genome.fa.s72.2.7.7.80.10.50.1000.25.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: Scaffold72
Parameters: 2 7 7 80 10 50 1000
Length:  5928628

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   
          33   34   35   36   37   38   39   

This is table  25  of  39  ( 4596 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)
3660869--3660904	19	1.9	18	88	5	54	61	2	5	30	1.33
3660954--3660995	21	2.0	22	90	9	70	47	0	0	52	1.00
3660972--3661022	18	2.8	17	75	18	50	47	0	0	52	1.00
3662038--3662118	20	4.0	20	76	9	74	50	0	0	49	1.00
3662006--3662074	30	2.3	31	82	7	88	56	1	0	42	1.08
3662041--3662103	19	3.0	22	75	13	78	50	0	0	49	1.00
3667434--3667468	19	1.9	18	88	11	54	45	8	0	45	1.34
3667489--3667524	2	18.0	2	94	0	63	50	2	0	47	1.15
3667776--3667829	28	1.9	28	88	0	81	37	1	1	59	1.19
3669973--3670021	14	3.5	14	74	0	53	59	0	0	40	0.98
3670234--3670320	33	2.6	33	85	12	124	43	0	0	56	0.99
3670234--3670320	8	10.6	8	71	21	56	43	0	0	56	0.99
3670242--3670333	43	2.2	42	79	12	100	41	1	0	57	1.06
3670244--3670322	33	2.4	33	93	2	131	43	0	0	56	0.99
3670232--3670320	17	5.4	16	72	18	76	42	0	0	57	0.98
3670671--3670729	30	1.9	31	83	10	77	42	1	1	54	1.20
3671343--3671467	6	20.8	6	70	21	68	36	0	0	64	0.94
3671356--3671452	14	6.3	15	69	18	58	36	0	0	63	0.94
3671334--3671450	43	2.6	45	71	19	100	37	0	0	61	1.02
3671392--3671467	33	2.4	31	80	18	86	38	0	0	61	0.96
3671361--3671463	16	6.5	16	68	21	74	36	0	0	63	0.95
3671343--3671467	11	12.0	11	71	19	72	36	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3671345--3671470	27	4.9	27	70	23	76	36	0	0	63	0.95
3680646--3680680	2	17.5	2	100	0	70	48	0	51	0	1.00
3685521--3685547	13	2.1	13	100	0	54	92	0	7	0	0.38
3687819--3687886	23	3.0	23	72	18	63	54	0	0	45	0.99
3687827--3687876	21	2.3	21	86	10	66	58	0	0	42	0.98
3688554--3688587	14	2.6	13	86	13	52	61	2	0	35	1.11
3691931--3691962	11	2.6	13	90	9	50	6	9	0	84	0.78
3692599--3692656	23	2.5	22	74	17	55	53	5	1	39	1.33
3692826--3692868	21	2.0	21	86	8	61	30	0	4	65	1.13
3693903--3693953	12	3.9	12	78	16	57	39	11	5	43	1.66
3695586--3695767	89	2.0	89	100	0	364	26	23	12	37	1.91
3698686--3698737	14	3.8	13	73	16	52	38	9	5	46	1.61
3700514--3700551	19	2.0	19	100	0	76	36	15	0	47	1.46
3704695--3704747	11	4.8	11	79	9	63	77	0	11	11	1.00
3704681--3704753	33	2.1	36	92	7	125	76	0	10	12	1.02
3704678--3704755	11	7.5	10	73	13	52	78	0	10	11	0.97
3709260--3709385	16	7.9	16	76	4	76	4	18	36	40	1.72
3709276--3709390	16	7.2	16	77	3	97	6	18	33	41	1.75
3709277--3709399	48	2.6	48	78	0	129	7	17	34	39	1.78
3709276--3709399	32	3.9	32	74	4	115	7	17	34	40	1.78
3709589--3709627	17	2.3	17	86	8	53	41	0	2	56	1.13
3710139--3710219	38	2.1	38	88	0	117	27	8	14	49	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3710310--3710339	16	1.9	15	93	6	51	26	16	3	53	1.59
3713813--3713874	24	2.6	23	82	10	63	27	0	4	67	1.10
3714661--3714707	20	2.4	19	79	10	51	27	0	2	70	0.99
3716570--3716606	15	2.4	16	86	4	58	81	0	18	0	0.70
3716563--3716604	5	8.6	5	84	10	52	80	0	19	0	0.70
3718283--3718699	202	2.1	202	100	0	834	20	22	28	29	1.99
3719061--3719121	32	1.9	33	83	6	81	29	1	21	47	1.60
3719155--3719192	7	5.7	7	84	9	53	23	0	13	63	1.30
3725075--3725119	21	2.1	21	84	8	56	53	4	20	22	1.63
3726923--3726953	15	2.1	15	93	0	53	48	16	22	12	1.80
3728967--3729046	20	3.8	20	75	15	79	26	15	15	43	1.85
3729032--3729070	13	3.0	13	96	0	69	30	17	15	35	1.91
3729191--3729236	21	2.2	20	81	11	58	32	19	4	43	1.71
3731613--3731638	13	2.0	13	100	0	52	38	15	15	30	1.88
3734106--3734190	27	3.1	27	96	0	152	27	43	1	28	1.62
3734550--3734662	36	3.0	38	65	12	97	27	7	22	42	1.81
3734491--3734785	75	4.0	75	90	2	443	32	7	20	40	1.80
3734494--3734785	147	2.0	148	90	2	460	32	7	19	40	1.79
3734762--3734811	26	1.9	26	91	0	82	30	2	16	52	1.55
3734688--3734886	101	2.0	100	85	5	267	34	6	14	44	1.71
3734793--3734982	75	2.5	75	81	3	204	35	6	13	44	1.71
3734616--3734962	176	2.0	173	84	2	444	34	6	16	42	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3735486--3735546	29	2.1	29	84	9	79	57	4	0	37	1.20
3735504--3735547	13	3.1	14	78	15	54	54	2	0	43	1.12
3736059--3736109	5	10.2	5	76	16	52	58	1	0	39	1.09
3736063--3736166	18	5.4	18	69	22	54	51	1	0	46	1.12
3743135--3743165	16	1.9	16	100	0	62	51	9	6	32	1.60
3743204--3743307	16	6.6	15	74	10	75	57	7	3	30	1.45
3743198--3743307	47	2.3	47	81	9	125	56	8	3	31	1.46
3743892--3743959	29	2.3	29	82	12	77	47	2	0	50	1.16
3744146--3744190	22	2.0	22	83	8	56	44	2	4	48	1.35
3744494--3744543	23	2.2	23	86	13	68	62	0	0	38	0.96
3744830--3744876	22	2.0	22	84	12	58	48	0	0	51	1.00
3744830--3744878	23	2.0	25	84	7	66	48	0	0	51	1.00
3744983--3745070	27	3.1	27	76	12	88	43	4	0	52	1.22
3744988--3745082	27	3.4	28	71	21	83	48	4	0	47	1.21
3747224--3747251	14	2.0	14	100	0	56	64	0	0	35	0.94
3747759--3747815	22	2.5	22	91	2	87	66	0	1	31	1.02
3748733--3748770	2	19.5	2	83	5	51	44	2	0	52	1.14
3750438--3750490	27	1.9	28	84	3	72	33	0	3	62	1.13
3750829--3750863	2	17.5	2	100	0	70	48	0	0	51	1.00
3751234--3751382	74	2.0	74	80	8	169	53	0	0	46	1.00
3754626--3754698	10	7.0	10	72	14	58	54	1	1	42	1.17
3754642--3754695	16	3.5	15	75	5	54	51	1	1	44	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3754626--3754698	21	3.5	20	76	10	67	54	1	1	42	1.17
3755384--3755408	13	1.9	13	100	0	50	72	0	0	28	0.86
3759639--3759738	25	3.8	25	69	22	71	60	4	2	34	1.27
3759648--3759747	45	2.2	47	89	3	150	60	4	2	34	1.27
3759691--3759768	36	2.3	33	82	10	86	56	2	1	39	1.21
3759662--3759756	47	2.1	43	86	9	129	57	3	2	36	1.26
3759716--3759813	32	3.1	32	80	15	107	57	0	1	41	1.05
3759717--3759880	16	10.1	16	67	22	69	56	0	1	42	1.07
3759672--3759776	47	2.2	46	75	13	106	56	2	1	39	1.25
3759758--3759819	28	2.3	27	78	13	72	58	0	0	41	0.98
3759785--3759891	34	3.4	32	76	13	105	56	0	1	42	1.10
3760244--3760318	35	2.1	35	83	9	91	49	1	0	49	1.09
3760953--3761020	11	6.0	11	73	14	59	55	0	2	41	1.15
3760951--3760991	20	2.0	20	90	9	66	58	0	0	41	0.98
3761464--3761491	4	7.0	4	100	0	56	25	0	0	75	0.81
3761696--3761764	17	4.4	16	77	18	74	46	0	0	53	1.00
3762503--3762533	14	2.2	14	100	0	62	29	12	12	45	1.80
3769900--3769924	8	3.1	8	100	0	50	76	0	0	24	0.80
3769883--3769927	21	2.1	22	83	4	56	68	0	0	31	0.89
3770627--3770656	2	15.0	2	100	0	60	50	0	0	50	1.00
3771292--3771367	37	2.1	37	89	0	116	47	1	10	40	1.46
3772085--3772134	21	2.4	22	83	6	59	32	0	6	62	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3772515--3772856	172	2.0	170	91	2	432	38	11	5	45	1.63
3774006--3774111	38	2.8	38	72	14	92	48	1	2	47	1.27
3774077--3774166	31	3.0	30	77	15	96	47	3	1	47	1.25
3774172--3774223	26	1.9	28	88	7	81	48	5	3	42	1.45
3774289--3774325	18	2.1	17	90	5	56	35	0	0	64	0.94
3775143--3775199	22	2.5	22	83	13	64	61	1	0	36	1.07
3775255--3775291	17	2.2	16	95	4	65	56	5	0	37	1.22
3775611--3775645	7	4.9	7	86	6	52	31	0	0	68	0.90
3775606--3775645	15	2.8	14	88	3	53	32	0	0	67	0.91
3775860--3775906	14	3.6	14	83	8	55	40	0	0	59	0.97

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   
          33   34   35   36   37   38   39