genome.fa.s412.2.7.7.80.10.50.1000.25.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: Scaffold412
Parameters: 2 7 7 80 10 50 1000
Length:  4645160

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   30   31   32   

This is table  25  of  32  ( 3728 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)
3568795--3568925	43	2.9	44	79	7	156	32	16	24	25	1.96
3568929--3569174	28	8.7	27	76	9	86	18	18	29	33	1.95
3568939--3569266	29	11.6	27	78	10	268	20	17	30	32	1.95
3568994--3569260	29	9.5	28	83	6	297	20	17	29	32	1.95
3568994--3569260	57	4.7	55	87	3	336	20	17	29	32	1.95
3582845--3582888	22	2.0	23	81	4	54	40	4	4	50	1.43
3582923--3582985	32	2.0	32	90	0	99	19	15	23	41	1.90
3582928--3583079	16	9.4	16	72	12	78	16	13	26	42	1.86
3585007--3585040	17	2.0	17	100	0	68	52	5	0	41	1.25
3587831--3587857	2	13.5	2	100	0	54	51	0	0	48	1.00
3589902--3589954	26	2.1	24	82	6	61	73	11	3	11	1.22
3595180--3595205	13	2.0	13	100	0	52	30	15	15	38	1.88
3595852--3595978	61	2.1	61	83	0	155	40	13	22	23	1.90
3595981--3596194	52	4.1	52	75	9	157	36	16	22	23	1.94
3596214--3596340	52	2.4	52	81	0	137	36	16	25	22	1.94
3597368--3597440	20	3.6	20	79	3	92	36	13	17	31	1.89
3597386--3597461	21	3.7	21	76	3	91	43	11	15	28	1.83
3597368--3597461	41	2.3	41	96	0	170	40	12	17	29	1.86
3597500--3597525	13	2.0	13	100	0	52	38	15	15	30	1.88
3601587--3601617	15	2.1	15	93	0	53	48	16	22	12	1.80
3603633--3603710	20	3.6	21	73	15	70	25	12	16	44	1.83
3603697--3603735	13	3.0	13	96	0	69	30	17	15	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3605556--3605628	36	2.0	36	100	0	146	42	5	35	16	1.71
3606214--3606286	20	3.6	20	81	3	101	35	13	19	31	1.91
3606232--3606307	21	3.7	21	80	3	100	42	11	17	28	1.84
3606214--3606307	41	2.3	41	98	0	179	39	12	18	29	1.88
3606346--3606371	13	2.0	13	100	0	52	38	15	15	30	1.88
3608023--3608093	13	5.4	13	81	8	72	2	2	11	83	0.87
3608021--3608098	21	3.5	21	84	10	93	2	2	11	83	0.85
3608021--3608098	8	10.2	8	76	18	62	2	2	11	83	0.85
3608021--3608105	25	3.5	24	81	10	86	3	2	11	82	0.89
3608022--3608069	7	6.9	7	86	9	71	0	0	14	85	0.60
3610098--3610299	101	2.0	101	100	0	404	31	22	17	27	1.97
3617441--3617466	13	2.0	13	100	0	52	30	15	15	38	1.88
3617421--3617484	33	2.0	32	87	3	92	28	14	18	39	1.90
3617567--3617591	13	1.9	13	100	0	50	24	16	16	44	1.86
3617600--3617640	20	2.0	20	95	0	73	29	12	21	36	1.90
3618146--3618190	22	2.0	22	91	8	74	35	28	0	35	1.58
3619013--3619088	37	2.1	37	100	0	152	19	10	36	32	1.86
3620305--3620330	8	3.2	8	100	0	52	61	23	0	15	1.33
3622087--3622112	13	2.0	13	100	0	52	30	23	15	30	1.95
3622159--3622216	21	2.7	22	94	5	109	37	13	22	25	1.91
3622261--3622397	53	2.6	53	95	1	247	27	17	18	37	1.93
3622367--3622437	20	3.5	20	77	11	74	29	12	16	40	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3622477--3622517	21	2.0	21	85	9	57	39	9	12	39	1.76
3627680--3627731	20	2.7	20	87	3	70	25	13	21	40	1.89
3627773--3627828	21	2.8	21	81	10	64	26	16	16	41	1.88
3627814--3627838	13	1.9	13	100	0	50	24	16	16	44	1.86
3630627--3630740	51	2.2	51	87	3	167	32	12	25	29	1.92
3630723--3630799	28	2.7	30	81	15	92	31	22	25	20	1.98
3630756--3630999	76	3.2	76	80	8	253	33	14	24	28	1.94
3630954--3631218	102	2.6	103	82	7	324	35	10	23	30	1.89
3630935--3631218	51	5.6	50	79	7	265	33	11	25	29	1.91
3630924--3631215	153	2.0	147	80	10	333	34	11	24	29	1.90
3633503--3633557	20	2.8	20	91	0	92	41	12	14	30	1.83
3634553--3634788	61	3.9	61	79	6	266	26	20	28	25	1.99
3634612--3635008	215	1.8	214	83	8	529	27	19	27	24	1.99
3634970--3635057	28	3.2	27	70	20	83	31	19	23	25	1.98
3635616--3635756	27	5.1	27	61	10	70	26	21	24	26	2.00
3634830--3636033	55	21.0	55	84	8	1346	26	20	26	26	1.99
3637023--3637094	1	72.0	1	74	0	63	2	4	5	87	0.73
3637018--3637055	13	3.0	13	84	3	51	0	13	2	84	0.73
3637025--3637094	10	6.7	10	82	12	70	2	4	5	87	0.75
3637023--3637094	31	2.3	31	84	11	94	2	4	5	87	0.73
3638630--3638799	84	2.0	84	95	0	304	24	28	18	28	1.98
3644675--3644705	13	2.4	13	94	0	53	35	12	16	35	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3644655--3644721	33	2.0	33	88	5	100	31	17	16	34	1.93
3644791--3644817	13	2.1	13	100	0	54	40	7	14	37	1.74
3647141--3647180	22	1.9	19	85	14	53	50	0	20	30	1.49
3647307--3647335	13	2.2	13	100	0	58	41	17	13	27	1.87
3647461--3647501	20	2.2	18	86	8	55	53	19	2	24	1.57
3653464--3653516	20	2.7	20	100	0	106	28	18	11	41	1.85
3653579--3653632	19	2.8	20	85	2	74	35	18	18	27	1.94
3657786--3658617	28	29.0	29	84	6	941	28	30	18	23	1.98
3657785--3658623	57	14.6	57	83	7	907	27	30	18	23	1.98
3658683--3658804	49	2.6	45	77	10	120	22	26	19	31	1.98
3659176--3659250	20	3.8	20	83	0	105	33	14	12	40	1.83
3663794--3663944	79	1.9	79	84	2	205	29	21	13	35	1.92
3667913--3667938	13	2.0	13	100	0	52	30	15	15	38	1.88
3668824--3669301	49	9.6	49	78	7	437	33	16	24	25	1.96
3668824--3669301	101	4.8	97	84	3	526	33	16	24	25	1.96
3669370--3669702	29	11.6	28	84	7	348	21	16	30	31	1.95
3669351--3669697	86	4.0	86	79	5	376	21	17	29	31	1.96
3670052--3670136	37	2.3	37	100	0	170	43	15	15	25	1.86
3671595--3671620	13	2.0	13	100	0	52	30	23	15	30	1.95
3671649--3671724	21	3.4	22	89	7	109	38	11	21	28	1.89
3671769--3671905	53	2.6	53	95	1	247	27	17	18	37	1.93
3671875--3671945	20	3.5	20	77	11	74	29	12	16	40	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3672299--3672333	19	1.9	17	88	11	52	45	8	20	25	1.79
3672587--3672622	13	2.8	13	91	0	54	2	2	13	80	0.93
3676344--3676373	13	2.3	13	94	0	51	36	20	13	30	1.90
3676443--3676515	22	3.4	22	88	3	96	39	9	27	23	1.85
3676484--3676515	10	3.2	10	90	0	55	40	6	31	21	1.78
3676543--3676567	13	1.9	13	100	0	50	36	16	16	32	1.90
3676647--3676687	21	2.0	21	85	9	57	36	12	14	36	1.84
3681437--3681503	37	1.9	35	88	11	102	29	25	11	32	1.92
3681994--3682073	22	3.6	22	89	3	126	36	11	26	26	1.90
3682142--3682214	20	3.7	20	100	0	146	31	15	19	34	1.92
3682254--3682294	21	2.0	21	85	9	57	36	12	14	36	1.84
3684841--3684895	20	2.8	20	88	5	76	40	14	14	30	1.86
3684947--3684999	20	2.7	20	85	8	72	41	16	13	28	1.86
3689087--3689143	21	2.8	21	81	2	71	36	12	19	31	1.89
3689190--3689215	13	2.0	13	100	0	52	38	15	15	30	1.88
3689171--3689235	33	2.0	33	90	6	105	43	15	13	27	1.85
3695517--3695562	21	2.2	20	81	11	58	32	19	4	43	1.71
3697951--3698014	32	2.0	32	84	3	83	43	12	14	29	1.81
3702992--3703046	20	2.8	20	83	5	67	40	12	14	32	1.84
3703099--3703163	33	2.0	33	87	6	96	41	13	13	30	1.84
3711681--3711730	21	2.2	21	82	10	55	46	18	18	18	1.85
3712303--3712347	21	2.1	21	84	8	56	53	4	20	22	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3715723--3715797	20	3.8	19	75	12	71	41	13	13	32	1.83
3716314--3718182	143	13.0	143	89	3	2509	22	17	32	27	1.96
3716322--3718182	28	64.9	29	88	4	2472	21	17	32	28	1.96
3719402--3719464	1	63.0	1	77	0	63	1	3	6	88	0.66
3719387--3719462	10	7.2	10	82	8	53	3	5	6	84	0.87
3719404--3719464	16	3.8	16	83	10	79	1	3	6	88	0.67
3719394--3719458	34	1.9	34	90	0	103	3	4	7	84	0.85
3733448--3733527	20	4.0	20	73	4	72	41	10	13	35	1.78
3733450--3733527	40	2.0	39	84	2	102	41	10	12	35	1.77
3735348--3735378	15	2.1	15	93	0	53	48	16	22	12	1.80

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   30   31   32