genome.fa.s16.2.7.7.80.10.50.1000.33.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: Scaffold16
Parameters: 2 7 7 80 10 50 1000
Length:  5287347

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   

This is table  33  of  35  ( 4175 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)
4861729--4861805	28	2.8	28	86	4	93	23	35	19	22	1.96
4861759--4861963	79	2.6	78	80	4	207	24	30	16	28	1.97
4868071--4869428	55	23.3	60	86	5	1498	26	27	19	25	1.99
4868071--4869429	232	5.8	233	83	8	1594	26	27	19	25	1.99
4868721--4868861	27	5.1	27	61	19	76	28	28	18	24	1.98
4870109--4870166	21	2.8	21	81	5	73	36	15	15	32	1.89
4870202--4870255	19	2.8	20	83	8	67	27	11	18	42	1.84
4872613--4872712	51	1.9	52	89	2	157	30	22	11	37	1.88
4872720--4872796	28	2.8	28	86	4	93	23	35	19	22	1.96
4882906--4883239	174	1.9	174	87	1	490	35	15	20	27	1.93
4887204--4887244	21	2.0	21	86	13	59	46	14	14	24	1.82
4888098--4888228	52	2.5	52	93	0	235	29	17	18	34	1.94
4888237--4888261	13	1.9	13	100	0	50	36	16	16	32	1.90
4888306--4888357	13	3.5	13	73	26	50	36	17	13	32	1.89
4896793--4897096	167	1.8	167	85	4	434	31	11	13	43	1.81
4898038--4898103	34	1.9	34	87	6	98	45	25	3	25	1.68
4902370--4902442	16	4.6	15	78	14	76	50	0	0	49	1.00
4902399--4902456	16	3.9	14	77	20	55	50	1	0	48	1.11
4902368--4902460	21	4.2	20	70	18	60	50	1	0	48	1.07
4902502--4902570	33	2.2	33	84	5	88	46	7	4	42	1.51
4902974--4903004	15	2.1	15	100	0	62	41	25	25	6	1.79
4903321--4903380	27	2.2	27	96	0	111	28	0	43	28	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4903480--4903520	15	2.7	15	85	7	57	12	7	51	29	1.66
4908388--4908424	15	2.5	15	86	0	56	43	24	0	32	1.55
4908657--4908699	21	2.0	21	91	8	70	53	0	18	27	1.45
4909735--4909769	17	2.1	17	94	0	61	31	0	5	62	1.18
4911521--4911551	16	2.0	16	93	6	55	45	6	0	48	1.28
4917828--4917868	20	2.1	19	86	4	55	51	7	12	29	1.66
4919381--4919416	1	36.0	1	88	0	54	94	0	0	5	0.31
4919416--4919497	21	4.1	20	85	6	112	37	17	12	32	1.86
4919416--4919497	41	2.0	40	88	6	121	37	17	12	32	1.86
4919533--4919600	19	3.9	19	78	21	85	35	11	14	38	1.83
4919554--4919578	13	1.9	13	100	0	50	36	16	16	32	1.90
4919535--4919597	32	2.0	32	96	0	117	34	12	15	36	1.86
4919640--4919665	13	2.0	13	100	0	52	30	15	15	38	1.88
4919620--4919686	33	2.0	33	88	0	98	25	14	16	43	1.86
4922023--4922154	52	2.5	54	80	9	155	32	26	9	31	1.89
4922141--4922213	27	2.7	27	87	6	94	23	35	21	19	1.96
4922196--4922366	51	3.3	51	79	4	198	29	26	11	32	1.92
4922349--4922430	28	2.9	28	82	7	96	24	31	17	26	1.97
4922031--4922459	212	2.0	212	82	4	519	29	27	12	31	1.93
4925350--4925431	41	2.0	41	100	0	164	56	9	12	21	1.65
4925756--4925808	20	2.7	19	85	8	70	37	16	13	32	1.88
4930255--4930306	3	17.3	3	91	0	86	32	32	0	34	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4931888--4931950	32	1.9	33	87	3	92	41	12	15	30	1.85
4932048--4932087	20	2.0	21	90	5	64	37	7	7	47	1.60
4934256--4934408	66	2.3	66	81	1	189	45	7	3	43	1.49
4939237--4939291	22	2.5	22	100	0	110	61	9	10	18	1.54
4940204--4940278	20	3.8	20	80	3	80	40	12	13	34	1.81
4940201--4940278	40	2.0	39	87	2	111	39	12	12	34	1.82
4941991--4942018	13	2.2	13	100	0	56	25	17	14	42	1.87
4943615--4943648	3	11.3	3	87	0	50	41	0	29	29	1.57
4958627--4958652	13	2.0	13	100	0	52	38	15	15	30	1.88
4966447--4966529	32	2.6	32	84	3	96	13	9	30	46	1.75
4966447--4966529	16	5.2	16	80	2	78	13	9	30	46	1.75
4969262--4969401	74	1.9	73	85	4	192	43	12	14	29	1.82
4972644--4972680	20	1.9	19	89	10	58	51	8	0	40	1.32
4973822--4973924	27	3.8	27	86	6	111	47	0	6	45	1.29
4973836--4973921	14	6.3	13	75	19	70	51	0	4	44	1.22
4973835--4973907	13	5.4	13	76	15	76	50	0	4	45	1.20
4973831--4973924	28	3.4	27	86	4	118	51	0	5	43	1.24
4974040--4974104	27	2.4	27	87	5	87	49	3	6	41	1.43
4976173--4976197	6	4.2	6	100	0	50	48	0	0	52	1.00
4978643--4979017	204	1.8	203	95	2	682	30	10	9	49	1.70
4979214--4979296	17	4.7	17	68	15	53	39	0	3	56	1.17
4981323--4981349	13	2.1	13	100	0	54	29	14	14	40	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4981335--4981395	19	3.2	19	81	6	70	34	11	16	37	1.85
4982926--4983100	86	2.0	86	100	0	350	40	11	13	34	1.81
4987248--4987272	13	1.9	13	100	0	50	36	16	16	32	1.90
4989150--4989204	22	2.4	23	81	9	67	40	3	34	21	1.71
4989771--4989827	19	2.9	19	81	2	69	31	15	15	36	1.90
4995183--4995207	11	2.3	11	100	0	50	80	0	12	8	0.92
4995393--4995422	15	2.1	15	93	6	53	63	0	10	26	1.26
4997303--4997328	13	2.0	13	100	0	52	30	15	15	38	1.88
4998040--4998083	20	2.5	17	77	22	54	29	34	2	34	1.70
4998048--4998086	20	2.0	20	100	0	78	25	35	5	33	1.78
4999898--4999923	13	2.0	13	100	0	52	38	15	15	30	1.88
5002004--5002034	15	2.1	15	93	0	53	12	22	16	48	1.80
5003838--5003882	21	2.1	21	84	8	56	22	20	4	53	1.63
5006103--5006128	13	2.0	13	100	0	52	30	15	15	38	1.88
5010763--5010800	20	2.1	19	85	14	53	31	0	13	55	1.38
5011266--5011308	13	3.2	14	77	9	54	72	0	0	27	0.85
5013771--5013908	58	2.4	57	80	9	138	47	10	12	29	1.75
5014697--5014731	17	2.0	17	88	5	52	0	17	0	82	0.66
5014693--5014733	10	4.3	9	87	9	55	0	17	0	82	0.66
5014698--5014738	10	3.9	11	87	3	50	0	17	2	80	0.82
5015925--5015990	25	2.6	25	82	0	78	27	12	16	43	1.83
5016567--5016861	56	5.3	57	76	8	245	28	20	12	38	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5025992--5026035	3	14.7	3	90	0	70	29	31	0	38	1.58
5027004--5027080	21	3.7	21	85	3	102	36	11	16	35	1.86
5027116--5027183	19	3.9	18	76	23	83	35	11	16	36	1.85
5027137--5027161	13	1.9	13	100	0	50	36	16	16	32	1.90
5027118--5027180	32	2.0	32	96	0	117	34	12	17	34	1.88
5027223--5027248	13	2.0	13	100	0	52	30	15	15	38	1.88
5027203--5027269	33	2.0	33	88	0	98	25	14	16	43	1.86
5027781--5027810	10	3.1	10	95	4	53	76	23	0	0	0.78
5029612--5029999	52	7.4	51	70	15	233	30	25	12	32	1.92
5029719--5029793	27	2.7	29	89	6	111	25	34	18	21	1.96
5029982--5030058	28	2.8	28	82	7	86	23	35	19	22	1.96
5029612--5030108	264	1.9	263	89	2	766	29	26	12	31	1.93
5030012--5030203	79	2.4	79	81	1	215	25	29	17	28	1.97
5041891--5042062	51	3.3	51	78	5	191	32	11	26	29	1.91
5042045--5042120	27	2.8	28	88	6	102	21	21	34	23	1.97
5056819--5056990	51	3.3	51	78	5	191	32	11	26	29	1.91
5056973--5057048	27	2.8	28	88	6	102	21	21	34	23	1.97
5059514--5059539	13	2.0	13	100	0	52	38	15	15	30	1.88
5059493--5059559	33	2.0	33	88	0	98	43	16	14	25	1.86
5059579--5059646	19	3.9	18	76	23	83	38	14	11	35	1.83
5059601--5059625	13	1.9	13	100	0	50	32	16	16	36	1.90
5059582--5059644	32	2.0	32	96	0	117	36	15	12	34	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5059702--5059758	21	2.7	21	97	0	105	36	19	10	33	1.86
5059763--5059834	1	72.0	1	95	0	117	2	1	0	95	0.29
5062815--5064764	235	8.3	235	94	1	3161	26	27	19	26	1.99
5064631--5064716	26	3.1	27	65	15	77	27	29	18	24	1.98
5065490--5065547	21	2.8	21	91	0	98	39	18	10	31	1.85
5065583--5065650	19	3.9	18	76	23	83	35	11	16	36	1.85
5065604--5065628	13	1.9	13	100	0	50	36	16	16	32	1.90
5065585--5065647	32	2.0	32	96	0	117	34	12	17	34	1.88
5065690--5065715	13	2.0	13	100	0	52	30	15	15	38	1.88
5065670--5065736	33	2.0	33	88	0	98	25	14	16	43	1.86

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