genome.fa.s345.2.7.7.80.10.50.1000.1.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: Scaffold345
Parameters: 2 7 7 80 10 50 1000
Length:  201931

Tables:   1   2   

This is table  1  of  2  ( 177 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)
726--763	6	6.3	6	87	0	58	44	5	0	50	1.24
1144--1181	20	1.9	20	88	0	58	57	0	0	42	0.98
1849--1891	23	2.0	22	82	13	54	65	0	2	32	1.06
1900--1987	15	5.7	15	72	15	63	55	2	4	37	1.33
1905--1985	31	2.6	31	90	0	126	56	1	3	38	1.25
1919--1970	16	3.3	16	74	15	63	59	0	3	36	1.16
1947--2036	23	3.7	24	79	13	87	54	0	0	45	0.99
2222--2248	2	13.5	2	100	0	54	48	0	0	51	1.00
3016--3149	66	2.0	66	97	0	250	27	11	12	47	1.77
3349--3424	26	3.1	25	74	18	70	75	0	23	1	0.89
3349--3422	9	7.8	9	70	20	53	74	0	24	1	0.90
3361--3413	21	2.5	22	84	12	74	75	0	22	1	0.90
3361--3425	22	3.0	22	80	15	73	76	0	21	1	0.86
3349--3422	19	4.1	18	74	22	59	74	0	24	1	0.90
3472--3537	32	2.1	32	82	5	80	30	1	1	66	1.10
3496--3584	24	3.7	23	74	16	83	28	2	2	67	1.14
3954--4011	22	2.6	22	83	8	64	32	3	0	63	1.11
5353--5389	11	3.5	11	82	17	51	35	0	0	64	0.94
5344--5402	21	2.9	19	79	18	57	30	0	1	67	1.00
5360--5438	17	4.8	17	69	25	62	39	0	0	60	0.97
5359--5402	19	2.2	21	88	8	65	31	0	0	68	0.90
5360--5451	32	2.8	32	76	18	82	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5402--5459	16	3.5	16	76	11	55	53	0	0	46	1.00
5442--5496	18	3.0	19	78	19	55	56	0	0	43	0.99
5693--5767	24	3.0	24	76	16	73	57	0	2	40	1.13
5762--5836	16	4.5	17	70	9	57	50	0	0	49	1.00
5719--5788	26	2.8	25	83	10	81	60	0	0	40	0.97
5738--5805	21	3.2	21	74	14	61	51	0	0	48	1.00
5801--5846	22	2.2	21	88	7	67	56	0	0	43	0.99
5748--5854	29	3.6	28	74	22	69	53	0	0	46	1.00
5809--5859	22	2.3	22	80	6	59	64	0	0	35	0.94
6309--6381	33	2.2	34	82	7	87	43	5	1	49	1.34
7268--7301	17	2.1	17	88	5	52	61	0	0	38	0.96
7398--7443	14	3.2	14	80	14	58	50	0	0	50	1.00
7394--7452	29	2.0	30	90	3	93	54	0	0	45	0.99
8038--8068	13	2.4	13	94	0	53	32	0	0	67	0.91
8260--8296	19	2.0	18	89	5	56	32	0	0	67	0.91
9190--9220	2	15.5	2	100	0	62	51	0	0	48	1.00
21039--21124	9	9.2	10	68	16	51	39	0	1	59	1.05
21084--21124	20	2.0	20	85	0	55	46	0	0	53	1.00
29711--29767	26	2.2	24	77	19	62	31	1	0	66	1.02
31027--31051	12	2.1	12	100	0	50	24	8	8	60	1.52
31580--31649	20	3.5	20	79	13	65	40	0	0	60	0.97
32929--32995	15	4.1	16	74	25	61	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32919--32978	18	3.4	17	72	21	52	46	0	1	51	1.10
32921--32996	35	2.2	35	88	4	111	47	0	1	51	1.09
33017--33050	10	3.1	11	87	12	52	35	0	0	64	0.94
32977--33048	24	3.0	24	76	15	78	40	1	0	58	1.07
36280--36347	22	2.9	25	81	14	83	61	0	0	38	0.96
36297--36346	11	4.6	11	77	2	57	62	0	0	38	0.96
36616--36657	17	2.4	17	80	11	50	66	0	2	30	1.04
36760--36822	25	2.4	28	82	12	80	65	0	3	31	1.09
37102--37163	28	2.1	31	85	11	85	41	0	0	58	0.98
37108--37188	34	2.3	36	81	10	96	44	0	0	55	0.99
37054--37189	70	2.0	68	86	9	190	43	0	0	55	1.04
38650--38703	26	2.0	27	82	7	65	20	1	11	66	1.32
40012--40037	3	8.7	3	100	0	52	30	34	0	34	1.58
40304--40350	12	3.8	13	80	8	53	65	0	2	31	1.04
41559--41591	14	2.3	15	89	5	50	42	0	3	54	1.15
42733--42797	26	2.5	25	75	7	67	49	0	1	49	1.10
42783--42816	2	17.0	2	93	0	59	52	0	0	47	1.00
44677--44709	3	11.0	3	93	0	57	33	3	0	63	1.10
44916--44952	2	18.5	2	100	0	74	48	0	0	51	1.00
45053--45102	19	2.4	21	83	12	68	34	0	2	64	1.05
45442--45501	22	2.9	21	72	5	59	51	0	0	48	1.00
47185--47219	16	2.2	16	89	0	52	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48519--48558	15	2.7	15	85	14	64	67	2	0	30	1.04
48562--48592	16	1.9	16	93	0	53	74	0	9	16	1.07
51966--51991	2	13.0	2	100	0	52	50	0	0	50	1.00
58127--58174	22	2.0	24	84	15	64	45	6	4	43	1.48
58221--58277	16	3.6	16	81	9	71	40	17	17	24	1.91
59140--59185	16	2.9	16	90	0	56	54	13	4	28	1.57
64048--64079	16	2.0	16	100	0	64	62	0	37	0	0.95
66029--66066	20	1.9	19	89	5	58	47	0	0	52	1.00
66302--66350	20	2.3	21	83	13	57	36	0	4	59	1.17
66538--66626	28	3.2	28	71	20	69	48	1	0	50	1.08
67204--67245	19	2.2	20	83	12	52	45	0	2	52	1.13
69284--69308	3	8.3	3	100	0	50	64	0	0	36	0.94
69572--69614	11	3.6	12	84	15	54	67	0	0	32	0.91
70911--70949	20	2.0	20	84	0	51	23	2	5	69	1.21
85704--85905	58	3.5	58	78	7	171	45	15	10	27	1.80
89022--89060	21	1.9	20	84	5	51	33	0	2	64	1.08
89762--89803	2	21.0	2	100	0	84	50	0	0	50	1.00
89897--89932	16	2.2	17	95	5	65	50	8	5	36	1.56
89897--89943	17	2.8	16	84	9	58	46	10	6	36	1.64
90616--90651	17	2.2	17	90	5	56	58	0	0	41	0.98
93487--93520	15	2.2	16	90	10	54	58	0	5	35	1.22
93976--94039	5	12.8	5	71	12	51	40	0	1	57	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
93983--94033	26	1.9	26	88	4	75	41	0	1	56	1.10
93971--94039	9	7.6	9	72	15	52	42	0	1	56	1.08
94140--94174	15	2.2	17	90	10	56	37	8	0	54	1.31
94940--94964	13	1.9	13	100	0	50	12	0	0	88	0.53
94993--95041	23	2.1	24	88	3	73	53	0	0	46	1.00
94996--95071	28	2.5	28	79	10	71	55	3	1	39	1.27
95263--95346	29	2.9	28	81	10	98	52	3	2	41	1.31
99475--99506	2	16.0	2	100	0	64	50	0	0	50	1.00
101534--101581	21	2.2	21	78	10	53	56	0	4	39	1.19
102837--102889	24	2.4	22	78	9	54	41	1	0	56	1.10
103344--103410	16	4.4	16	77	11	68	44	0	1	53	1.09
103363--103401	14	2.6	15	84	12	53	46	0	0	53	1.00
104519--104556	16	2.4	16	86	4	51	36	5	0	57	1.21
104543--104581	20	1.9	20	89	5	60	56	0	0	43	0.99
104865--104931	29	2.3	30	82	10	77	59	0	0	40	0.97
104998--105022	4	6.2	4	100	0	50	76	0	0	24	0.80
105219--105254	3	12.0	3	93	0	63	2	33	0	63	1.08
105583--105613	13	2.3	14	94	5	55	0	16	0	83	0.64
105580--105615	17	2.1	17	89	5	54	0	16	0	83	0.65
105588--105618	16	1.9	16	100	0	62	0	19	0	80	0.71
110638--110674	2	19.0	2	84	15	51	48	0	2	48	1.15
110727--110815	28	3.3	26	73	17	83	62	0	0	37	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
111144--111190	13	3.7	13	75	16	53	40	0	0	59	0.97
139246--139287	18	2.4	17	88	7	66	83	16	0	0	0.65
139252--139278	14	1.9	14	100	0	54	81	18	0	0	0.69
140508--140971	28	16.8	28	81	8	542	30	28	18	23	1.97
141764--141852	20	4.0	24	76	21	97	28	19	11	41	1.85
141764--141849	44	2.0	44	97	0	163	27	18	11	41	1.85
150257--150282	13	2.0	13	100	0	52	46	15	7	30	1.74
158773--158851	40	2.0	40	82	9	99	51	1	0	46	1.08
165716--165745	15	2.1	15	93	6	53	0	10	0	90	0.47
165925--165971	23	2.1	21	88	7	67	51	0	2	46	1.13

Tables:   1   2