genome.fa.s72.2.7.7.80.10.50.1000.27.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  27  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)
3920367--3920472	30	3.5	29	79	15	108	60	0	0	39	0.97
3920951--3920980	6	5.0	6	95	0	51	20	0	46	33	1.51
3922248--3922282	12	2.8	13	86	8	54	57	0	0	42	0.99
3924247--3924291	22	2.0	23	82	4	56	37	2	0	60	1.09
3924270--3924311	15	2.9	15	79	13	52	40	4	0	54	1.21
3924290--3924332	21	2.0	23	81	9	54	46	6	0	46	1.30
3926638--3926719	30	2.7	30	83	9	87	48	2	7	41	1.44
3927450--3927507	17	3.0	19	78	17	66	39	0	0	60	0.97
3927456--3927540	17	5.0	18	68	22	67	43	0	0	56	0.99
3927454--3927544	26	4.1	21	73	20	62	41	0	0	58	0.98
3927466--3927510	21	2.1	21	88	8	65	42	0	0	57	0.98
3927769--3927839	28	2.6	26	81	14	90	47	1	0	50	1.09
3928263--3928331	9	6.5	11	70	25	51	63	0	0	36	0.94
3928259--3928336	22	3.5	22	70	15	63	65	0	0	34	0.93
3928272--3928350	38	1.9	39	80	16	90	63	0	0	36	0.95
3928304--3928348	17	2.4	18	82	14	56	60	0	0	40	0.97
3929686--3929758	22	3.3	22	82	0	92	45	8	0	46	1.33
3929686--3929758	8	9.1	8	78	0	65	45	8	0	46	1.33
3929730--3929758	4	7.2	4	100	0	58	51	0	0	48	1.00
3932537--3932584	24	2.0	24	84	8	62	33	6	4	56	1.44
3933426--3933456	2	15.5	2	93	0	53	54	0	45	0	0.99
3935311--3935377	29	2.4	28	85	5	82	25	4	19	50	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3939856--3939926	27	2.6	27	88	6	99	22	7	23	46	1.76
3942215--3942277	2	32.5	2	78	12	69	49	0	4	46	1.23
3942215--3942277	15	4.6	14	79	18	71	49	0	4	46	1.23
3943106--3943153	25	2.0	24	83	4	60	52	0	0	47	1.00
3943557--3943581	13	1.9	13	100	0	50	44	0	0	56	0.99
3945547--3945587	21	2.0	21	85	9	57	41	0	0	58	0.98
3945703--3945773	31	2.3	29	83	9	88	57	0	0	42	0.98
3946673--3946728	20	2.9	20	73	5	53	50	0	0	50	1.00
3946671--3946737	27	2.4	26	88	11	82	46	0	0	53	1.00
3947009--3947040	14	2.3	14	94	0	55	37	6	0	56	1.25
3947362--3947418	24	2.4	24	80	8	64	49	0	5	45	1.24
3948402--3948461	28	2.1	30	81	12	72	46	1	1	50	1.21
3949914--3949940	3	9.0	3	100	0	54	66	0	0	33	0.92
3950097--3950138	17	2.6	16	82	10	59	45	0	4	50	1.23
3950476--3950524	2	24.5	2	87	0	71	42	2	4	51	1.32
3954863--3954893	15	2.1	15	100	0	62	45	0	6	48	1.28
3958284--3958410	28	4.2	29	72	14	89	58	3	0	37	1.22
3958238--3958377	28	4.4	34	69	22	108	57	3	0	39	1.16
3958238--3958377	62	2.2	63	92	5	230	57	3	0	39	1.16
3958539--3958573	2	17.5	2	93	0	61	51	2	0	45	1.16
3959424--3959458	17	2.1	17	89	5	54	60	0	0	40	0.97
3959724--3959798	31	2.4	32	80	17	86	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3961284--3961327	15	2.8	16	75	6	54	43	0	0	56	0.99
3961285--3961341	21	2.8	21	83	2	62	47	0	0	52	1.00
3962865--3962915	26	2.0	26	84	0	66	58	0	1	39	1.09
3963667--3963691	6	4.2	6	100	0	50	48	0	0	52	1.00
3966587--3966643	25	2.3	25	81	6	62	42	1	0	56	1.10
3966587--3966651	26	2.6	25	80	4	67	41	1	0	56	1.08
3968162--3968201	18	2.1	20	90	9	66	50	0	0	50	1.00
3969231--3969259	14	2.1	14	100	0	58	27	20	13	37	1.91
3969480--3969874	198	2.0	198	95	1	720	35	12	7	44	1.71
3970174--3970262	44	2.0	44	100	0	178	29	22	11	37	1.89
3970778--3970809	4	8.0	4	100	0	64	75	0	0	25	0.81
3971450--3971492	17	2.4	18	84	7	52	37	2	0	60	1.10
3973282--3973309	4	7.0	4	100	0	56	50	0	0	50	1.00
3973683--3973708	2	13.0	2	100	0	52	50	0	0	50	1.00
3973978--3974010	13	2.5	13	90	9	50	57	0	0	42	0.98
3974053--3974095	18	2.4	18	80	0	50	51	0	0	48	1.00
3975011--3975045	2	17.5	2	100	0	70	48	0	0	51	1.00
3975462--3975510	25	2.0	25	84	4	64	48	0	0	51	1.00
3977271--3977323	17	3.2	17	71	26	51	45	0	0	54	0.99
3978704--3978743	19	2.2	18	90	4	62	57	2	0	40	1.12
3978700--3978749	26	2.0	25	84	11	66	54	4	0	42	1.19
3979330--3979355	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3979705--3979757	27	1.9	28	84	3	72	33	0	0	66	0.92
3980102--3980137	18	2.0	18	88	0	54	33	0	0	66	0.92
3980302--3980368	21	3.2	20	78	18	64	41	1	0	56	1.08
3980324--3980392	34	2.0	34	81	10	79	50	1	0	47	1.09
3980696--3980725	3	10.0	3	100	0	60	66	0	0	33	0.92
3981847--3981887	14	2.9	14	81	0	55	43	2	4	48	1.37
3988128--3988163	16	2.2	16	95	0	63	41	5	2	50	1.40
3988326--3988371	22	2.3	19	81	11	56	63	0	0	36	0.95
3988867--3988918	26	2.0	26	100	0	104	23	11	26	38	1.89
3989768--3989874	53	2.0	53	98	0	205	48	11	10	29	1.72
3991774--3991808	2	17.5	2	100	0	70	51	0	0	48	1.00
3992793--3992833	2	20.5	2	100	0	82	51	0	48	0	1.00
3993940--3993990	10	4.8	11	76	9	52	35	1	0	62	1.06
3995117--3995391	146	1.9	144	87	3	408	35	14	9	40	1.79
3995190--3995877	344	2.0	344	93	0	1162	39	13	9	37	1.78
4007914--4007939	2	13.0	2	100	0	52	50	0	50	0	1.00
4011178--4011233	24	2.4	23	81	16	71	41	1	0	57	1.09
4012576--4012919	166	2.1	166	98	0	670	42	9	5	43	1.60
4012949--4012996	15	2.9	16	84	12	62	54	0	0	45	0.99
4012965--4013007	21	2.0	21	90	0	68	55	0	0	44	0.99
4013264--4013329	16	4.2	16	74	14	50	62	0	0	37	0.96
4013537--4013578	21	2.0	21	85	0	57	47	2	0	50	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4022545--4022580	19	2.0	17	89	10	54	52	11	27	8	1.65
4028258--4028322	21	3.1	21	70	0	58	23	6	53	16	1.65
4028234--4028338	42	2.5	42	87	0	138	24	3	50	20	1.65
4028396--4028472	21	3.4	21	70	19	73	18	3	55	22	1.58
4028396--4028544	24	6.2	24	68	14	92	18	5	55	20	1.62
4028375--4028523	48	3.1	48	90	3	237	19	3	55	21	1.57
4028414--4028504	27	3.6	27	70	17	86	17	4	56	21	1.59
4028587--4028706	21	5.6	21	75	9	107	15	3	55	25	1.56
4028585--4028706	45	2.8	44	88	3	176	15	3	55	25	1.55
4028705--4028924	54	4.0	54	81	5	235	21	13	38	26	1.90
4031326--4031356	15	2.1	15	93	0	53	41	19	12	25	1.87
4032539--4032712	87	2.0	87	97	0	330	47	17	11	24	1.80
4032823--4032855	2	16.5	2	100	0	66	0	48	0	51	1.00
4032855--4032881	2	13.5	2	100	0	54	48	0	0	51	1.00
4034129--4034168	21	1.9	21	85	10	55	42	2	5	50	1.37
4036145--4036174	6	5.0	6	100	0	60	50	0	0	50	1.00
4036688--4036719	15	2.1	16	94	5	57	46	3	0	50	1.17
4036682--4036756	22	3.4	22	76	10	64	41	2	0	56	1.13
4037128--4037170	15	2.9	15	83	13	61	81	0	2	16	0.79
4037127--4037179	14	3.6	14	85	7	70	77	0	5	16	0.96
4037305--4037360	26	2.1	27	83	9	71	60	0	0	39	0.97
4037797--4037855	26	2.2	26	81	6	64	55	0	3	40	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4047063--4047092	11	2.7	11	94	0	51	60	0	0	40	0.97
4048958--4049024	21	3.0	23	75	18	61	37	2	1	58	1.23
4051207--4051255	2	24.5	2	100	0	98	51	0	0	48	1.00
4051420--4051483	20	3.0	22	75	11	62	64	0	0	35	0.94
4051715--4051745	2	15.5	2	93	0	53	48	3	0	48	1.17
4054354--4054393	21	1.9	21	89	0	62	65	7	10	17	1.46
4058607--4058662	14	4.0	14	80	0	67	32	8	10	48	1.69
4058575--4058662	28	3.1	28	70	6	70	35	11	11	42	1.77
4058590--4058663	14	5.2	14	74	7	60	36	9	10	43	1.72
4062257--4062313	19	2.9	20	82	7	55	38	1	0	59	1.08

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