genome.fa.s59.2.7.7.80.10.50.1000.23.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: Scaffold59
Parameters: 2 7 7 80 10 50 1000
Length:  3999109

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  23  of  25  ( 2913 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)
3595979--3596014	3	12.0	3	100	0	72	66	0	0	33	0.92
3599121--3599154	6	5.5	6	86	6	50	0	20	0	79	0.73
3599470--3599502	2	16.5	2	100	0	66	51	0	0	48	1.00
3600322--3600372	23	2.2	24	85	3	68	41	9	0	49	1.36
3600620--3600645	13	2.0	13	100	0	52	84	0	0	15	0.62
3602310--3602382	16	4.6	16	66	11	51	52	4	4	39	1.40
3602979--3603012	12	2.9	12	91	4	52	2	11	0	85	0.71
3603572--3603621	16	3.1	16	75	24	52	52	0	0	48	1.00
3603803--3603830	2	14.0	2	100	0	56	0	50	0	50	1.00
3604867--3604910	19	2.2	20	84	11	56	25	2	6	65	1.28
3605172--3605214	3	14.3	3	100	0	86	67	0	0	32	0.91
3606136--3606188	24	2.2	23	81	15	63	62	0	0	37	0.96
3606302--3606341	20	2.0	21	90	5	64	35	0	0	65	0.93
3607380--3607430	23	2.2	21	78	18	57	52	0	0	47	1.00
3607417--3607473	25	2.3	26	85	11	75	59	0	0	40	0.97
3607438--3607485	20	2.3	20	85	3	60	64	2	0	33	1.05
3612371--3612401	2	16.0	2	93	6	55	51	0	0	48	1.00
3612757--3612809	2	26.0	2	96	3	97	49	0	1	49	1.12
3612757--3612815	8	7.1	9	96	1	74	47	0	3	49	1.18
3614243--3614293	14	3.6	14	75	19	52	43	0	0	56	0.99
3615537--3615582	24	1.9	24	90	0	74	47	8	2	41	1.46
3617109--3617148	18	2.2	18	91	8	64	77	10	7	5	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3617341--3617559	34	6.5	34	87	4	309	40	26	7	25	1.83
3617339--3617559	102	2.2	101	93	3	381	40	26	7	25	1.82
3621622--3621684	19	3.3	19	90	0	90	34	19	17	28	1.94
3621992--3622208	34	6.4	34	84	4	260	40	26	7	25	1.82
3621992--3622208	68	3.2	68	86	0	292	40	26	7	25	1.82
3621991--3622208	102	2.1	101	88	3	330	40	26	7	25	1.81
3627308--3627345	19	2.0	19	100	0	76	26	21	15	36	1.93
3631647--3631748	19	5.6	18	72	13	75	44	0	0	54	1.06
3632832--3632856	13	1.9	13	100	0	50	24	28	0	48	1.52
3635318--3635356	17	2.3	17	86	8	53	69	2	7	20	1.26
3635351--3635390	18	2.0	21	86	13	59	52	0	2	45	1.14
3638942--3638980	3	13.7	3	84	10	55	71	0	0	28	0.86
3638950--3639004	20	2.8	20	81	13	60	65	0	0	34	0.93
3638959--3639005	16	2.9	17	87	6	62	63	0	0	36	0.94
3646626--3646701	14	5.6	14	69	12	59	39	1	2	56	1.21
3646948--3647113	56	3.0	58	82	11	172	37	13	4	44	1.65
3647037--3647119	26	3.2	26	67	13	80	40	7	4	46	1.52
3647025--3647134	52	2.1	53	98	1	213	42	10	3	43	1.55
3647053--3647134	26	3.2	26	66	13	78	45	9	2	42	1.50
3651420--3651452	2	16.5	2	100	0	66	51	0	0	48	1.00
3651728--3651807	31	2.8	28	83	10	99	41	0	3	55	1.18
3653279--3653327	23	2.1	23	92	0	80	51	6	4	38	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3656883--3656938	28	2.0	29	89	3	87	37	8	5	48	1.58
3658270--3658339	30	2.4	29	88	9	99	54	1	1	42	1.18
3660527--3661000	158	3.0	158	99	0	939	31	10	17	40	1.83
3664675--3664703	3	9.7	3	100	0	58	31	0	0	68	0.89
3667246--3667274	14	2.1	14	100	0	58	13	0	0	86	0.58
3670671--3670718	24	2.0	25	87	4	71	58	4	0	37	1.18
3670727--3670760	18	1.9	17	93	0	50	58	0	2	38	1.13
3674610--3674665	16	3.5	16	85	0	76	7	23	33	35	1.82
3674626--3674761	16	8.5	16	73	9	71	10	15	30	44	1.80
3674957--3674996	18	2.2	18	86	8	55	50	2	2	45	1.28
3678589--3678709	52	2.3	52	97	0	224	28	18	18	34	1.94
3678589--3678729	52	2.7	51	90	4	212	30	17	18	33	1.94
3678718--3678742	13	1.9	13	100	0	50	36	16	16	32	1.90
3678808--3678832	13	1.9	13	100	0	50	32	16	16	36	1.90
3678786--3678852	33	2.0	33	88	0	98	40	13	11	34	1.81
3679798--3679843	16	2.8	17	80	9	51	10	17	32	39	1.84
3682883--3682932	25	2.0	26	84	4	66	40	2	10	48	1.48
3691337--3691379	16	2.7	16	81	0	50	41	4	27	25	1.75
3694198--3694230	2	16.5	2	100	0	66	51	0	0	48	1.00
3696502--3696547	9	5.3	9	78	17	53	69	0	0	30	0.89
3696958--3696984	3	9.0	3	100	0	54	33	0	0	66	0.92
3702760--3702789	12	2.5	12	94	0	51	56	0	3	40	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3702768--3702801	17	2.1	16	88	5	50	52	0	5	41	1.25
3703281--3703323	3	14.3	3	85	0	59	4	30	0	65	1.13
3711207--3711264	27	2.1	27	87	0	80	32	25	12	29	1.92
3714340--3714383	2	22.0	2	100	0	88	0	50	0	50	1.00
3716060--3716198	47	2.9	48	78	5	129	41	6	7	44	1.59
3716873--3716933	23	2.8	20	75	20	61	54	0	1	44	1.10
3716868--3716928	20	2.9	21	73	22	63	50	0	1	47	1.10
3717655--3717732	40	1.9	41	82	7	97	46	2	11	39	1.54
3724618--3724656	2	19.5	2	94	0	69	48	0	51	0	1.00
3728589--3728635	2	23.5	2	95	0	85	0	48	2	48	1.13
3729852--3729897	3	15.3	3	100	0	92	67	0	0	32	0.91
3729954--3729978	13	1.9	13	100	0	50	56	0	0	44	0.99
3732202--3732227	2	13.0	2	100	0	52	50	0	50	0	1.00
3732761--3732785	2	12.5	2	100	0	50	48	0	0	52	1.00
3737423--3737455	15	2.2	15	100	0	66	81	12	0	6	0.85
3746231--3746278	9	5.7	9	75	20	50	45	0	0	54	0.99
3749117--3749418	147	2.1	147	99	0	595	39	22	8	29	1.84
3749697--3749736	21	1.9	20	85	10	53	55	0	0	45	0.99
3749786--3749827	20	2.1	20	90	0	66	45	0	2	52	1.13
3753700--3753745	23	2.1	22	88	8	67	45	0	0	54	0.99
3753721--3753784	16	3.9	17	72	17	55	45	4	0	50	1.22
3754566--3754600	13	2.6	13	86	4	52	42	0	0	57	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3755545--3755607	25	2.6	24	78	11	67	57	3	4	34	1.36
3756242--3756284	23	1.9	22	81	13	52	69	4	2	23	1.18
3759279--3759314	15	2.3	16	90	4	56	5	11	2	80	0.98
3760511--3760559	9	5.2	9	87	7	71	83	0	12	4	0.77
3765631--3765679	23	2.1	24	88	3	73	53	18	6	22	1.66
3765795--3765853	28	2.1	29	87	9	86	50	20	5	23	1.67
3767736--3767800	32	2.0	32	82	8	78	53	4	9	32	1.53
3770965--3771071	16	6.7	16	74	0	97	6	21	35	36	1.80
3770966--3771121	32	4.8	32	72	4	107	8	19	32	39	1.81
3770966--3771089	48	2.6	49	79	6	128	8	20	33	37	1.83
3771111--3771135	12	2.1	12	100	0	50	8	16	40	36	1.77
3771312--3771361	18	2.7	18	84	3	64	44	0	2	54	1.11
3772491--3772532	12	3.6	12	75	18	52	7	11	40	40	1.69
3772494--3772544	23	2.2	23	96	0	93	9	13	41	35	1.78
3772588--3772641	16	3.4	16	81	0	63	14	18	27	38	1.90
3779460--3779486	2	13.5	2	100	0	54	48	0	0	51	1.00
3781780--3781833	20	2.6	21	77	13	58	35	16	9	38	1.81
3782813--3783255	79	5.6	79	79	3	410	35	11	24	27	1.91
3782804--3783255	158	2.9	158	80	2	498	36	11	24	27	1.90
3788642--3788679	19	2.0	19	94	0	67	18	15	23	42	1.89
3790413--3790465	3	17.7	3	100	0	106	66	0	0	33	0.92
3791089--3791122	17	1.9	18	88	5	52	35	5	0	58	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3791222--3791261	20	1.9	20	85	10	53	62	0	10	27	1.27
3791489--3791552	19	3.4	18	75	8	58	71	9	1	17	1.19
3791978--3792024	15	3.2	14	87	6	58	78	2	0	19	0.85
3794359--3794420	21	2.9	22	88	7	76	51	0	0	48	1.00
3794869--3794929	11	5.8	11	76	21	60	72	0	0	27	0.85
3794885--3794930	16	2.9	15	87	9	65	73	0	0	26	0.83
3794923--3794965	22	2.0	21	82	13	52	58	0	0	41	0.98
3797748--3797846	24	3.8	25	75	16	76	54	0	0	45	0.99
3806546--3806585	16	2.5	16	79	0	53	40	0	5	55	1.22
3817371--3818249	305	2.9	304	86	3	1126	40	4	5	50	1.44

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