genome.fa.s161.2.7.7.80.10.50.1000.1.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: Scaffold161
Parameters: 2 7 7 80 10 50 1000
Length:  434478

Tables:   1   2   3   4   

This is table  1  of  4  ( 422 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)
2836--2896	29	2.1	29	100	0	122	52	6	9	31	1.60
3047--3105	32	1.9	31	86	10	86	16	6	25	50	1.70
3059--3118	16	3.8	16	79	0	75	16	10	26	46	1.78
3059--3152	48	2.0	48	81	8	111	17	11	25	45	1.82
4227--4269	13	3.2	13	80	6	50	41	0	4	53	1.21
4219--4269	27	1.9	26	84	4	66	47	0	3	49	1.20
4558--4620	26	2.4	28	76	17	71	52	0	3	44	1.17
4588--4636	14	3.2	16	80	13	50	57	0	0	42	0.99
10984--11013	15	2.0	15	100	0	60	40	13	20	26	1.89
10987--11040	16	3.5	15	85	7	63	48	16	12	22	1.80
11711--11740	2	15.0	2	100	0	60	50	0	0	50	1.00
12284--12340	19	2.9	19	84	2	69	33	14	15	36	1.88
12370--12407	20	1.9	20	94	0	67	31	10	18	39	1.85
12390--12416	13	2.1	13	100	0	54	29	14	14	40	1.86
12369--12437	33	2.1	33	89	10	106	31	11	17	39	1.85
18601--18627	13	2.1	13	100	0	54	29	14	14	40	1.86
20536--20576	21	2.0	21	86	13	59	36	2	26	34	1.70
21148--21204	19	2.9	19	86	2	78	29	17	17	35	1.93
21236--21276	20	2.0	21	90	4	66	39	14	12	34	1.84
25556--25597	2	21.0	2	90	0	66	47	2	2	47	1.28
25674--25729	26	2.2	26	100	0	112	33	16	19	30	1.94
25882--25925	20	2.1	21	83	8	54	40	2	4	52	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32557--32598	2	21.0	2	100	0	84	50	0	0	50	1.00
32716--32756	18	2.3	18	80	16	50	29	0	2	68	1.03
32750--32787	16	2.4	17	82	13	53	44	5	0	50	1.24
35636--35687	12	4.6	12	76	11	56	59	0	0	40	0.97
35644--35710	23	2.9	23	75	22	59	65	0	1	32	1.02
35650--35780	32	3.8	33	79	13	131	61	0	0	38	1.02
35666--35762	38	2.5	37	81	6	104	61	0	1	37	1.03
35667--35777	10	10.9	10	68	17	52	60	0	0	38	1.03
35733--35785	20	2.8	18	78	16	54	56	0	0	43	0.99
36344--36396	25	2.1	25	82	6	63	45	0	0	54	0.99
36618--36649	16	1.9	17	93	6	57	46	0	0	53	1.00
37007--37085	29	2.8	27	86	5	95	56	2	1	39	1.21
37447--37502	28	1.9	30	85	7	80	41	0	0	58	0.98
38692--38749	28	2.1	27	81	12	64	51	1	1	44	1.21
38935--38981	21	2.2	22	84	3	60	53	2	4	40	1.32
39017--39080	29	2.2	29	83	5	76	48	4	1	45	1.32
39036--39084	21	2.4	21	83	10	57	46	6	2	44	1.39
39101--39212	8	13.5	8	66	17	50	45	0	4	49	1.28
39159--39212	23	2.3	23	90	0	81	44	0	3	51	1.19
39301--39345	20	2.3	20	88	3	65	44	20	2	33	1.63
39739--39803	28	2.3	28	86	5	87	58	9	7	24	1.55
41519--41553	17	2.1	17	100	0	70	45	11	11	31	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41709--41737	2	14.5	2	100	0	58	48	0	51	0	1.00
46889--46957	15	4.2	17	66	33	53	52	0	0	47	1.00
46896--46959	16	4.0	16	68	20	53	53	0	0	46	1.00
46916--46970	19	3.0	20	80	15	57	54	1	0	43	1.10
47038--47079	20	2.2	19	86	4	57	47	0	0	52	1.00
47634--47661	5	5.6	5	100	0	56	21	0	0	78	0.75
48014--48057	19	2.2	20	84	11	56	29	0	0	70	0.88
48286--48323	17	2.2	17	90	0	58	42	2	0	55	1.14
48380--48484	40	2.8	39	76	18	98	49	0	0	50	1.00
48407--48491	40	2.2	39	83	10	102	51	0	0	48	1.00
48827--48859	16	2.0	17	94	5	59	27	0	12	60	1.32
49003--49039	2	18.5	2	100	0	74	51	0	0	48	1.00
49619--49666	20	2.4	21	79	10	55	79	4	0	16	0.89
50440--50492	25	2.1	25	82	3	61	50	3	1	43	1.30
51223--51251	11	2.6	11	100	0	58	37	0	0	62	0.96
51542--51639	27	3.5	30	75	17	88	64	0	0	35	0.94
51600--51638	15	2.6	15	83	0	51	69	0	0	30	0.89
51574--51638	16	3.9	16	75	17	62	67	0	0	32	0.91
52293--52339	13	3.8	12	78	16	51	55	2	0	42	1.12
52286--52362	25	2.8	26	74	20	68	54	1	3	40	1.27
52830--52984	53	2.9	53	91	0	256	47	13	8	30	1.72
53423--54531	371	3.0	371	89	1	1603	34	28	8	28	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55525--56216	346	2.0	345	90	0	1098	29	14	13	42	1.84
59711--59752	22	1.9	22	90	0	66	50	9	4	35	1.56
59794--59848	22	2.5	22	79	5	67	50	14	1	32	1.53
59852--59945	21	4.7	21	78	12	90	40	30	13	14	1.86
62025--62049	13	1.9	13	100	0	50	84	0	0	16	0.63
63574--63629	20	2.8	19	89	5	76	39	14	16	30	1.88
63688--63713	13	2.0	13	100	0	52	38	15	15	30	1.88
64172--64238	37	1.9	35	88	11	102	32	11	25	29	1.92
65069--65140	3	23.7	3	91	8	119	0	31	1	66	1.00
65948--66002	21	2.5	22	82	5	67	43	12	9	34	1.74
66222--66279	22	2.6	22	86	5	73	48	8	8	34	1.65
66386--66453	21	3.2	21	83	4	75	41	30	7	20	1.80
66908--66974	22	3.0	22	86	0	98	41	11	10	35	1.76
67272--67362	24	3.9	24	77	5	98	45	14	8	31	1.75
70063--70092	15	2.0	15	93	0	51	50	0	0	50	1.00
70073--70117	20	2.2	20	84	7	56	44	4	0	51	1.21
70253--70293	16	2.8	15	82	13	50	56	7	0	36	1.27
71348--71454	15	7.0	15	69	17	51	62	0	0	36	1.02
71368--71425	15	4.0	15	78	17	61	67	0	1	31	1.01
71399--71461	24	2.7	23	81	18	85	60	0	0	39	0.97
71335--71426	28	3.4	28	69	24	72	66	1	1	31	1.06
71419--71470	18	3.1	18	70	27	51	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
71380--71478	24	4.2	23	72	19	71	61	0	1	37	1.03
71466--71517	15	3.7	15	76	23	51	51	3	0	44	1.19
71764--71811	22	2.2	22	82	10	64	47	0	0	52	1.00
74852--74900	22	2.2	22	85	7	64	63	0	0	36	0.95
75456--75508	21	2.5	21	75	0	52	32	7	7	52	1.58
76145--76199	19	2.9	19	78	17	62	43	0	0	56	0.99
76147--76202	21	2.4	24	82	11	64	41	0	0	58	0.98
76341--76379	20	2.0	20	85	5	53	48	2	0	48	1.15
76597--76722	38	3.5	34	71	20	96	55	0	0	42	1.11
76622--76774	18	8.5	17	64	23	55	58	0	0	40	1.03
76619--76657	21	1.9	20	89	5	60	56	0	0	43	0.99
76617--76693	29	2.6	29	81	6	84	55	1	0	42	1.07
76691--76767	27	2.9	27	75	11	77	62	0	0	37	0.96
77628--77670	21	2.0	22	86	13	63	41	0	0	58	0.98
78205--78243	11	3.4	12	89	10	64	71	5	0	23	1.05
78205--78250	11	4.0	11	88	11	58	69	6	2	21	1.22
78766--78801	17	2.1	17	89	0	54	36	5	5	52	1.48
80249--80314	32	2.1	32	82	5	80	51	6	21	21	1.69
85046--85099	16	3.4	16	89	0	90	38	5	3	51	1.43
85496--85531	12	2.8	13	87	8	56	44	0	0	55	0.99
86068--86106	18	2.2	18	86	9	53	51	0	0	48	1.00
87453--87519	21	3.2	21	72	8	64	59	1	0	38	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
87611--87718	33	3.0	35	80	14	123	54	0	1	42	1.17
87575--87662	26	3.6	24	72	15	65	57	0	0	42	0.98
87658--87764	55	1.9	55	90	3	171	54	0	2	42	1.21
88646--88680	13	2.6	13	90	4	52	60	5	0	34	1.21
90127--90155	12	2.3	13	94	5	51	79	0	0	20	0.74
94768--94798	16	1.9	16	100	0	62	32	25	12	29	1.93
95380--95408	12	2.3	13	94	5	51	79	0	0	20	0.74
96701--96839	38	3.6	37	79	6	152	37	17	15	29	1.91
96698--96841	77	1.9	77	89	0	225	38	17	14	29	1.89
96824--96944	31	3.9	31	85	0	152	33	21	16	28	1.95

Tables:   1   2   3   4