genome.fa.s329.2.7.7.80.10.50.1000.24.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: Scaffold329
Parameters: 2 7 7 80 10 50 1000
Length:  4121247

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   

This is table  24  of  25  ( 2930 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)
3834211--3834258	21	2.3	21	88	0	69	60	4	0	35	1.16
3834478--3834530	29	1.9	28	81	11	65	54	5	1	37	1.35
3836849--3836894	22	2.1	21	84	4	56	52	8	2	36	1.45
3838970--3839002	3	11.0	3	100	0	66	0	33	0	66	0.92
3851461--3851512	20	2.7	20	81	3	61	50	0	0	50	1.00
3858813--3858848	2	18.0	2	88	0	54	50	0	2	47	1.15
3865904--3866270	97	3.8	95	82	6	416	28	19	11	40	1.86
3865889--3866270	193	2.0	195	85	4	531	28	20	11	40	1.87
3865885--3866310	97	4.4	95	77	10	359	27	21	12	38	1.89
3869889--3869942	20	2.7	20	91	0	81	33	12	14	38	1.85
3876274--3876320	16	2.8	17	72	18	53	48	0	0	51	1.00
3877014--3877063	25	2.0	25	81	14	59	70	0	0	30	0.88
3877901--3877955	27	2.2	27	81	12	64	34	3	1	60	1.25
3877952--3877991	20	2.0	20	85	9	55	42	5	2	50	1.37
3878231--3878319	13	7.2	13	67	23	57	51	1	2	44	1.21
3883721--3883766	17	2.5	19	72	13	51	43	0	13	43	1.43
3884603--3884635	17	2.1	17	88	11	52	24	9	3	63	1.38
3885096--3885135	18	2.2	19	90	4	64	45	0	2	52	1.14
3885096--3885135	20	2.2	17	86	13	53	45	0	2	52	1.14
3886718--3886868	34	4.4	34	89	3	223	41	27	8	21	1.82
3890766--3891015	34	7.4	34	88	0	383	43	29	6	20	1.77
3893933--3893976	22	2.2	19	84	12	52	29	13	11	45	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3897413--3897465	20	2.7	19	75	16	63	39	15	15	30	1.87
3897454--3897478	13	1.9	13	100	0	50	32	16	16	36	1.90
3897437--3897500	33	2.0	32	87	9	94	39	15	14	31	1.87
3900044--3900081	13	2.9	13	92	0	58	39	13	13	34	1.83
3901826--3901852	13	2.1	13	100	0	54	29	14	14	40	1.86
3901922--3901975	20	2.7	20	88	5	74	35	12	14	37	1.85
3908192--3908234	21	2.0	23	86	9	63	32	20	0	46	1.51
3910631--3910671	21	2.0	21	95	0	73	43	14	12	29	1.82
3910696--3910749	20	2.7	20	91	5	83	31	12	18	37	1.89
3916144--3916208	20	3.6	19	71	28	70	43	15	13	27	1.85
3916162--3916189	13	2.2	13	100	0	56	42	14	14	28	1.84
3916144--3916236	33	2.8	33	93	0	159	40	13	17	27	1.88
3917633--3917678	18	2.6	18	82	3	58	67	2	2	28	1.14
3917935--3917992	26	2.3	25	82	8	73	43	1	3	51	1.28
3918495--3918531	11	3.4	11	84	0	56	37	0	0	62	0.96
3921860--3921997	70	2.0	68	84	9	183	28	18	8	44	1.79
3921927--3922692	91	8.5	91	81	5	790	34	15	7	42	1.76
3924496--3924529	2	17.0	2	100	0	68	50	0	0	50	1.00
3926361--3926417	24	2.4	24	90	0	87	31	17	8	42	1.80
3928476--3928510	4	8.8	4	87	12	54	25	0	0	74	0.82
3931518--3931586	14	4.6	14	72	18	50	62	0	2	34	1.10
3931563--3931633	32	2.3	31	85	9	92	52	1	2	43	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3931583--3931637	16	3.5	16	72	20	53	50	1	1	45	1.22
3931559--3931628	16	4.7	14	69	19	52	51	1	2	44	1.25
3934819--3934860	21	2.0	21	100	0	84	28	14	19	38	1.90
3937019--3937123	38	2.7	39	80	4	133	36	31	9	22	1.87
3937567--3937618	16	3.3	15	76	10	50	11	17	26	44	1.83
3937782--3937819	20	1.9	19	89	5	58	44	2	0	52	1.14
3937806--3937850	18	2.5	18	79	13	56	44	0	4	51	1.21
3938752--3938795	22	2.0	22	95	0	79	38	4	4	52	1.42
3939428--3939461	3	11.3	3	100	0	68	32	0	0	67	0.91
3941908--3941945	2	19.0	2	100	0	76	50	0	0	50	1.00
3944223--3944261	2	19.5	2	100	0	78	51	0	48	0	1.00
3948319--3948353	16	2.2	16	90	5	54	20	8	17	54	1.68
3948304--3948360	15	3.8	16	77	9	57	21	5	21	52	1.66
3948460--3948514	28	2.0	28	96	0	101	34	14	18	32	1.91
3948548--3948593	16	3.0	15	81	6	56	17	13	26	43	1.85
3963726--3963779	20	2.7	20	91	2	81	37	11	16	35	1.84
3963828--3963879	20	2.6	20	87	0	68	38	15	13	32	1.86
3964840--3964996	63	2.5	63	87	6	237	32	14	15	37	1.88
3972162--3972194	3	11.0	3	100	0	66	33	33	0	33	1.58
3973752--3973889	63	2.2	63	84	0	186	35	15	14	34	1.89
3977230--3977276	21	2.2	21	88	0	67	34	17	17	31	1.92
3978820--3979054	69	3.4	69	72	10	248	23	13	23	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3978874--3979077	68	3.0	69	70	15	195	25	13	23	37	1.92
3978792--3979108	137	2.3	137	93	1	528	25	12	23	38	1.89
3984881--3984947	21	3.3	21	72	8	66	20	11	20	46	1.82
3985171--3985331	57	2.9	54	74	13	144	39	8	5	45	1.58
3985177--3985325	28	5.3	27	73	13	104	40	8	6	44	1.58
3986175--3986230	9	5.9	9	78	16	51	76	0	21	1	0.87
3986196--3986237	5	9.0	5	80	15	54	80	0	19	0	0.70
3986191--3986237	15	2.8	17	75	15	53	78	0	21	0	0.75
3986183--3986237	27	2.0	27	92	0	92	78	0	20	1	0.85
3986491--3986827	146	2.3	143	84	6	435	28	10	16	45	1.79
3988352--3988405	20	2.7	20	83	11	67	35	18	12	33	1.89
3988455--3988519	33	2.0	33	91	8	107	35	18	13	32	1.90
3988442--3988490	19	2.6	18	84	12	62	34	16	16	32	1.91
3991067--3991106	13	3.1	13	92	0	62	42	15	10	32	1.79
3991140--3991177	20	2.0	19	90	10	60	34	7	10	47	1.67
3992525--3992555	16	1.9	16	93	0	53	35	9	0	54	1.33
3995672--3995704	15	2.2	15	94	0	57	30	27	0	42	1.56
3997329--3997403	20	3.8	20	85	7	100	34	14	14	36	1.87
3999619--3999674	24	2.4	23	75	3	58	57	1	0	41	1.09
4000760--4000816	16	3.6	16	77	13	64	35	7	5	52	1.51
4000756--4000816	32	1.9	32	86	6	88	37	6	4	50	1.50
4001222--4001264	22	2.0	22	86	9	61	34	2	0	62	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4001412--4001467	23	2.3	24	81	9	60	37	0	3	58	1.15
4003327--4003365	2	20.0	2	94	5	71	51	0	0	48	1.00
4003330--4003363	17	2.0	17	100	0	68	52	0	0	47	1.00
4008605--4008647	16	2.6	17	92	7	79	44	37	0	18	1.50
4014723--4015028	78	4.0	76	74	10	221	34	19	14	31	1.92
4014909--4015060	76	2.0	78	81	10	179	33	15	17	33	1.91
4015051--4015114	28	2.2	28	83	8	85	43	17	10	28	1.82
4015052--4015124	28	2.6	29	82	8	71	42	17	9	30	1.81
4015095--4015237	58	2.5	59	79	6	157	43	15	11	29	1.82
4018104--4018346	122	2.0	124	85	1	328	46	10	10	32	1.71
4019117--4019155	17	2.3	17	100	0	78	56	12	10	20	1.65
4021588--4021647	23	2.6	23	94	0	102	48	0	0	51	1.00
4022658--4022813	62	2.5	62	84	5	183	38	5	14	41	1.69
4022625--4022991	61	6.0	61	76	5	186	36	7	13	42	1.73
4022902--4023237	61	5.6	61	75	10	196	33	7	13	45	1.73
4024678--4024739	18	3.6	17	74	24	58	37	0	0	62	0.95
4024668--4024712	23	2.0	23	86	0	63	33	0	0	66	0.92
4024679--4024745	17	3.9	17	77	13	66	38	0	0	61	0.96
4024679--4024745	35	1.9	35	87	6	100	38	0	0	61	0.96
4024697--4024758	12	5.2	12	77	11	56	40	0	0	59	0.97
4024757--4024781	6	4.2	6	100	0	50	48	0	0	52	1.00
4024861--4024907	20	2.3	21	88	3	69	57	2	0	40	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4024974--4025026	19	2.9	19	74	20	60	28	0	0	71	0.86
4024986--4025024	16	2.5	15	84	12	51	28	0	0	71	0.86
4024978--4025040	27	2.2	30	88	8	96	33	0	0	66	0.92
4025209--4025253	23	1.9	24	86	13	67	44	0	0	55	0.99
4025199--4025255	12	4.6	13	73	18	50	47	0	0	52	1.00
4025209--4025257	20	2.2	23	82	13	59	44	0	0	55	0.99
4025283--4025340	25	2.4	24	79	2	62	44	5	1	48	1.35
4025504--4025537	14	2.4	14	90	5	50	52	2	0	44	1.16
4025891--4025921	9	3.4	9	100	0	62	38	0	0	61	0.96
4026558--4026587	3	10.0	3	100	0	60	33	0	0	66	0.92

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