.94
3810681--3810716	19	1.9	18	94	5	63	0	19	0	80	0.71
3810826--3810861	18	2.0	18	88	0	54	5	8	5	80	1.01
3811205--3811614	164	2.5	163	78	8	426	50	7	10	30	1.65
3817004--3817399	199	2.0	199	94	0	702	22	22	12	42	1.87
3817513--3817572	12	5.1	11	75	16	50	40	0	18	41	1.50
3818714--3818820	20	4.8	20	69	20	79	29	16	12	41	1.85
3818704--3818800	50	1.9	50	89	0	149	28	17	12	41	1.86
3818714--3818851	70	1.9	73	88	5	210	30	17	11	40	1.85
3818836--3818867	16	2.0	16	100	0	64	37	12	12	37	1.81
3818714--3818867	70	2.2	69	85	9	206	31	16	11	40	1.85
3823085--3823261	52	3.4	52	96	1	311	28	18	18	35	1.94
3823085--3823282	52	3.8	52	91	4	294	29	18	18	34	1.94
3823343--3823367	13	1.9	13	100	0	50	32	16	16	36	1.90
3823326--3823386	32	1.9	32	96	0	113	37	18	11	32	1.86
3823326--3823407	19	4.6	19	79	18	104	37	18	10	32	1.86
3824142--3824234	43	2.2	44	80	5	109	30	17	27	24	1.97
3824190--3824775	43	12.4	52	76	14	383	32	17	24	25	1.97
3824292--3824749	43	10.1	43	80	10	529	31	18	24	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3824239--3824788	92	5.9	92	93	0	911	32	18	24	25	1.97
3824795--3824995	33	6.2	33	87	6	295	20	18	34	26	1.95
3824795--3824988	65	3.0	65	93	1	334	19	19	34	27	1.95
3824793--3824992	98	2.1	96	89	4	312	20	18	34	27	1.96
3825070--3825827	31	23.7	31	74	12	429	30	15	32	20	1.94
3825119--3825448	99	3.4	97	85	6	384	31	14	34	20	1.92
3825408--3825634	30	7.4	29	85	9	283	29	17	28	24	1.97
3825364--3825634	92	2.9	92	88	3	357	30	17	28	22	1.97
3825932--3825977	8	5.6	8	92	5	65	26	6	23	43	1.78
3826791--3826835	16	2.8	16	83	10	56	4	2	8	84	0.84
3834091--3834215	52	2.4	52	93	0	214	28	17	18	36	1.94
3834091--3834235	52	2.8	52	84	4	202	29	16	18	35	1.93
3834224--3834248	13	1.9	13	100	0	50	36	16	16	32	1.90
3834291--3834361	19	3.7	19	92	5	108	36	16	12	33	1.87
3841798--3841854	19	2.9	19	86	2	78	31	14	17	36	1.89
3849975--3850055	28	2.8	30	81	11	105	35	11	22	30	1.89
3850699--3850728	13	2.3	13	94	0	51	36	16	13	33	1.88
3850684--3850748	33	2.0	33	84	6	87	35	15	16	32	1.91
3856987--3857031	15	3.0	15	80	9	56	84	11	4	0	0.76
3856987--3857042	20	2.8	21	78	13	64	82	10	5	1	0.91
3858338--3859090	28	26.7	28	81	8	727	28	29	17	24	1.97
3858610--3858651	22	1.9	22	100	0	84	23	28	19	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3859025--3859114	32	2.8	31	83	1	108	28	27	18	24	1.98
3860037--3860125	46	1.9	46	90	0	142	30	11	12	46	1.76
3860100--3860174	20	3.8	19	77	7	78	30	10	14	44	1.79
3866428--3866509	32	2.4	35	84	8	98	30	15	14	39	1.88
3867189--3868112	48	19.9	48	72	13	643	31	18	24	25	1.97
3867232--3868014	91	8.4	91	87	5	1011	31	18	25	25	1.97
3867931--3868105	87	2.0	88	88	1	262	28	18	26	26	1.98
3868137--3868340	27	7.2	27	84	9	230	29	13	34	22	1.92
3868145--3868313	89	1.9	87	91	2	275	28	14	34	21	1.93
3868137--3868372	116	2.0	116	90	3	377	30	13	33	22	1.93
3868137--3868340	89	2.4	85	82	10	249	29	13	34	22	1.92
3868321--3868527	62	3.2	64	77	8	172	33	13	28	24	1.93
3868437--3868588	31	4.9	31	80	10	152	29	16	28	25	1.97
3868420--3868594	31	5.6	31	79	8	142	30	14	29	25	1.95
3871243--3871268	13	2.0	13	100	0	52	30	15	15	38	1.88
3874892--3874930	9	4.3	9	90	0	51	38	0	35	25	1.56
3874903--3874928	3	8.7	3	100	0	52	34	0	34	30	1.58
3878568--3878613	21	2.2	20	85	7	65	41	19	15	23	1.89
3886910--3886948	16	2.4	17	86	4	53	46	2	20	30	1.64
3886916--3886973	26	2.3	25	82	8	64	44	1	24	29	1.63
3888000--3888064	23	2.9	22	72	6	58	81	4	7	6	0.98
3888021--3888061	15	2.8	15	85	10	50	82	4	2	9	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3888028--3888062	15	2.2	16	90	5	54	82	2	2	11	0.88
3888418--3888483	16	4.2	16	82	1	80	7	13	33	45	1.72
3890384--3890436	19	2.7	20	85	2	72	28	16	15	39	1.89
3890467--3890532	33	2.0	32	85	11	89	37	12	16	33	1.86
3892970--3893105	51	2.7	51	88	0	182	27	16	13	42	1.85
3906985--3907066	32	2.4	35	84	8	98	30	15	14	39	1.88
3907941--3909092	91	12.5	91	87	6	1497	31	18	25	25	1.98
3908181--3908249	21	3.2	20	67	25	52	28	17	27	26	1.97
3908363--3908431	21	3.2	21	66	18	52	30	17	26	26	1.97
3908962--3909088	48	3.0	40	72	17	130	28	20	25	25	1.99
3908913--3909087	87	2.0	88	89	3	273	28	19	26	25	1.99
3909120--3909262	27	5.2	27	88	3	196	30	13	34	22	1.92
3909120--3909261	55	2.6	55	90	2	214	30	13	33	22	1.92
3909249--3909336	34	2.6	34	83	0	95	39	12	27	20	1.88
3909342--3909516	31	5.6	31	78	6	140	31	14	28	25	1.95
3918348--3918393	21	2.2	20	81	7	56	41	17	15	26	1.88
3919300--3919325	13	2.0	13	100	0	52	30	15	15	38	1.88
3925184--3925210	13	2.1	13	100	0	54	29	18	14	37	1.91
3926661--3926718	26	2.3	25	79	8	64	46	1	22	29	1.62
3927731--3927806	21	3.5	22	78	5	73	80	6	5	7	1.03
3927766--3927804	15	2.7	15	85	14	55	84	2	2	10	0.81
3928172--3928232	16	3.8	16	80	6	70	9	14	32	42	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3928164--3928268	32	3.3	32	76	7	90	10	15	31	42	1.80
3928174--3928258	16	5.4	16	78	4	66	9	15	31	43	1.78
3928172--3928264	48	1.9	48	82	4	116	10	15	31	43	1.80
3929704--3929729	13	2.0	13	100	0	52	30	23	15	30	1.95
3929801--3929856	21	2.6	22	94	5	105	37	10	25	26	1.88
3929844--3929874	10	3.1	10	90	0	53	41	6	29	22	1.78
3929898--3930034	53	2.6	53	95	1	247	27	17	17	37	1.92
3930004--3930074	20	3.5	20	79	11	83	30	12	15	40	1.85
3931511--3931563	19	2.7	20	85	2	72	28	16	15	39	1.89
3931593--3931658	33	2.0	32	85	11	89	37	12	16	33	1.86

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