genome.fa.s1523.2.7.7.80.10.50.1000.13.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: scaffold23
Parameters: 2 7 7 80 10 50 1000
Length:  3824748

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  13  of  14  ( 1619 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)
3404023--3404096	27	2.8	26	89	4	112	32	24	4	39	1.74
3415657--3415717	30	2.0	30	96	0	113	24	34	11	29	1.91
3421075--3421146	27	2.6	28	84	4	92	38	26	11	23	1.88
3424487--3424525	17	2.3	17	86	0	51	23	0	0	76	0.78
3431105--3431142	18	2.1	18	90	0	58	39	5	2	52	1.38
3436790--3436832	16	2.7	15	89	3	59	83	0	4	11	0.78
3436814--3436863	7	7.6	7	86	8	70	70	0	16	14	1.18
3436814--3436864	13	3.9	13	89	5	77	68	0	15	15	1.21
3438091--3438646	131	4.2	130	87	3	715	29	21	24	24	1.99
3438622--3438738	44	2.7	44	86	0	144	29	17	23	28	1.97
3438802--3440032	44	26.1	44	67	19	474	34	18	20	27	1.96
3438846--3439027	98	1.9	97	80	6	215	33	19	18	28	1.95
3438789--3440083	142	9.1	141	94	1	2167	34	17	20	27	1.95
3440159--3440339	50	3.6	50	75	3	175	35	21	18	24	1.96
3440130--3440318	100	1.9	100	88	0	288	33	23	19	23	1.97
3438789--3440106	569	2.3	559	91	2	1624	34	18	20	27	1.95
3441811--3441848	18	2.1	18	90	0	58	39	5	2	52	1.38
3443644--3443682	18	2.2	18	100	0	78	33	7	5	53	1.51
3444958--3445002	22	2.0	22	91	0	72	26	8	31	33	1.87
3448077--3448122	22	2.0	23	87	4	67	30	4	28	36	1.76
3448290--3448404	60	1.9	60	91	3	187	40	5	0	53	1.23
3449854--3450269	222	1.9	220	83	1	535	20	18	37	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3454044--3454191	2	74.0	2	100	0	296	50	0	0	50	1.00
3455550--3455595	12	3.8	12	85	5	58	50	8	0	41	1.33
3455550--3455595	25	1.9	24	86	8	67	50	8	0	41	1.33
3455550--3455606	25	2.3	23	80	11	60	52	8	0	38	1.33
3476430--3476592	42	3.8	42	89	3	229	20	22	22	33	1.97
3476908--3476950	21	2.0	21	90	0	68	4	46	20	27	1.71
3480489--3480841	9	41.8	9	66	15	103	28	4	20	45	1.72
3480529--3480594	25	2.6	25	80	0	78	34	3	18	43	1.65
3480549--3480670	16	8.0	16	69	18	73	28	5	18	46	1.72
3480552--3480713	49	3.5	49	76	13	187	29	5	18	46	1.72
3480550--3480728	90	2.0	90	93	0	304	28	5	19	46	1.72
3480605--3480684	41	2.0	41	87	0	115	27	3	20	48	1.66
3480640--3480777	25	5.6	25	72	8	77	27	5	19	47	1.70
3480693--3480760	23	2.8	24	88	8	102	25	4	27	42	1.74
3480751--3480821	37	1.9	37	100	0	142	29	2	16	50	1.60
3480994--3481040	22	2.1	22	96	0	85	40	23	8	27	1.83
3480863--3482278	140	10.1	140	100	0	2832	41	21	10	25	1.85
3481134--3481180	22	2.1	22	96	0	85	40	23	8	27	1.83
3481274--3481320	22	2.1	22	96	0	85	40	23	8	27	1.83
3481414--3481460	22	2.1	22	96	0	85	40	23	8	27	1.83
3481554--3481600	22	2.1	22	96	0	85	40	23	8	27	1.83
3481694--3481740	22	2.1	22	96	0	85	40	23	8	27	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3481834--3481880	22	2.1	22	96	0	85	40	23	8	27	1.83
3481974--3482020	22	2.1	22	96	0	85	40	23	8	27	1.83
3482114--3482160	22	2.1	22	96	0	85	40	23	8	27	1.83
3483149--3483179	7	4.3	7	92	8	53	45	38	0	16	1.47
3483149--3483179	15	2.1	14	94	5	53	45	38	0	16	1.47
3483282--3483392	7	15.1	7	76	17	84	40	38	0	19	1.58
3483284--3483360	29	2.6	28	82	10	91	44	35	0	20	1.52
3483325--3483390	23	2.8	24	84	6	82	40	37	1	19	1.61
3483658--3484058	112	3.5	113	85	4	461	25	22	18	32	1.97
3483580--3484445	113	7.6	113	77	6	549	26	21	20	31	1.98
3489831--3489891	19	3.1	19	81	9	70	47	1	0	50	1.10
3497935--3498006	20	3.5	20	76	14	56	30	9	5	54	1.56
3498442--3498478	20	1.9	20	88	5	58	18	27	10	43	1.83
3500259--3500306	24	2.0	24	84	8	62	31	20	6	41	1.77
3505003--3505404	51	7.9	51	91	0	606	27	16	26	29	1.97
3507577--3507627	23	2.2	24	79	10	61	35	3	5	54	1.43
3507462--3507879	185	2.3	184	99	0	820	29	8	5	56	1.51
3507762--3507812	23	2.2	24	79	10	61	35	3	5	54	1.43
3508746--3508776	9	3.4	9	90	0	53	25	12	22	38	1.90
3509537--3509583	21	2.3	21	82	10	53	23	29	12	34	1.92
3512879--3512903	13	1.9	13	100	0	50	64	0	36	0	0.94
3512895--3512992	10	9.2	10	70	12	52	66	0	33	0	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3512887--3512991	35	2.8	36	84	10	131	64	0	35	0	0.94
3512897--3512958	5	12.4	5	72	6	54	66	0	33	0	0.92
3512898--3512994	40	2.4	41	75	16	98	67	0	32	0	0.91
3513005--3513042	19	2.0	19	94	0	67	23	0	5	71	1.07
3513369--3513877	156	3.3	157	88	5	716	50	8	10	30	1.66
3513710--3513744	8	4.2	8	85	7	52	68	0	2	28	1.04
3522083--3522169	37	2.3	37	86	7	113	52	10	4	32	1.56
3522156--3522202	23	2.0	23	84	8	60	59	14	2	23	1.46
3522518--3522565	3	15.7	3	86	4	69	2	37	0	60	1.09
3523101--3523136	17	2.1	18	89	5	56	52	0	0	47	1.00
3524478--3524528	20	2.6	20	73	14	52	41	3	0	54	1.19
3524890--3524914	12	2.1	12	100	0	50	52	8	8	32	1.60
3525104--3525166	30	2.1	30	93	0	108	57	14	3	25	1.52
3532242--3532274	17	1.9	17	100	0	66	24	6	9	60	1.49
3532407--3532725	108	3.0	108	90	0	503	29	21	16	31	1.96
3544341--3544390	26	1.9	26	84	8	66	56	20	14	10	1.66
3546071--3546306	41	5.8	41	93	0	375	28	31	23	16	1.96
3546383--3546478	40	2.4	39	91	3	147	15	22	23	37	1.93
3558660--3558700	15	2.7	15	84	0	55	51	4	34	9	1.56
3560725--3560767	18	2.4	18	80	0	50	30	0	13	55	1.39
3562760--3562795	18	1.9	19	94	5	65	44	0	8	47	1.33
3567621--3567653	15	2.2	15	100	0	66	21	9	9	60	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3569972--3570035	32	2.0	32	90	3	103	48	10	21	18	1.79
3572053--3572223	95	1.8	92	83	6	227	27	15	13	43	1.84
3574344--3574437	49	1.9	49	91	0	152	30	20	14	34	1.93
3584966--3585030	33	2.0	32	90	3	103	16	24	18	40	1.91
3584978--3585048	33	2.2	33	81	0	79	19	19	14	46	1.84
3586125--3586384	129	2.0	129	99	0	511	38	7	20	34	1.81
3590013--3590146	71	1.9	71	85	3	189	29	23	19	27	1.98
3592362--3592413	20	2.7	19	74	11	52	63	1	3	30	1.23
3593105--3593154	23	2.2	23	92	7	84	30	2	4	64	1.23
3593342--3593389	19	2.7	17	72	12	51	31	4	4	60	1.35
3597827--3597856	6	5.0	6	100	0	60	83	0	16	0	0.65
3598237--3598276	18	2.2	18	90	0	62	27	5	2	65	1.27
3609962--3610003	20	2.0	22	90	9	70	33	19	4	42	1.72
3610266--3610306	21	2.0	21	85	0	55	36	7	2	53	1.42
3611307--3611357	24	2.1	24	100	0	102	27	21	3	47	1.68
3611316--3611371	24	2.2	24	81	9	58	21	21	10	46	1.81
3613238--3613316	39	2.0	40	90	2	124	29	11	18	40	1.86
3614434--3614507	27	2.8	25	78	11	85	20	27	14	37	1.92
3614764--3614891	45	2.8	47	75	5	138	21	21	17	39	1.93
3617367--3617480	43	2.7	43	78	13	135	21	20	29	28	1.98
3618691--3618717	2	13.5	2	100	0	54	48	0	0	51	1.00
3626589--3626657	20	3.3	20	76	11	75	44	1	1	52	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3635134--3635402	43	6.3	43	82	4	285	28	25	18	27	1.98
3635112--3635378	129	2.1	130	82	4	317	28	23	18	29	1.98
3640462--3640504	7	6.1	7	83	0	59	27	48	0	23	1.51
3640457--3640499	21	2.0	21	90	0	68	32	44	0	23	1.54
3640982--3641019	20	1.9	20	88	0	58	28	2	21	47	1.64
3641158--3641435	41	6.8	40	70	11	152	29	23	21	25	1.99
3641308--3641502	82	2.4	82	83	5	234	30	25	19	24	1.98
3641308--3641504	41	4.8	40	75	5	171	29	25	19	24	1.98
3641708--3641745	20	1.9	20	88	0	58	47	21	2	28	1.64
3654307--3654345	13	3.0	13	96	0	69	51	0	0	48	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14