genome.fa.s228.2.7.7.80.10.50.1000.25.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: Scaffold228
Parameters: 2 7 7 80 10 50 1000
Length:  4123243

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   

This is table  25  of  27  ( 3133 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)
3797463--3797660	62	3.2	62	62	16	149	31	15	15	37	1.89
3797465--3797708	122	2.0	121	96	0	452	32	15	14	37	1.88
3799900--3800222	161	2.0	162	95	0	576	33	24	18	23	1.97
3800955--3801007	19	2.9	18	75	10	54	33	0	0	66	0.92
3801228--3801320	43	2.1	44	90	2	143	44	5	7	43	1.55
3803538--3803569	2	16.0	2	100	0	64	50	0	0	50	1.00
3805393--3805423	16	1.9	16	93	0	53	32	0	0	67	0.91
3805391--3805445	20	3.0	20	76	15	64	34	0	0	65	0.93
3805412--3805456	23	2.0	22	87	12	65	42	0	0	57	0.98
3805414--3805459	22	2.1	21	84	11	58	43	0	0	56	0.99
3805444--3805488	21	2.2	20	84	15	56	53	0	0	46	1.00
3808158--3808208	9	5.6	9	79	11	59	37	1	0	60	1.08
3808301--3808370	26	2.6	26	74	19	63	51	4	0	44	1.21
3808776--3808836	31	2.0	31	83	0	77	36	0	8	55	1.30
3809871--3809927	15	3.7	15	71	2	51	56	0	1	42	1.10
3810004--3810043	19	2.0	19	85	9	53	65	2	2	30	1.19
3809991--3810048	21	2.7	23	77	20	54	67	1	1	29	1.11
3811246--3811280	17	1.9	19	88	11	56	60	0	0	40	0.97
3811247--3811293	19	2.6	18	83	6	51	63	0	2	34	1.06
3811807--3811839	17	2.0	17	88	5	50	24	0	0	75	0.80
3812465--3812540	25	3.0	25	78	14	68	44	0	0	55	0.99
3813065--3813100	7	5.1	7	96	0	63	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3813958--3813994	3	12.3	3	100	0	74	67	0	0	32	0.91
3814088--3814148	11	5.5	11	71	7	52	18	0	1	80	0.80
3814080--3814147	6	10.7	6	76	20	59	17	0	2	79	0.86
3814088--3814125	17	2.2	17	90	0	58	15	0	0	84	0.63
3814077--3814147	21	3.1	23	84	11	76	18	0	2	78	0.86
3814075--3814149	28	2.8	27	75	24	79	21	0	2	76	0.92
3814080--3814149	7	9.7	7	72	16	54	18	0	2	78	0.87
3814111--3814156	21	2.1	22	84	4	58	26	0	2	71	0.97
3817358--3817417	31	1.9	31	86	6	86	48	0	0	51	1.00
3819878--3820237	58	6.2	58	74	7	275	43	15	11	28	1.82
3821075--3821121	17	2.7	18	77	12	53	4	19	2	74	1.09
3827848--3828089	109	2.2	109	81	6	258	31	13	16	38	1.88
3828431--3828490	25	2.4	26	75	13	63	45	1	3	50	1.28
3828478--3828535	21	2.7	21	72	17	57	67	1	0	31	1.01
3828491--3828538	17	2.9	18	82	14	59	66	2	0	31	1.03
3829441--3829500	8	7.9	8	71	17	56	65	0	0	35	0.93
3829441--3829520	16	4.7	16	74	17	63	62	0	0	37	0.95
3830474--3830503	5	6.0	5	92	0	51	43	0	0	56	0.99
3830475--3830532	10	5.7	10	80	11	64	48	0	0	51	1.00
3830474--3830521	15	3.1	15	80	11	53	43	0	0	56	0.99
3830483--3830556	22	3.3	23	75	11	82	47	0	0	52	1.00
3830536--3830568	13	2.5	14	85	14	52	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3830948--3830989	22	1.9	22	90	9	68	35	0	9	54	1.33
3831771--3831807	18	2.1	18	90	10	58	37	27	0	35	1.57
3831890--3831973	14	6.0	14	73	16	68	57	0	1	41	1.06
3831899--3832008	44	2.5	44	76	13	111	60	0	0	39	1.03
3831968--3832030	26	2.4	26	78	14	67	65	1	0	33	1.03
3831956--3832012	22	2.8	20	84	10	64	63	0	0	36	0.95
3831980--3832032	24	2.3	24	87	6	74	64	1	0	33	1.05
3833054--3833116	10	6.5	10	72	20	53	66	1	0	31	1.01
3833053--3833156	37	3.0	35	77	14	101	61	3	0	34	1.14
3833093--3833156	33	1.9	33	84	12	87	60	6	0	32	1.21
3835835--3835886	17	3.1	16	72	8	50	5	19	0	75	1.01
3836756--3836819	33	1.9	33	81	12	78	59	6	0	34	1.23
3837025--3837056	16	2.0	16	100	0	64	12	6	0	81	0.87
3838008--3838058	12	4.2	12	82	7	68	68	0	0	31	0.90
3838010--3838054	23	2.0	23	95	0	81	68	0	0	31	0.89
3838018--3838133	23	4.9	23	71	19	69	62	0	2	35	1.09
3844774--3844833	22	2.9	20	85	11	77	66	0	0	33	0.92
3844792--3844887	11	8.8	11	70	22	53	58	0	0	41	0.98
3844795--3844902	26	3.9	29	72	25	92	58	0	0	41	0.98
3844855--3844902	7	6.4	8	77	20	50	56	0	0	43	0.99
3850208--3850245	20	1.9	20	84	10	51	57	2	0	39	1.12
3854949--3854980	7	4.6	7	92	0	55	62	0	37	0	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3855110--3855145	2	18.0	2	100	0	72	50	0	0	50	1.00
3855293--3855329	16	2.4	17	86	13	53	48	0	0	51	1.00
3855423--3855493	34	2.1	34	81	5	81	39	0	5	54	1.24
3855473--3855537	22	3.1	20	81	14	78	40	0	0	60	0.97
3856532--3856579	14	3.4	14	78	18	55	64	2	0	33	1.05
3857386--3857416	14	2.3	14	94	5	55	16	0	6	77	0.97
3860507--3860534	13	2.2	13	100	0	56	57	0	0	42	0.99
3864840--3864880	3	13.7	3	100	0	82	34	0	0	65	0.93
3869882--3870332	58	7.8	58	89	0	623	14	18	32	33	1.92
3876875--3876998	62	2.0	62	100	0	248	16	24	14	45	1.84
3880139--3880186	15	3.2	14	80	11	51	33	0	0	66	0.92
3888141--3888189	18	2.9	17	81	9	64	79	0	12	8	0.93
3888317--3888357	17	2.3	19	87	8	59	24	2	2	70	1.11
3888485--3888522	13	3.0	13	82	17	53	28	0	0	71	0.87
3888720--3888763	23	1.9	23	81	9	54	38	0	9	52	1.33
3902331--3902460	35	3.7	35	81	10	122	62	0	0	36	1.01
3902337--3902453	20	6.0	20	72	16	77	61	0	0	37	1.02
3902365--3902458	42	2.2	43	80	16	108	60	1	0	38	1.04
3902795--3902832	14	2.7	14	88	8	51	36	0	0	63	0.95
3908848--3908961	17	6.8	17	74	16	78	59	0	0	38	1.09
3908847--3908929	31	2.7	32	77	7	82	59	0	1	39	1.05
3908811--3908942	49	2.7	48	79	17	141	62	0	0	36	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3908868--3908962	42	2.2	41	72	18	63	60	1	1	37	1.11
3908808--3908942	22	5.7	24	76	21	92	63	0	0	35	1.00
3909318--3909360	21	2.0	21	82	8	52	44	0	2	53	1.13
3909331--3909367	14	2.6	14	91	4	56	37	0	0	62	0.96
3918485--3918612	63	2.0	63	92	0	211	31	4	10	53	1.55
3919396--3919423	4	7.0	4	100	0	56	25	0	0	75	0.81
3919585--3919617	2	16.5	2	100	0	66	48	0	0	51	1.00
3919376--3919830	213	2.1	211	98	0	874	40	5	11	42	1.63
3919798--3919862	2	32.5	2	100	0	130	49	0	0	50	1.00
3922164--3922212	22	2.2	22	100	0	98	67	8	8	16	1.40
3923131--3923205	20	3.8	20	80	3	80	40	12	13	34	1.81
3923128--3923205	40	2.0	39	87	2	111	39	12	12	34	1.82
3924326--3924378	16	3.3	16	81	5	63	43	30	13	13	1.82
3925508--3925555	23	2.1	22	81	11	53	37	0	0	62	0.95
3925805--3925855	21	2.4	22	75	15	54	64	0	0	35	0.94
3925803--3925870	26	3.0	21	73	21	55	66	0	0	33	0.92
3930422--3930446	11	2.3	11	100	0	50	20	0	0	80	0.72
3930682--3930721	21	1.9	21	94	0	71	35	2	30	32	1.71
3932948--3932995	24	2.0	24	100	0	96	20	20	29	29	1.98
3937612--3937666	26	2.1	26	96	0	101	50	14	12	21	1.76
3940693--3940718	3	8.7	3	100	0	52	0	0	65	34	0.93
3945998--3946022	3	8.3	3	100	0	50	32	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3946235--3946305	27	2.7	27	82	2	90	45	0	0	54	0.99
3946267--3946319	21	2.5	21	84	3	61	45	0	0	54	0.99
3946387--3946431	21	2.1	21	84	15	58	28	0	0	71	0.87
3946755--3946840	26	3.3	24	73	13	73	41	1	13	43	1.52
3946808--3946876	26	2.7	24	73	20	59	52	0	2	44	1.16
3948958--3948998	21	2.0	21	90	0	64	39	12	7	41	1.70
3952444--3952471	14	2.0	14	100	0	56	42	14	7	35	1.73
3956756--3956780	12	2.1	12	100	0	50	52	8	16	24	1.70
3958675--3958710	13	2.6	14	91	4	56	0	13	0	86	0.58
3958678--3958730	13	3.7	15	82	14	51	1	20	0	77	0.87

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