genome.fa.s446.2.7.7.80.10.50.1000.1.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: Scaffold446
Parameters: 2 7 7 80 10 50 1000
Length:  3567220

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   

This is table  1  of  22  ( 2549 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)
3416--3461	21	2.1	22	84	4	58	19	30	19	30	1.97
6296--6339	21	2.2	20	91	4	70	36	0	2	61	1.09
6371--6416	16	2.8	16	86	6	56	78	0	13	8	0.97
8962--9016	20	2.7	20	94	2	92	16	32	3	47	1.64
9224--9284	21	3.0	21	77	18	67	44	1	0	54	1.10
9224--9278	19	2.8	19	81	8	58	45	1	0	52	1.11
10209--10335	65	2.0	65	91	0	209	29	9	20	40	1.84
11591--11642	20	2.5	20	87	3	77	42	0	0	57	0.98
12777--12825	19	2.7	19	84	6	57	44	4	0	51	1.20
13964--14020	18	3.2	18	80	9	55	42	0	0	57	0.98
14946--15071	65	1.9	65	90	0	198	27	8	21	42	1.82
16318--16371	21	2.7	18	74	20	54	38	0	1	59	1.08
17304--17430	65	2.0	65	90	0	200	31	7	19	41	1.78
18690--18735	20	2.4	19	92	7	83	41	0	0	58	0.98
19683--19809	65	2.0	65	85	0	173	30	7	22	40	1.80
20213--20246	14	2.5	14	90	4	52	35	0	8	55	1.31
20213--20252	13	3.0	13	85	7	53	37	0	10	52	1.35
20758--20791	15	2.5	13	90	9	50	44	0	2	52	1.16
23973--24046	20	3.7	20	78	3	78	36	13	10	39	1.80
24950--24997	21	2.4	22	80	16	59	22	22	10	43	1.84
27173--27227	14	3.9	14	83	6	67	49	5	0	45	1.25
28295--28368	37	2.0	37	100	0	148	35	24	16	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28305--28365	20	3.2	20	62	29	51	36	24	18	21	1.95
28924--28972	23	2.1	23	85	7	64	55	4	0	40	1.19
28940--28986	23	2.1	22	84	4	58	57	2	0	40	1.11
29249--29307	27	2.2	28	88	8	88	59	0	1	38	1.08
29626--29653	14	2.0	14	100	0	56	42	0	0	57	0.99
30021--30073	19	2.9	18	78	16	56	75	1	22	0	0.90
30024--30095	4	18.0	4	74	16	60	76	1	22	0	0.86
30028--30091	25	2.4	25	84	7	74	76	1	21	0	0.87
30023--30095	28	2.6	27	77	14	76	76	1	21	0	0.86
30475--30512	12	3.1	13	88	11	62	71	0	23	5	1.07
30525--30553	13	2.3	13	94	5	51	24	3	0	72	1.00
31390--31431	18	2.3	19	84	12	52	11	0	14	73	1.09
35991--36044	22	2.4	23	85	14	78	37	0	0	62	0.95
35988--36059	22	2.8	26	72	21	71	33	0	1	65	1.02
36157--36241	12	7.5	11	75	16	59	34	4	0	61	1.17
36161--36205	23	2.0	21	87	8	63	26	2	0	71	0.98
36169--36209	19	2.2	18	91	4	64	29	0	0	70	0.87
36319--36356	10	3.5	11	82	10	51	84	0	15	0	0.63
36287--36356	35	2.1	34	84	10	92	74	1	24	0	0.90
36773--36829	27	2.3	25	80	16	66	75	0	19	5	0.99
36942--36990	23	2.2	22	85	7	64	22	2	2	73	1.04
37153--37205	20	2.5	22	73	11	58	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38128--38164	17	2.2	18	85	9	51	40	13	10	35	1.80
38346--38381	15	2.3	16	85	4	56	36	0	5	58	1.22
38761--38805	22	2.0	23	91	8	74	44	0	0	55	0.99
39480--40948	49	30.7	50	79	10	1306	38	10	13	37	1.78
40207--40284	40	2.0	40	86	0	111	26	12	15	44	1.82
40157--40334	89	2.0	89	88	1	266	32	11	15	40	1.83
40326--40417	45	2.0	45	89	0	139	45	10	7	35	1.68
40447--40589	41	3.3	41	70	17	137	40	10	11	37	1.77
40304--40927	88	6.7	90	83	7	568	40	10	12	37	1.77
40097--40900	139	5.8	139	72	14	513	39	10	12	36	1.78
41255--41295	17	2.4	17	84	16	57	29	0	2	68	1.03
41255--41309	17	3.1	16	82	15	56	29	1	5	63	1.27
41264--41333	29	2.5	28	75	9	70	27	2	7	62	1.35
41256--41351	28	3.4	27	69	9	68	29	3	5	62	1.32
44711--45039	173	1.9	170	89	4	509	40	11	7	40	1.70
45493--46027	277	1.9	277	93	0	926	38	13	15	32	1.86
47307--47349	16	2.4	19	77	18	56	72	0	4	23	1.04
47313--47361	23	2.2	22	85	3	62	75	2	2	20	1.00
47314--47363	16	2.9	16	82	11	55	74	2	2	22	1.03
47335--47373	21	1.9	21	84	5	53	66	7	5	20	1.36
47395--47435	18	2.3	18	76	16	50	60	7	7	24	1.48
47528--47578	21	2.4	22	80	3	59	72	3	5	17	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48539--48592	2	27.0	2	100	0	108	50	0	0	50	1.00
49405--49474	8	8.9	8	75	12	56	57	0	0	42	0.99
49386--49475	15	5.7	15	74	16	67	56	0	1	42	1.06
49406--49475	24	3.0	23	87	6	97	58	0	0	41	0.98
49539--49596	29	1.9	32	83	13	79	48	1	1	48	1.22
49698--49781	38	2.3	38	80	9	97	45	2	1	51	1.22
50470--50511	14	3.1	14	82	6	59	52	0	0	47	1.00
50520--50574	26	2.2	25	87	6	76	43	1	0	54	1.10
51565--51982	50	8.4	50	84	3	418	39	8	11	40	1.72
51561--51982	100	4.2	100	83	2	467	39	8	11	40	1.72
51557--51982	149	2.9	149	82	4	477	38	8	11	41	1.71
52479--52565	26	3.3	26	72	12	88	44	4	2	48	1.36
52455--52563	52	2.1	52	94	0	191	42	4	2	50	1.37
53192--53274	30	2.9	27	76	16	78	55	1	0	43	1.07
53432--53468	19	1.9	19	88	0	56	45	0	0	54	1.00
53878--53913	10	3.7	10	85	7	56	66	0	0	33	0.92
55233--55266	2	17.0	2	100	0	68	50	0	0	50	1.00
57352--57383	2	16.0	2	93	0	55	46	0	50	3	1.17
57669--57992	92	3.5	92	89	5	489	27	22	20	29	1.99
58679--58746	30	2.3	30	82	7	86	51	4	1	42	1.31
59097--59147	17	3.1	16	71	18	50	68	13	0	17	1.21
59679--59717	19	2.1	19	85	9	53	74	0	10	15	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59865--59900	17	2.1	17	89	0	54	80	0	5	13	0.88
60468--60512	22	2.1	22	87	4	65	46	11	6	35	1.66
63891--64446	277	2.0	277	84	2	724	34	11	20	33	1.88
70137--70172	2	18.0	2	88	0	54	0	5	50	44	1.25
70367--70464	41	2.4	40	85	8	119	43	1	0	55	1.06
71327--71383	26	2.2	25	81	9	62	50	5	3	40	1.42
74590--74623	17	2.0	17	88	0	50	61	8	20	8	1.52
75861--75894	17	2.0	17	88	0	50	61	8	20	8	1.52
79777--79867	8	11.4	8	68	21	57	42	1	0	56	1.06
79780--79867	37	2.5	35	83	9	106	43	1	0	55	1.07
79796--79835	20	2.0	20	85	9	55	50	0	0	50	1.00
79784--79847	19	3.4	19	71	20	53	43	0	0	56	0.99
81137--81270	67	2.0	68	85	1	180	41	9	7	41	1.66
82396--82430	9	3.8	9	88	7	52	80	0	0	20	0.72
82391--82430	16	2.5	16	88	8	55	80	0	0	20	0.72
82392--82430	19	2.1	19	90	0	60	79	0	0	20	0.73
83709--83759	2	25.5	2	80	7	59	49	5	1	43	1.38
83712--83957	124	2.0	124	98	0	474	45	6	5	42	1.53
84852--84901	12	4.2	12	84	2	57	52	0	6	42	1.26
85788--85819	7	4.6	7	100	0	64	43	0	0	56	0.99
85978--86007	2	15.0	2	100	0	60	50	0	0	50	1.00
86381--86419	18	2.2	18	85	0	51	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
86394--86428	9	3.9	9	89	10	54	31	0	0	68	0.90
86432--86470	15	2.6	15	83	0	51	66	0	0	33	0.92
86827--86867	20	2.0	20	90	0	64	46	4	9	39	1.58
86949--86978	16	1.9	16	93	6	53	46	3	0	50	1.18
86945--86985	16	2.5	17	76	15	50	46	2	0	51	1.14
86994--87051	23	2.5	22	74	15	55	37	0	0	62	0.96
86926--87070	41	3.6	41	74	13	113	42	1	0	55	1.13
88424--88461	19	2.1	18	90	5	58	34	0	28	36	1.58
89912--89960	15	3.3	15	72	11	55	38	2	10	48	1.48
89912--89969	30	1.9	30	100	0	116	41	3	10	44	1.55

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22