genome.fa.s88.2.7.7.80.10.50.1000.1.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: Scaffold88
Parameters: 2 7 7 80 10 50 1000
Length:  1260485

Tables:   1   2   3   4   5   6   7   8   

This is table  1  of  8  ( 920 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)
31--70	20	2.0	21	90	5	64	40	0	0	60	0.97
35--88	16	3.4	16	76	5	56	44	0	0	55	0.99
60--104	20	2.2	20	88	7	65	46	0	0	53	1.00
596--630	17	2.2	16	90	10	54	45	2	0	51	1.16
827--878	2	26.0	2	92	7	88	48	0	1	50	1.12
1923--1972	23	2.3	20	78	21	57	56	10	6	28	1.56
2326--2364	19	2.1	18	90	4	60	61	0	2	35	1.10
3617--3678	16	3.8	17	73	16	58	45	1	0	53	1.10
3610--3687	32	2.4	34	80	8	99	43	1	0	55	1.08
4564--4603	20	2.0	20	85	0	53	30	5	15	50	1.65
7416--7476	29	2.0	29	87	6	86	54	0	1	44	1.10
7414--7546	49	2.5	52	76	13	139	49	0	2	48	1.13
8805--8843	2	19.5	2	100	0	78	48	0	0	51	1.00
13492--13522	2	15.5	2	100	0	62	51	0	48	0	1.00
13892--13943	19	2.8	19	79	2	52	40	0	9	50	1.35
13940--13989	20	2.4	22	83	10	68	40	0	0	60	0.97
16514--16624	53	2.1	53	91	1	179	29	8	19	42	1.80
20917--20952	17	2.1	17	89	0	54	36	13	25	25	1.93
21099--21257	5	31.8	5	67	17	73	40	0	0	59	1.02
21101--21270	17	9.4	18	65	21	72	39	0	0	60	1.02
21177--21269	48	1.9	49	80	10	111	39	0	1	59	1.05
21103--21264	58	2.8	57	74	19	154	40	0	0	59	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
21209--21270	31	2.0	31	84	6	81	33	0	1	64	1.03
21498--21529	2	16.0	2	93	0	55	50	3	0	46	1.17
21776--21811	4	9.0	4	88	11	56	50	2	0	47	1.15
21853--21933	30	2.9	28	78	18	87	48	0	0	51	1.00
22332--22405	16	4.8	15	76	12	53	44	0	0	55	0.99
22372--22431	17	3.4	17	70	22	52	41	0	0	58	0.98
22784--22852	23	3.1	21	78	10	57	57	0	0	42	0.98
22979--23015	13	2.5	15	87	12	51	37	0	0	62	0.96
23079--23193	52	2.2	52	90	0	185	33	11	10	44	1.75
23360--23397	20	1.9	20	88	0	58	42	0	0	57	0.98
23453--23533	40	2.1	40	86	4	112	59	0	1	39	1.05
23479--23532	24	2.2	24	78	15	58	61	0	0	38	0.96
23502--23547	15	3.0	16	87	6	60	58	0	0	41	0.98
26787--26828	14	2.9	15	82	7	59	59	0	2	38	1.10
28304--28340	18	2.1	18	90	10	58	72	5	5	16	1.21
29699--29820	17	6.6	17	69	18	68	51	0	0	48	1.00
29706--29842	31	4.4	31	66	21	97	49	0	0	50	1.00
29720--29760	15	2.7	16	81	11	50	43	0	0	56	0.99
29700--29888	94	2.0	95	96	1	353	49	0	0	50	1.04
29815--29855	16	2.7	15	85	10	57	46	0	0	53	1.00
29752--29885	31	4.3	30	67	22	87	49	0	0	50	1.06
30297--30342	23	2.0	22	87	4	65	39	6	0	54	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30769--30826	29	2.0	27	83	12	71	56	1	3	37	1.26
32372--32396	4	6.2	4	100	0	50	76	0	0	24	0.80
33303--33339	3	12.3	3	100	0	74	35	0	0	64	0.94
34674--34699	10	2.6	10	100	0	52	61	0	0	38	0.96
36225--36256	2	16.0	2	100	0	64	50	0	0	50	1.00
36543--36599	28	2.1	27	80	9	62	56	0	0	43	0.99
36548--36645	39	2.6	37	78	10	108	52	1	1	45	1.14
37876--37916	11	3.2	13	76	16	50	51	2	0	46	1.14
37941--37986	23	2.0	23	83	8	58	45	2	0	52	1.13
38152--38219	18	3.8	18	71	13	68	57	0	1	41	1.08
38137--38216	35	2.2	37	84	10	103	60	0	2	37	1.11
38560--38594	18	1.9	18	88	0	52	45	0	0	54	0.99
38555--38609	26	2.2	25	87	6	76	45	1	0	52	1.11
38569--38619	24	2.2	22	82	10	57	47	1	0	50	1.12
39184--39224	20	2.0	21	85	9	57	51	0	0	48	1.00
39184--39233	21	2.4	21	80	9	59	50	0	0	50	1.00
41416--41468	20	2.8	20	78	13	60	47	7	0	45	1.31
42606--42639	14	2.3	15	90	5	52	73	0	0	26	0.83
43551--43658	37	2.9	37	73	17	98	41	0	0	57	1.05
43608--43666	20	2.9	21	82	7	77	35	1	1	61	1.16
43594--43680	7	13.3	7	73	17	71	37	1	1	59	1.12
43598--43680	13	6.3	12	75	16	60	37	1	1	60	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43565--43680	27	4.4	26	72	14	87	40	0	0	57	1.10
47440--47486	24	1.9	25	87	12	71	55	0	2	42	1.12
48977--49023	6	7.8	6	90	0	67	38	2	10	48	1.50
48975--49025	24	2.1	24	92	0	84	39	1	9	49	1.47
50361--50430	31	2.3	31	80	7	81	37	0	8	54	1.31
50960--51001	16	2.4	18	76	19	52	57	4	7	30	1.47
50966--51001	16	2.2	16	95	0	63	58	5	8	27	1.50
53269--53328	30	2.1	29	84	12	79	45	1	15	38	1.56
53581--53620	22	1.9	20	85	10	53	40	2	0	57	1.12
54243--54325	10	8.5	10	70	16	50	59	1	1	38	1.13
54263--54325	29	2.3	27	80	5	72	60	1	1	36	1.16
55007--55037	13	2.5	13	94	5	55	6	0	19	74	1.03
56334--56358	2	12.5	2	100	0	50	48	0	0	52	1.00
57304--57359	21	2.7	22	78	13	57	42	5	0	51	1.24
57305--57353	22	2.2	23	78	10	57	40	6	0	53	1.26
61803--61849	16	2.9	16	78	9	51	44	19	10	25	1.82
61826--61855	15	1.9	15	93	6	51	50	23	6	20	1.71
62164--62243	24	3.3	24	92	3	126	33	18	21	26	1.96
62228--62282	16	3.5	15	82	5	65	29	20	25	25	1.99
62164--62252	24	3.7	23	89	3	106	33	17	22	25	1.96
62236--62283	16	3.0	16	84	0	69	29	20	22	27	1.99
63477--63507	8	4.0	8	95	4	55	90	9	0	0	0.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
63938--64057	57	2.1	57	84	0	159	26	23	21	28	1.99
66145--66182	3	12.7	3	94	0	67	0	34	0	65	0.93
66442--66472	15	2.1	15	93	0	53	22	3	0	74	0.96
66462--66509	22	2.1	23	84	3	62	41	2	0	56	1.11
66712--66749	20	1.9	20	88	0	58	68	0	0	31	0.90
70730--70772	2	21.5	2	100	0	86	0	48	0	51	1.00
76604--76633	2	15.0	2	100	0	60	50	0	0	50	1.00
76805--76865	19	3.4	18	76	14	56	39	0	1	59	1.08
77340--77421	5	17.0	5	73	16	66	64	1	0	34	1.01
77343--77421	13	6.5	13	79	15	73	64	1	0	34	1.02
77343--77421	8	9.9	8	74	20	58	64	1	0	34	1.02
77343--77420	3	28.0	3	72	25	57	65	1	0	33	1.01
77356--77420	8	8.4	8	77	13	64	67	0	0	32	0.91
77976--78037	27	2.3	27	88	0	97	40	0	3	56	1.15
79029--79090	27	2.3	29	78	13	78	43	0	0	56	0.99
80221--80272	23	2.3	23	93	0	86	17	13	0	69	1.19
80216--80265	12	4.2	12	75	17	50	16	12	0	72	1.13
80476--80508	15	2.1	16	88	5	50	48	3	9	39	1.50
85952--85998	20	2.3	20	82	7	60	70	2	0	27	0.99
86173--86313	69	2.0	69	94	0	246	46	9	11	32	1.73
87543--87697	3	51.0	3	74	5	96	3	23	33	38	1.73
87551--87733	18	10.7	18	77	13	149	4	21	33	39	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
87648--87733	39	2.2	39	91	0	136	4	18	33	43	1.71
90359--92123	636	2.8	632	83	5	2058	27	19	14	38	1.91
96645--96686	22	2.0	21	85	4	57	57	2	0	40	1.12
96642--96702	14	4.2	14	76	13	52	57	1	0	40	1.08
96714--96748	18	1.9	18	88	0	52	51	0	0	48	1.00
96702--96759	25	2.2	25	88	11	82	51	0	0	48	1.00
96933--96972	16	2.5	16	87	0	53	55	0	0	45	0.99
97925--97967	2	21.5	2	95	0	77	51	0	0	48	1.00
103745--103798	8	7.0	8	72	16	51	46	0	0	53	1.00
103841--103877	2	18.5	2	100	0	74	48	0	0	51	1.00

Tables:   1   2   3   4   5   6   7   8