genome.fa.s144.2.7.7.80.10.50.1000.1.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: Scaffold144
Parameters: 2 7 7 80 10 50 1000
Length:  3311329

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  1  of  21  ( 2468 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)
210--286	14	5.5	14	71	21	63	58	0	0	41	0.98
211--285	27	2.7	28	76	12	73	58	0	0	41	0.98
210--272	19	3.2	19	78	12	72	58	0	0	41	0.98
521--570	15	3.4	15	83	8	50	50	0	2	48	1.12
530--577	15	3.1	16	85	5	55	50	0	0	50	1.00
592--649	20	3.0	20	85	5	66	39	0	0	60	0.97
604--659	20	2.8	20	88	2	76	42	0	0	57	0.99
1827--2017	8	27.4	7	65	25	52	60	0	0	38	1.01
1827--2013	13	14.6	13	63	20	65	60	0	0	39	1.01
1846--2030	26	7.2	26	67	23	99	60	0	0	40	0.97
1817--2014	27	7.7	25	71	17	81	60	0	0	38	1.01
1831--2019	18	10.6	18	76	15	144	60	0	0	38	1.01
1897--2024	27	4.7	27	76	16	113	59	0	0	40	0.97
1854--2018	9	18.0	10	69	20	80	61	0	0	38	0.96
1976--2025	20	2.5	21	81	15	61	64	0	0	36	0.94
2150--2184	17	2.1	17	88	0	52	77	0	2	20	0.90
3263--3309	21	2.2	23	77	14	55	36	4	0	59	1.17
3340--3404	34	1.9	34	87	6	96	56	1	0	41	1.08
3349--3406	27	2.0	30	90	9	95	58	1	0	39	1.08
4075--4122	15	2.9	17	69	12	55	47	0	4	47	1.21
4075--4131	14	3.7	14	72	19	51	47	0	3	49	1.18
4055--4139	32	2.6	32	81	1	98	49	0	2	48	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4120--4164	17	2.7	18	80	13	51	42	0	4	53	1.21
4113--4164	18	2.9	18	75	13	54	42	0	3	53	1.19
5426--5488	11	6.2	11	77	20	50	49	0	0	50	1.00
5428--5483	13	4.3	14	72	20	50	48	0	0	51	1.00
5391--5492	33	3.1	32	78	18	104	43	0	0	55	1.06
5453--5506	29	1.9	29	85	7	76	42	0	0	57	0.98
5390--5490	25	4.1	24	71	18	73	42	0	0	56	1.06
5442--5492	11	4.6	11	78	9	59	47	0	0	52	1.00
10456--10519	24	2.8	21	71	19	56	35	4	0	59	1.18
10465--10532	29	2.3	29	76	14	68	38	5	0	55	1.24
12542--12577	18	2.0	18	89	10	56	38	0	2	58	1.13
13805--13847	13	3.1	14	80	12	52	55	0	0	44	0.99
13807--13847	14	3.0	13	86	10	55	56	0	0	43	0.99
13833--13932	35	3.0	34	84	8	118	53	0	2	45	1.12
14393--14437	20	2.1	22	84	12	58	60	0	2	37	1.09
16117--16160	2	22.0	2	90	0	70	45	0	4	50	1.22
16332--16368	2	18.5	2	94	0	65	54	0	0	45	1.00
16478--16515	18	2.1	18	85	9	51	42	0	2	55	1.14
16767--16807	18	2.2	19	86	4	57	51	9	2	36	1.48
19355--19432	16	5.1	16	75	21	53	60	0	5	34	1.19
19374--19398	12	2.1	12	100	0	50	60	0	8	32	1.26
19376--19426	17	2.9	17	82	11	59	56	0	3	39	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19372--19427	28	2.1	25	87	9	76	58	0	3	37	1.15
19381--19431	8	6.1	8	77	22	52	60	0	1	37	1.08
19473--19574	33	3.4	33	74	23	123	55	0	1	42	1.11
19506--19546	13	3.3	13	80	13	59	63	0	0	36	0.95
19497--19547	24	2.1	25	92	3	86	56	0	1	41	1.10
19493--19594	33	3.6	26	72	20	73	54	0	4	39	1.28
19472--19579	57	1.9	56	92	1	171	56	0	2	39	1.20
21075--21110	13	2.8	13	86	0	54	36	0	0	63	0.94
21075--21134	26	2.3	25	86	13	77	35	1	3	60	1.23
24441--24475	14	2.5	14	90	0	52	51	5	0	42	1.25
24536--24563	13	2.2	13	100	0	56	42	21	0	35	1.53
34467--34534	34	2.0	34	94	0	118	41	22	8	27	1.83
36899--36930	2	16.0	2	100	0	64	50	0	0	50	1.00
37840--37961	16	7.8	16	71	17	78	63	1	0	35	1.05
37824--37889	23	3.0	23	77	16	77	63	1	0	34	1.04
37845--37945	30	3.5	29	78	16	104	60	0	0	38	1.04
37834--37925	13	7.3	13	74	17	79	60	1	0	38	1.04
37831--37952	63	2.0	61	80	9	140	62	1	0	36	1.05
37845--37941	27	3.5	28	74	16	94	59	1	0	39	1.04
38565--38603	20	2.0	19	85	5	51	51	2	5	41	1.38
39303--39331	14	2.0	15	93	6	51	58	0	0	41	0.98
40167--40211	17	2.5	18	82	10	56	40	2	0	57	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40988--41030	2	21.5	2	100	0	86	48	0	0	51	1.00
41169--41216	24	2.0	24	88	8	71	35	2	0	62	1.07
45139--45163	12	2.1	12	100	0	50	36	0	0	64	0.94
48653--48691	2	20.0	2	89	5	62	48	2	0	48	1.15
49410--49471	15	3.9	15	74	16	54	3	27	0	69	1.04
49414--49466	22	2.4	23	78	15	58	3	28	0	67	1.07
50151--50201	5	11.2	5	76	23	51	37	0	0	62	0.95
50151--50232	22	3.6	22	75	6	67	40	1	0	58	1.06
50243--50320	39	2.0	38	82	2	93	32	5	0	62	1.17
50260--50317	19	2.9	21	79	18	61	31	1	0	67	1.01
50259--50321	22	2.8	23	75	17	62	30	1	0	68	0.99
50768--50804	7	5.6	7	81	12	51	59	0	0	40	0.97
50763--50803	13	3.0	14	86	13	59	53	0	0	46	1.00
50805--50842	14	2.6	15	84	16	53	63	0	0	36	0.95
50930--50984	16	3.3	17	78	12	60	41	0	1	56	1.10
50917--50977	23	2.6	23	85	12	72	42	0	1	55	1.09
51720--51769	15	3.2	16	73	21	52	60	4	0	36	1.16
52728--52763	18	2.0	18	100	0	72	38	0	0	61	0.96
56200--56233	6	5.5	6	96	3	59	82	0	2	14	0.79
58873--58960	43	2.0	43	97	0	167	19	21	7	51	1.72
60466--60499	17	2.0	17	100	0	68	35	23	17	23	1.95
72128--72174	23	2.0	23	84	8	60	31	4	0	63	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
72649--72674	10	2.6	10	100	0	52	73	0	0	26	0.84
73035--73087	26	2.0	27	89	10	83	49	0	1	49	1.12
73103--73139	18	2.0	19	89	5	58	45	0	2	51	1.15
73158--73214	18	3.4	16	75	15	53	35	0	1	63	1.05
73151--73189	20	1.9	21	84	5	53	30	0	2	66	1.05
76107--76169	27	2.3	27	91	0	99	23	15	26	33	1.95
77592--77646	26	2.1	27	82	3	67	50	3	9	36	1.51
77678--77730	27	1.9	28	81	11	65	43	0	0	56	0.99
79181--79230	15	3.3	15	88	0	73	0	28	16	56	1.41
81295--81374	12	6.5	12	72	13	56	31	0	1	67	0.99
81486--81515	15	1.9	16	93	6	53	30	0	3	66	1.07
81590--81645	18	2.9	19	78	21	64	39	0	0	60	0.97
84126--84170	23	2.0	23	86	8	65	37	0	0	62	0.96
84872--84907	15	2.4	15	85	0	54	0	33	13	52	1.41
86030--86076	15	2.9	17	70	23	55	48	2	0	48	1.13
86257--86365	30	3.5	31	70	18	86	39	0	0	58	1.10
86257--86364	31	3.5	30	74	9	76	39	0	0	58	1.11
86248--86401	39	3.9	39	70	16	104	39	0	0	59	1.07
86352--86402	20	2.3	23	83	12	72	37	0	0	62	0.95
87977--88020	14	3.1	14	80	3	52	50	0	0	50	1.00
88191--88225	3	11.7	3	100	0	70	34	0	0	65	0.93
88720--88758	16	2.4	17	82	8	53	30	2	2	64	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
88836--88878	15	2.7	15	86	10	59	55	0	0	44	0.99
88836--88881	16	2.9	16	84	12	67	54	0	0	45	0.99
89050--89088	18	2.2	18	86	9	53	51	2	0	46	1.14
89304--89347	18	2.3	20	80	11	56	18	2	2	77	0.98
92075--92113	18	2.2	19	90	9	64	35	0	5	58	1.20
92940--92979	16	2.6	15	84	7	53	42	0	2	55	1.13
93011--93083	21	3.5	21	75	5	58	50	0	0	49	1.00
93020--93094	12	6.8	12	70	20	56	50	0	0	49	1.00
93004--93065	25	2.5	26	75	17	67	48	0	0	51	1.00
93764--93828	24	2.7	24	74	6	62	55	3	0	41	1.15

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21