genome.fa.s66.2.7.7.80.10.50.1000.1.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: Scaffold66
Parameters: 2 7 7 80 10 50 1000
Length:  4623749

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   

This is table  1  of  26  ( 3105 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)
6316--6364	14	3.4	14	83	5	71	65	0	0	34	0.93
6304--6365	29	2.1	29	91	5	99	58	1	0	40	1.08
6305--6360	21	2.7	21	83	5	60	60	1	0	37	1.07
6317--6383	29	2.4	27	87	12	91	61	0	0	38	0.96
6304--6387	29	2.9	29	84	8	82	57	1	0	41	1.06
9081--9112	2	16.0	2	100	0	64	50	0	0	50	1.00
10620--10649	2	15.5	2	93	6	53	50	0	0	50	1.00
11299--11340	2	21.5	2	85	4	59	45	2	0	52	1.13
11376--11413	2	19.0	2	100	0	76	50	0	0	50	1.00
12709--12743	6	5.8	6	93	0	52	68	0	2	28	1.04
12742--12776	2	17.5	2	93	0	61	48	2	0	48	1.16
12778--12804	2	13.5	2	100	0	54	51	0	48	0	1.00
17376--17437	31	2.0	31	96	0	115	46	20	19	12	1.83
17741--17773	2	16.5	2	100	0	66	48	0	51	0	1.00
17898--17959	16	3.9	16	89	0	97	35	0	6	58	1.24
17890--17966	32	2.4	32	91	6	120	37	0	6	55	1.26
17897--17966	16	4.4	15	82	12	86	37	0	7	55	1.27
17890--17987	32	3.0	32	85	7	99	35	2	8	54	1.42
18791--18836	16	2.9	16	86	0	65	19	15	21	43	1.87
21524--21552	3	9.7	3	100	0	58	34	34	31	0	1.58
22718--22754	2	18.5	2	94	0	65	45	0	2	51	1.15
35889--35985	28	3.5	26	76	18	99	39	0	5	55	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35889--35985	27	3.5	28	76	15	96	39	0	5	55	1.22
36052--36083	16	1.9	17	93	6	57	40	0	0	59	0.97
36092--36140	21	2.3	22	86	10	66	38	0	2	59	1.09
36409--36445	18	2.0	18	89	5	56	29	5	0	64	1.15
36623--36670	22	2.3	21	89	7	71	39	6	0	54	1.26
37461--37485	2	12.5	2	100	0	50	48	0	0	52	1.00
38222--38262	6	6.8	6	85	0	55	36	12	17	34	1.87
39083--39116	6	5.7	6	96	0	50	0	44	0	55	0.99
39192--39254	13	4.5	14	75	15	58	46	0	1	52	1.10
39195--39257	29	2.2	29	88	0	90	46	0	1	52	1.10
39336--39365	15	2.0	15	93	0	51	10	0	10	80	0.92
39338--39389	17	3.1	16	81	13	59	11	1	7	78	1.02
39338--39389	18	3.0	17	80	5	59	11	1	7	78	1.02
39471--39504	17	1.9	18	88	5	52	44	0	0	55	0.99
39952--39986	17	2.0	18	88	5	54	60	0	0	40	0.97
40019--40061	22	1.9	23	85	4	61	74	9	6	9	1.22
40133--40181	16	3.2	16	66	16	50	36	0	4	59	1.17
40129--40183	13	3.9	14	80	15	69	38	0	3	58	1.16
40097--40203	29	3.7	29	92	1	160	45	0	3	50	1.19
40389--40428	5	8.0	5	100	0	80	20	0	0	80	0.72
41206--41265	8	7.4	8	74	10	50	41	1	0	56	1.09
41192--41259	26	2.6	27	75	13	70	45	1	0	52	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41733--41762	2	15.0	2	100	0	60	50	0	0	50	1.00
47863--47897	2	17.5	2	93	0	61	0	45	0	54	0.99
59018--59186	84	2.0	84	96	0	311	34	10	25	28	1.89
62562--62611	24	2.0	26	88	7	77	66	6	4	24	1.32
66256--66288	14	2.2	16	89	10	52	60	6	0	33	1.21
66432--66492	32	1.9	32	90	3	97	49	16	13	21	1.79
66432--66505	32	2.3	32	86	2	87	47	18	13	20	1.82
66560--66591	16	2.0	16	93	0	55	59	15	0	25	1.36
66898--66936	13	2.7	15	80	19	55	46	0	0	53	1.00
74980--75005	2	13.0	2	100	0	52	50	50	0	0	1.00
75873--75914	2	21.0	2	100	0	84	50	0	0	50	1.00
77699--77746	2	24.0	2	100	0	96	0	50	0	50	1.00
80039--80069	2	15.5	2	100	0	62	48	0	0	51	1.00
87043--87073	2	16.0	2	93	6	55	48	0	0	51	1.00
87547--87578	4	8.0	4	100	0	64	50	0	0	50	1.00
88112--88164	26	2.0	26	85	7	72	50	0	0	49	1.00
88112--88170	27	2.2	26	85	8	75	47	0	0	52	1.00
88906--88951	16	2.9	16	83	6	58	52	2	0	45	1.13
89128--89198	29	2.4	29	81	11	74	38	1	14	46	1.53
89304--89333	15	2.0	15	93	0	51	56	0	0	43	0.99
89312--89354	22	2.1	19	87	12	59	60	0	0	39	0.97
89828--89867	14	2.9	14	85	7	55	40	2	0	57	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
92439--92494	22	2.5	22	81	18	71	41	1	3	53	1.29
92452--92504	25	2.1	26	82	3	63	47	3	3	45	1.39
92552--92600	20	2.6	19	84	12	57	36	2	0	61	1.08
100196--100229	17	2.0	17	88	11	52	26	0	0	73	0.83
103060--103094	17	2.1	17	88	0	52	20	0	8	71	1.11
103906--103960	13	4.1	13	79	9	65	45	1	1	50	1.22
103900--103957	28	2.0	29	90	3	91	44	3	1	50	1.29
103943--103985	19	2.3	19	84	8	52	51	0	2	46	1.13
104027--104094	32	2.2	30	78	12	75	48	4	0	47	1.22
104083--104151	21	3.1	21	73	20	61	46	2	1	49	1.25
104174--104247	30	2.4	30	80	17	80	54	1	2	41	1.23
108162--108190	2	14.5	2	100	0	58	48	0	0	51	1.00
109319--109539	54	4.1	54	94	1	363	16	17	35	30	1.92
109397--109485	30	3.2	30	63	18	82	15	19	33	31	1.93
109365--109500	24	5.2	24	61	19	56	16	19	34	28	1.94
110747--110775	2	14.5	2	100	0	58	48	0	0	51	1.00
112356--112615	6	43.3	6	75	0	88	13	50	25	11	1.75
112341--112619	12	23.2	12	80	0	162	15	50	24	10	1.75
112344--112618	30	9.2	30	82	1	255	14	50	24	10	1.74
112344--112618	24	11.5	24	79	10	204	14	50	24	10	1.74
114340--114378	20	2.0	19	85	5	51	56	0	0	43	0.99
115970--116038	15	4.5	16	76	20	76	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
115963--116031	30	2.5	28	80	17	81	46	0	0	53	1.00
115970--116040	30	2.4	28	82	15	88	43	0	0	56	0.99
116015--116147	66	2.0	66	80	13	150	42	2	3	51	1.29
117846--117875	4	7.8	4	92	7	53	76	0	0	23	0.78
118640--118684	14	3.2	14	87	0	54	4	11	2	82	0.91
118641--118700	20	3.0	19	78	9	66	8	11	1	78	1.03
118642--118712	20	3.6	18	75	19	61	11	11	1	76	1.10
129499--129524	2	13.0	2	100	0	52	50	0	50	0	1.00
129761--129794	4	9.0	4	87	12	54	79	0	0	20	0.73
129761--129794	7	4.5	8	92	7	54	79	0	0	20	0.73
129759--129794	19	1.9	18	94	5	63	80	0	0	19	0.71
129765--129811	22	2.1	22	84	0	58	76	2	2	19	0.99
130757--130787	5	6.2	5	100	0	62	0	58	0	41	0.98
134628--134661	3	11.3	3	100	0	68	64	0	0	35	0.94
135287--135312	2	13.0	2	100	0	52	50	0	0	50	1.00
140743--140776	4	8.5	4	100	0	68	0	23	0	76	0.79
141582--141620	2	19.5	2	100	0	78	51	0	48	0	1.00
142191--142276	39	2.2	39	97	0	163	11	26	11	50	1.73
143686--143714	2	15.0	2	92	7	51	51	0	0	48	1.00
143739--143763	2	12.5	2	100	0	50	48	0	0	52	1.00
144221--144254	2	17.0	2	100	0	68	0	50	0	50	1.00
145071--145118	23	2.1	23	96	0	87	29	8	18	43	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
145377--145411	2	17.5	2	87	0	52	45	2	2	48	1.32
145658--145689	16	1.9	17	93	6	57	46	0	0	53	1.00
145973--145998	2	13.0	2	100	0	52	50	0	0	50	1.00
151478--151512	2	17.5	2	100	0	70	0	51	0	48	1.00
151576--151605	2	15.0	2	100	0	60	50	0	0	50	1.00
153822--153864	2	21.5	2	100	0	86	48	0	0	51	1.00
155531--155571	5	8.2	5	94	0	55	0	53	0	46	1.00
155859--155891	18	1.9	18	88	11	52	57	12	18	12	1.64
161026--161058	15	2.2	15	94	0	57	33	0	0	66	0.92
161021--161055	7	4.7	7	89	10	52	28	0	0	71	0.86

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