genome.fa.s55.2.7.7.80.10.50.1000.18.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: Scaffold55
Parameters: 2 7 7 80 10 50 1000
Length:  4293517

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  18  of  21  ( 2443 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)
3768646--3769322	236	2.9	235	82	7	761	27	24	12	35	1.91
3768646--3769323	315	2.2	313	82	7	809	27	25	12	35	1.91
3769260--3769374	51	2.3	50	87	6	160	28	27	10	33	1.90
3769182--3769423	130	1.9	129	84	7	330	29	25	9	35	1.88
3772571--3772638	33	2.1	32	86	2	91	32	11	17	38	1.86
3772671--3772723	20	2.7	20	90	0	79	30	15	13	41	1.85
3773292--3773336	22	2.0	22	87	12	65	40	24	0	35	1.56
3774744--3774794	20	2.5	20	83	6	57	3	25	49	21	1.67
3775228--3775263	13	2.8	13	95	0	63	33	13	19	33	1.91
3777417--3777475	29	2.0	29	100	0	118	40	23	6	28	1.80
3781432--3781499	33	2.1	33	91	2	111	32	14	17	35	1.91
3781532--3781584	20	2.7	20	90	0	79	30	15	13	41	1.85
3793114--3793226	51	2.2	51	91	0	190	30	28	11	30	1.92
3793166--3793706	79	6.8	78	79	8	485	27	24	12	34	1.92
3794015--3794077	32	1.9	33	87	9	94	30	15	12	41	1.85
3794043--3794098	19	2.9	19	86	2	67	35	17	8	37	1.82
3794127--3794179	20	2.7	20	88	5	72	33	11	20	33	1.88
3795796--3795832	3	12.3	3	88	0	56	40	0	29	29	1.57
3800324--3800362	20	1.9	21	94	5	71	35	12	17	33	1.88
3802211--3802291	24	3.5	24	68	13	78	37	6	13	43	1.69
3802226--3802302	22	3.1	27	62	27	71	35	7	20	36	1.82
3802204--3802310	46	2.3	46	100	0	214	35	5	19	39	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3808181--3808207	10	2.7	10	100	0	54	33	29	18	18	1.95
3809480--3809532	24	2.2	25	82	3	63	24	7	18	49	1.74
3809505--3809582	38	2.1	38	82	4	95	23	8	12	55	1.65
3809628--3809748	43	2.9	42	91	4	183	47	3	26	22	1.66
3811555--3811606	21	2.4	21	75	15	52	3	26	0	69	1.06
3812105--3812479	167	2.3	167	81	7	424	49	8	12	29	1.68
3814024--3814704	168	4.1	167	82	3	779	51	7	9	31	1.63
3814098--3814858	168	4.6	167	79	5	738	50	6	11	30	1.64
3815790--3815899	42	2.6	42	81	4	114	43	19	20	16	1.88
3816325--3816370	23	2.0	23	82	4	56	17	8	6	67	1.39
3816914--3817277	166	2.2	165	81	6	391	49	10	11	28	1.73
3816997--3817418	155	2.6	156	75	12	390	49	8	11	30	1.70
3819008--3819236	42	5.4	42	68	13	123	37	14	27	20	1.92
3819009--3819330	169	1.9	167	86	6	454	37	15	27	20	1.92
3819009--3819248	84	2.9	82	73	14	229	37	15	26	20	1.93
3819369--3819460	42	2.2	41	77	9	98	41	15	27	16	1.88
3819093--3819646	250	2.2	252	79	7	592	36	14	30	18	1.91
3819367--3819750	167	2.3	168	78	3	369	36	14	30	18	1.91
3819829--3819929	40	2.4	42	80	11	118	42	16	26	13	1.86
3820365--3820720	78	4.6	78	81	4	371	28	16	26	28	1.97
3820339--3820720	156	2.5	154	81	4	428	29	15	26	27	1.96
3824064--3824209	50	2.9	51	90	2	231	45	10	16	28	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3824112--3824198	20	3.8	20	72	25	75	44	11	16	27	1.81
3825554--3825755	89	2.3	89	80	3	210	42	12	19	24	1.87
3826641--3826671	11	2.8	11	95	0	53	0	12	0	87	0.55
3826904--3826981	11	7.7	10	70	22	56	5	15	1	78	0.99
3826952--3827008	1	57.0	1	75	0	51	0	5	7	87	0.66
3826904--3826981	17	4.4	17	72	18	61	5	15	1	78	0.99
3826954--3827021	6	11.3	6	83	10	59	0	4	11	83	0.78
3826966--3827018	19	2.8	20	85	5	65	0	1	13	84	0.69
3826952--3827018	25	2.7	25	88	0	89	0	4	10	85	0.74
3828453--3828477	10	2.5	10	100	0	50	40	16	24	20	1.91
3830701--3830725	13	1.9	13	100	0	50	36	16	16	32	1.90
3830681--3830747	33	2.0	33	88	0	98	32	11	14	40	1.83
3830788--3830812	13	1.9	13	100	0	50	32	16	16	36	1.90
3830801--3830951	52	2.9	52	89	2	232	32	19	16	31	1.94
3834108--3834895	155	5.1	154	74	8	559	38	21	17	23	1.93
3834108--3834895	310	2.6	304	84	4	942	38	21	17	23	1.93
3836534--3836588	21	2.7	20	75	10	58	7	16	0	76	1.00
3836537--3836588	20	2.5	20	76	14	61	7	13	0	78	0.94
3836921--3837856	166	5.6	165	75	10	529	49	10	11	28	1.72
3837157--3837808	168	3.9	167	77	11	436	50	9	12	27	1.70
3837364--3837772	165	2.5	164	84	5	511	52	7	12	26	1.66
3839083--3839121	17	2.5	15	80	15	51	2	17	0	79	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3839075--3839119	24	1.9	24	90	4	74	4	17	0	77	0.92
3839075--3839121	23	2.0	23	88	8	69	4	19	0	76	0.95
3840874--3840963	9	10.8	8	72	13	58	73	10	1	15	1.15
3840843--3840917	25	2.9	25	78	9	80	72	10	1	16	1.19
3840868--3840962	25	3.8	25	75	5	86	72	9	2	15	1.19
3840874--3840964	42	2.1	41	82	13	105	73	9	1	15	1.14
3842466--3842499	15	2.3	15	90	10	52	73	0	0	26	0.83
3842967--3843312	156	2.2	154	80	5	358	22	15	23	38	1.92
3843057--3843339	155	1.8	157	79	3	338	23	15	21	39	1.91
3847139--3847176	11	3.5	11	82	13	51	81	0	18	0	0.69
3847139--3847167	13	2.1	14	93	6	51	82	0	17	0	0.66
3849288--3849343	8	6.8	8	73	15	51	78	1	17	1	0.92
3850129--3851710	44	36.2	44	72	7	959	19	23	16	40	1.91
3850215--3851710	131	11.4	130	76	8	847	19	23	16	40	1.91
3851817--3851904	43	2.1	42	82	2	104	12	31	20	35	1.90
3851917--3852049	43	3.1	43	66	5	108	18	29	20	31	1.96
3851926--3852085	85	1.9	85	83	3	207	18	30	17	34	1.94
3852249--3852475	43	5.3	43	65	6	120	14	28	13	42	1.84
3852226--3853169	85	11.1	85	80	4	888	15	29	15	40	1.88
3855803--3856217	156	2.7	154	75	10	371	22	17	21	39	1.92
3857399--3857931	167	3.2	165	85	4	709	29	12	8	49	1.69
3858559--3858587	10	2.7	11	89	10	51	82	0	10	6	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3859387--3859848	164	2.8	164	89	2	687	35	11	11	41	1.77
3860656--3861546	156	5.7	153	80	5	826	23	16	21	38	1.92
3860656--3861546	311	2.9	310	79	5	879	23	16	21	38	1.92
3867719--3867773	20	2.6	22	88	5	78	43	12	10	32	1.78
3868248--3868703	61	7.4	59	78	10	347	28	19	26	25	1.98
3881798--3881823	13	2.0	13	100	0	52	38	15	15	30	1.88
3881776--3881843	33	2.1	32	91	2	109	32	13	19	35	1.90
3881924--3881948	13	1.9	13	100	0	50	36	16	16	32	1.90
3884220--3884257	13	2.9	13	92	0	58	34	15	18	31	1.92
3884460--3884493	8	4.2	8	100	0	68	61	23	0	14	1.33
3886818--3886870	20	2.6	21	82	8	65	30	16	15	37	1.90
3886858--3886882	13	1.9	13	100	0	50	36	16	16	32	1.90
3888088--3888377	79	3.7	79	79	4	284	36	15	23	24	1.93
3888195--3888543	185	1.9	185	83	3	461	37	13	23	25	1.92
3888389--3888594	78	2.6	76	82	8	245	34	12	25	28	1.92
3890986--3891043	20	2.8	20	86	5	71	36	10	12	41	1.76
3891062--3891121	21	2.9	21	71	11	61	30	11	11	46	1.76
3895233--3895287	20	2.8	20	97	0	101	38	9	14	38	1.78
3896077--3896391	49	6.3	49	80	6	312	33	17	24	25	1.96
3896077--3896391	150	2.1	148	84	4	402	33	17	24	25	1.96
3896077--3896503	101	4.4	98	77	10	335	32	17	24	25	1.96
3896372--3896449	39	2.0	39	82	5	95	26	19	24	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3896497--3896679	34	5.8	32	75	15	132	33	14	31	20	1.93
3896627--3896917	28	10.0	30	80	9	217	24	17	29	28	1.97
3896722--3896919	28	7.0	28	81	6	247	21	17	29	31	1.96
3896690--3896919	57	4.0	57	88	4	329	23	17	28	30	1.97
3898350--3898395	18	2.5	18	82	3	56	0	8	6	84	0.77
3913511--3913606	48	2.0	48	97	0	183	40	20	23	14	1.90
3914187--3914233	21	2.2	21	85	7	60	4	23	0	72	1.02
3914198--3914247	11	4.5	11	80	14	59	0	28	0	72	0.86
3914202--3914248	20	2.3	21	85	3	60	0	31	0	68	0.90
3914187--3914248	11	5.7	10	76	14	52	3	27	0	69	1.04

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21