sallet_3.scaffold.fasta.s26.2.7.7.80.10.50.500.1.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: scaffold39
Parameters: 2 7 7 80 10 50 500
Length:  87172

Tables:   1   2   

This is table  1  of  2  ( 134 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)
45--83	20	2.0	20	85	10	53	2	5	56	35	1.35
457--487	15	2.1	15	93	0	53	45	35	0	19	1.51
820--851	12	2.7	12	100	0	64	34	40	0	25	1.56
1780--1811	12	2.7	12	100	0	64	6	0	59	34	1.23
1947--2046	17	5.9	17	80	8	123	31	19	25	25	1.98
1947--2046	34	2.9	34	84	8	141	31	19	25	25	1.98
1948--2045	51	1.9	51	89	0	151	30	19	24	25	1.98
2961--3004	8	5.6	8	86	2	63	25	52	0	22	1.48
2961--3012	16	3.3	16	91	2	70	25	51	0	23	1.48
2968--3016	24	2.0	24	92	0	80	24	51	0	24	1.49
3344--3411	24	2.8	24	86	0	82	1	42	36	19	1.60
3848--3908	27	2.3	27	85	0	77	14	24	37	22	1.92
3978--4005	12	2.3	12	100	0	56	0	50	0	50	1.00
4679--4731	3	17.7	3	80	0	52	54	3	37	3	1.36
4676--4731	15	3.7	15	90	0	85	53	3	39	3	1.36
4760--4845	18	4.8	18	86	0	118	23	4	43	29	1.74
4760--4850	36	2.6	36	91	1	139	21	4	43	29	1.72
4925--5009	21	4.2	21	80	8	104	24	28	24	22	1.99
4997--5053	12	4.8	12	88	0	78	17	43	12	26	1.84
5000--5053	24	2.2	24	90	0	90	16	44	11	27	1.82
5169--5209	18	2.3	18	82	0	55	9	53	0	36	1.34
6606--6633	12	2.3	12	100	0	56	14	14	35	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6627--6698	33	2.2	33	82	5	83	15	25	23	36	1.94
6741--6776	9	4.0	9	100	0	72	0	33	33	33	1.58
7527--7569	21	2.0	21	86	0	59	34	9	53	2	1.46
7569--7634	12	5.5	12	96	0	114	31	30	25	12	1.92
7629--7688	24	2.5	24	77	0	57	30	23	31	15	1.95
8921--8991	12	5.9	12	79	0	79	21	19	19	39	1.93
8921--8991	24	3.0	24	91	4	108	21	19	19	39	1.93
9422--9471	24	2.1	24	84	0	64	12	18	30	40	1.86
9629--9668	21	1.9	21	89	0	62	5	17	27	50	1.67
9650--9715	21	3.2	20	75	10	62	10	25	22	40	1.86
9975--10060	42	2.0	42	81	0	100	8	40	17	33	1.79
10066--10121	21	2.7	21	85	0	76	14	53	12	19	1.72
13698--13730	9	3.7	9	91	0	57	18	42	36	3	1.66
13870--13966	30	3.4	29	80	16	105	25	46	3	24	1.67
13893--13963	27	2.7	24	82	12	70	26	46	2	23	1.66
21943--21969	13	2.1	13	100	0	54	7	0	62	29	1.22
22413--22439	10	2.7	10	100	0	54	40	51	0	7	1.30
22615--22660	10	4.6	10	94	0	83	10	45	10	32	1.74
22604--22660	20	2.8	20	91	2	87	12	42	12	33	1.80
22974--23008	18	1.9	18	88	0	52	14	45	40	0	1.45
23418--23519	24	4.2	24	75	7	91	1	38	16	43	1.60
24043--24067	12	2.1	12	100	0	50	0	60	24	16	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
24160--24227	21	3.2	21	83	8	84	5	13	51	29	1.64
24160--24245	42	2.0	42	81	0	100	4	16	50	29	1.65
24379--24419	21	2.0	21	100	0	82	9	58	12	19	1.61
24864--24895	12	2.7	12	95	0	55	18	6	71	3	1.20
26730--26773	18	2.4	18	92	0	70	29	18	15	36	1.92
29134--29183	14	3.6	14	86	10	75	24	38	12	26	1.90
31781--31863	19	4.4	19	87	3	114	16	30	6	46	1.71
31781--31877	38	2.6	38	81	3	115	17	30	8	43	1.78
33240--33283	21	2.1	21	82	0	52	38	31	4	25	1.76
33250--33290	21	2.0	21	90	0	64	36	31	4	26	1.78
33390--33415	13	2.0	13	100	0	52	30	15	30	23	1.95
33500--33538	14	2.8	14	100	0	78	12	35	23	28	1.91
34507--34555	9	5.4	9	90	0	62	14	4	38	42	1.64
34504--34565	27	2.3	27	85	0	79	14	6	37	41	1.72
34504--34565	18	3.4	18	81	0	70	14	6	37	41	1.72
34540--34580	18	2.3	18	86	0	55	26	9	24	39	1.86
34923--34972	20	2.5	20	87	3	66	36	48	0	16	1.46
37632--37694	24	2.6	24	92	0	108	52	0	46	1	1.10
37632--37685	12	4.5	12	97	0	99	53	0	46	0	1.00
39148--39286	12	11.8	12	83	4	176	33	40	17	8	1.80
39376--39410	18	2.0	17	88	5	52	0	42	34	22	1.54
39427--39471	21	2.1	21	83	0	54	22	40	31	6	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39867--39907	12	3.2	13	89	10	50	17	41	12	29	1.85
39877--39907	12	2.6	12	100	0	62	19	41	6	32	1.77
39987--40076	27	3.3	27	88	0	126	35	40	12	12	1.80
41071--41123	20	2.7	20	96	0	97	9	35	35	18	1.84
42375--42408	13	2.6	13	100	0	68	29	14	26	29	1.95
42421--42485	33	2.0	31	85	11	87	15	47	13	23	1.81
42644--42680	13	2.8	13	91	0	65	32	37	8	21	1.83
42705--42800	13	7.5	13	73	1	86	28	28	18	25	1.98
42692--42800	39	2.8	39	81	1	139	28	27	18	25	1.98
45025--45057	13	2.5	13	100	0	66	9	33	42	15	1.78
45386--45415	9	3.2	9	90	9	51	20	46	20	13	1.83
45382--45419	10	3.9	10	89	6	60	18	47	21	13	1.82
46453--46514	10	6.4	10	81	7	65	33	14	38	12	1.84
46668--46717	11	4.5	11	94	0	91	32	10	38	20	1.85
50151--50191	18	2.3	18	100	0	82	24	36	14	24	1.93
51757--51791	7	4.7	7	89	10	52	2	0	68	28	1.04
52162--52203	13	3.2	13	89	0	66	4	7	42	45	1.52
52552--52581	13	2.3	13	100	0	60	16	36	30	16	1.91
52774--52823	21	2.3	22	93	6	93	46	50	4	0	1.20
52774--52832	21	2.7	21	89	5	73	44	50	3	1	1.28
55055--55095	15	2.8	16	89	10	61	43	31	7	17	1.76
59152--59176	10	2.5	10	100	0	50	16	16	48	20	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60532--60571	20	2.0	21	85	14	57	32	15	37	15	1.88
60583--60628	17	2.7	17	89	0	74	32	21	28	17	1.96
62887--62981	21	4.6	21	80	1	84	36	7	16	38	1.77
62883--62981	42	2.4	42	82	1	128	36	7	17	39	1.77
63354--63427	20	3.6	20	92	3	112	31	31	28	9	1.89
63505--63556	14	3.7	14	94	0	86	23	48	21	7	1.75
64248--64360	18	7.3	17	62	31	58	28	1	59	10	1.41
64233--64367	30	4.5	30	93	0	234	30	1	57	10	1.41
64209--64367	60	2.7	60	94	2	270	29	1	59	9	1.40
64381--64430	12	4.4	12	75	14	61	26	30	36	8	1.85
65524--65571	15	2.9	16	81	12	53	37	0	62	0	0.95
65742--65807	14	4.6	13	72	23	53	34	0	53	12	1.38
65916--66002	26	3.2	26	83	9	77	16	32	13	37	1.88
65943--66001	13	4.5	13	93	2	100	15	30	15	38	1.88
66438--66520	12	6.9	12	82	8	98	42	25	15	16	1.88
66438--66520	22	3.5	24	83	9	98	42	25	15	16	1.88
66568--66615	10	4.4	11	80	19	64	0	47	0	52	1.00
66569--66614	23	2.0	23	95	0	83	0	50	0	50	1.00
67772--67799	9	3.1	9	100	0	56	10	42	10	35	1.74
67972--67999	12	2.3	12	100	0	56	32	53	14	0	1.41
67995--68033	11	3.5	11	96	0	69	23	64	12	0	1.28
70848--70888	16	2.6	16	92	0	64	36	17	29	17	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
71336--71384	23	2.1	24	88	7	75	20	28	24	26	1.99
71538--71588	14	3.6	14	91	2	75	15	43	17	23	1.88
71604--71642	17	2.3	17	95	0	69	12	53	20	12	1.71
71803--71860	14	4.0	14	93	4	89	25	51	8	13	1.70
72017--72055	12	3.2	12	92	3	60	35	64	0	0	0.94
73240--73294	21	2.6	21	86	11	85	12	50	25	10	1.73
73249--73298	12	4.4	12	75	14	61	14	52	24	10	1.71
73845--73879	18	1.9	18	100	0	70	28	40	28	2	1.71
73848--73935	45	2.0	45	84	4	115	29	37	21	11	1.88
73890--73933	18	2.4	18	84	0	61	29	38	15	15	1.89

Tables:   1   2