genome.fa.s2.2.7.7.80.10.50.1000.32.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: Scaffold2
Parameters: 2 7 7 80 10 50 1000
Length:  5794061

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   

This is table  32  of  38  ( 4457 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)
4889828--4889852	13	1.9	13	100	0	50	36	16	16	32	1.90
4892969--4892993	13	1.9	13	100	0	50	32	16	16	36	1.90
4892949--4893013	33	2.0	33	88	11	98	33	18	15	32	1.92
4892982--4893034	20	2.7	20	96	0	97	32	18	16	32	1.94
4893063--4893120	19	3.0	20	82	7	75	34	15	15	34	1.89
4894786--4894830	16	2.6	16	82	10	54	37	13	17	31	1.89
4904135--4904159	13	1.9	13	100	0	50	36	16	16	32	1.90
4904199--4904268	33	2.1	33	89	0	104	40	14	11	34	1.82
4904224--4904248	13	1.9	13	100	0	50	32	16	16	36	1.90
4909385--4909531	31	4.5	33	88	7	185	29	12	25	31	1.93
4910658--4910692	3	11.7	3	100	0	70	34	0	34	31	1.58
4916504--4916543	21	2.0	20	85	5	53	25	5	25	45	1.73
4917454--4917503	20	2.5	20	93	3	84	26	16	22	36	1.94
4917473--4917536	33	2.0	32	87	9	94	28	18	17	35	1.93
4923652--4924025	185	2.0	185	98	0	721	36	13	15	34	1.87
4924035--4924082	14	3.5	14	75	13	55	81	2	16	0	0.79
4924036--4924080	19	2.4	18	82	10	54	82	2	15	0	0.77
4924094--4924142	23	2.2	23	81	3	55	79	12	4	4	1.01
4925189--4925240	20	2.8	21	75	18	53	53	0	0	46	1.00
4926644--4926855	96	2.2	97	87	0	309	30	13	28	27	1.94
4929040--4929096	20	2.8	20	86	0	87	42	14	12	31	1.82
4929820--4931361	28	53.9	28	76	11	581	26	16	28	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4929820--4930961	85	13.1	85	79	9	769	24	17	28	29	1.97
4929854--4930935	113	9.3	113	77	10	797	24	17	28	29	1.97
4930856--4931314	27	16.9	27	77	8	389	32	14	30	23	1.94
4930856--4931327	82	5.8	81	79	6	429	31	14	29	23	1.94
4931086--4931153	23	2.8	23	84	8	73	35	14	30	19	1.92
4930912--4931327	27	15.4	27	80	6	414	31	14	30	23	1.94
4930856--4931357	55	9.2	55	78	7	425	32	14	29	23	1.95
4932603--4932651	19	2.7	18	81	6	62	4	12	8	75	1.16
4942719--4942780	31	2.0	31	87	0	88	25	24	14	35	1.93
4942723--4943105	30	12.4	31	70	10	221	23	24	14	37	1.93
4942738--4943027	63	4.7	63	83	4	322	22	24	15	37	1.92
4942738--4943002	127	2.1	126	85	2	361	21	23	15	39	1.91
4943098--4943160	27	2.3	27	91	0	99	26	31	14	26	1.95
4943185--4943914	32	22.5	32	77	8	500	30	31	16	21	1.95
4943179--4943914	64	11.4	64	76	8	557	30	31	16	21	1.95
4943180--4943937	96	7.8	96	77	9	603	30	31	16	21	1.95
4943627--4943820	104	1.9	104	84	4	266	30	28	15	24	1.96
4943759--4943915	65	2.5	64	78	5	165	33	32	15	19	1.93
4946060--4946098	19	2.0	20	85	14	55	51	23	0	25	1.49
4946920--4946982	32	1.9	33	87	3	92	39	7	14	38	1.75
4947048--4947118	21	3.4	21	88	0	115	32	14	7	46	1.71
4947523--4947660	52	2.7	52	93	1	233	24	27	15	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4947605--4947723	61	2.0	61	84	3	159	24	26	13	35	1.93
4948469--4948524	20	2.8	20	97	0	103	42	10	16	30	1.82
4953008--4953041	17	1.9	18	94	5	61	44	0	0	55	0.99
4955192--4955230	20	2.0	20	90	10	62	53	25	0	20	1.45
4956668--4957422	189	4.0	189	89	3	1025	35	18	14	31	1.91
4958223--4958329	49	2.1	52	87	5	157	30	14	10	43	1.79
4960734--4961098	160	2.3	158	83	6	434	30	25	8	35	1.86
4960702--4961115	79	5.2	77	80	7	393	30	25	9	34	1.88
4971291--4971379	40	2.2	40	91	0	151	32	22	13	31	1.93
4971308--4971381	20	3.7	20	67	7	69	29	18	13	37	1.90
4971367--4971393	13	2.1	13	100	0	54	29	14	14	40	1.86
4971377--4971433	19	2.9	19	89	2	87	31	15	17	35	1.92
4975063--4975166	50	2.1	50	94	0	181	40	14	14	30	1.86
4975314--4975363	21	2.4	22	83	9	61	32	20	0	48	1.50
4977076--4977123	20	2.3	22	89	7	73	33	4	18	43	1.69
4977088--4977130	20	2.0	21	86	8	61	39	4	20	34	1.74
4980145--4980437	140	2.1	140	83	2	374	40	12	12	34	1.81
4980177--4980502	140	2.3	141	83	5	401	41	12	10	35	1.77
4980553--4980587	9	3.8	9	85	7	52	14	2	0	82	0.77
4981911--4982313	166	2.4	165	84	3	490	50	6	8	34	1.58
4987664--4988099	162	2.7	162	80	7	411	41	12	10	35	1.77
4989372--4990004	167	3.8	167	87	5	868	49	10	10	29	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4991054--4991078	13	1.9	13	100	0	50	32	16	16	36	1.90
4991087--4991215	52	2.5	52	93	0	222	35	17	17	29	1.93
4992594--4992660	37	1.9	35	88	11	102	29	25	11	32	1.92
4993211--4993256	23	2.0	23	83	8	58	36	13	26	23	1.91
4993247--4993302	21	2.6	22	94	5	105	37	10	25	26	1.88
4993290--4993320	10	3.1	10	90	0	53	41	6	29	22	1.78
4993397--4993467	20	3.5	20	77	11	74	29	12	16	40	1.86
4993507--4993547	21	2.0	21	85	9	57	39	9	12	39	1.76
4994967--4994991	13	1.9	13	100	0	50	32	16	16	36	1.90
4995860--4995915	21	2.6	22	94	5	105	37	10	25	26	1.88
4995903--4995933	10	3.1	10	90	0	53	41	6	29	22	1.78
4996010--4996080	20	3.5	20	77	11	74	29	12	16	40	1.86
4996120--4996160	21	2.0	21	85	9	57	39	9	12	39	1.76
4997761--4997785	13	1.9	13	100	0	50	32	16	16	36	1.90
4998654--4998709	21	2.6	22	94	5	105	37	10	25	26	1.88
4998697--4998727	10	3.1	10	90	0	53	41	6	29	22	1.78
4998804--4998874	20	3.5	20	77	11	74	29	12	16	40	1.86
4998914--4998954	21	2.0	21	85	9	57	39	9	12	39	1.76
5000551--5000575	13	1.9	13	100	0	50	32	16	16	36	1.90
5001444--5001499	21	2.6	22	94	5	105	37	10	25	26	1.88
5001487--5001517	10	3.1	10	90	0	53	41	6	29	22	1.78
5001594--5001664	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)
5001704--5001744	21	2.0	21	85	9	57	39	9	12	39	1.76
5003345--5003369	13	1.9	13	100	0	50	32	16	16	36	1.90
5004238--5004293	21	2.6	22	94	5	105	37	10	25	26	1.88
5004281--5004311	10	3.1	10	90	0	53	41	6	29	22	1.78
5004388--5004458	20	3.5	20	77	11	74	29	12	16	40	1.86
5004498--5004538	21	2.0	21	85	9	57	39	9	12	39	1.76
5006139--5006163	13	1.9	13	100	0	50	32	16	16	36	1.90
5007032--5007087	21	2.6	22	94	5	105	37	10	25	26	1.88
5007075--5007105	10	3.1	10	90	0	53	41	6	29	22	1.78
5007182--5007252	20	3.5	20	77	11	74	29	12	16	40	1.86
5007292--5007332	21	2.0	21	85	9	57	39	9	12	39	1.76
5018484--5018577	20	5.1	18	81	11	102	84	12	2	1	0.78
5018506--5018584	11	7.0	11	81	9	88	84	12	2	0	0.71
5018484--5018593	40	2.6	40	84	12	125	82	14	1	0	0.80
5018489--5018584	8	12.2	8	78	14	87	83	13	2	1	0.79
5018484--5018593	34	3.0	34	84	11	112	82	14	1	0	0.80
5018489--5018584	26	3.3	29	81	14	110	83	13	2	1	0.79
5018486--5018569	1	84.0	1	73	0	60	85	10	2	1	0.74
5018521--5018592	23	3.2	23	84	7	94	83	16	0	0	0.65
5020015--5020145	27	4.6	27	77	12	127	32	32	15	20	1.94
5020015--5020145	58	2.3	57	86	5	183	32	32	15	20	1.94
5020162--5020341	49	3.7	49	78	3	191	25	23	18	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5020162--5020349	98	1.9	99	85	1	261	25	23	18	31	1.97
5021141--5021197	13	3.9	13	76	24	60	35	14	17	33	1.90
5021121--5021221	32	3.1	32	95	1	175	35	11	16	35	1.86
5021119--5021216	19	5.8	18	70	28	81	34	12	16	36	1.86
5021260--5021284	13	1.9	13	100	0	50	32	16	16	36	1.90
5021293--5021420	52	2.5	52	94	1	222	35	17	17	28	1.93
5022188--5022213	13	2.0	13	100	0	52	38	15	15	30	1.88
5022169--5022233	33	2.0	33	84	6	87	43	16	12	27	1.84
5028529--5028574	21	2.2	20	81	11	58	32	19	4	43	1.71
5030192--5030237	23	2.0	23	100	0	92	34	4	17	43	1.69

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