sallet_3.scaffold.fasta.s111.2.7.7.80.10.50.500.1.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: scaffold26
Parameters: 2 7 7 80 10 50 500
Length:  1212949

Tables:   1   2   3   4   5   6   

This is table  1  of  6  ( 610 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)
1321--1364	21	2.2	20	83	4	52	6	38	38	15	1.75
2591--2656	15	4.2	15	75	17	62	45	4	50	0	1.22
2695--2739	15	3.0	15	93	6	74	37	35	20	6	1.79
3438--3462	12	2.1	12	100	0	50	8	8	56	28	1.57
4081--4118	10	3.9	10	82	3	51	34	23	7	34	1.84
4081--4138	29	2.0	28	83	3	71	31	24	8	36	1.85
10055--10108	27	2.0	27	88	0	81	25	3	42	27	1.72
10082--10139	17	3.4	17	82	0	80	24	8	37	29	1.85
10167--10226	18	3.3	18	90	0	93	28	11	33	26	1.91
10203--10251	25	2.0	24	92	4	80	24	8	36	30	1.85
10263--10346	26	3.3	26	85	4	111	22	25	22	29	1.99
10312--10355	23	1.9	23	100	0	88	25	25	18	31	1.97
10899--10938	12	3.2	12	96	3	71	0	25	30	45	1.54
12498--12755	16	17.0	16	77	9	150	41	16	27	14	1.88
12810--12879	15	4.7	15	90	0	104	15	10	42	31	1.80
12859--12948	42	2.1	42	95	0	162	7	14	35	42	1.75
13083--13131	19	2.4	19	86	10	62	28	18	26	26	1.98
13267--13333	26	2.7	25	93	4	109	14	32	22	29	1.94
13864--13967	9	11.3	9	72	20	58	2	28	9	58	1.44
13916--13981	21	3.0	21	76	18	71	3	33	7	56	1.43
13915--14080	33	5.3	31	74	16	105	3	34	8	53	1.49
14008--14095	28	3.3	26	73	20	74	3	38	7	50	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14035--14076	18	2.5	17	78	14	52	2	35	7	54	1.41
13900--14080	15	11.7	16	65	23	59	3	34	8	53	1.48
13868--14062	12	16.1	12	67	24	74	3	32	8	55	1.46
14106--14131	13	2.0	13	100	0	52	0	61	0	38	0.96
14215--14250	11	3.3	11	88	0	54	16	52	8	22	1.70
15648--15728	14	5.7	14	91	2	126	14	2	61	20	1.44
15758--15816	17	3.7	16	80	11	68	44	6	35	13	1.71
16280--16333	16	3.4	16	100	0	108	25	29	29	14	1.95
16359--16419	21	3.0	21	87	2	79	27	16	27	27	1.97
16430--16484	19	2.9	19	100	0	110	21	30	20	27	1.98
16905--16937	12	2.8	12	90	0	57	27	60	0	12	1.32
17147--17211	20	3.4	19	79	14	80	20	49	4	26	1.68
17158--17210	17	2.9	17	91	8	79	18	45	5	30	1.73
17438--17477	9	4.4	9	96	0	71	0	42	37	20	1.52
17994--18056	15	4.2	15	90	8	101	0	38	44	17	1.49
18206--18313	6	18.0	6	73	7	67	0	20	55	23	1.49
18206--18314	24	4.8	24	76	13	113	0	20	55	23	1.50
18206--18284	12	6.6	12	89	0	113	0	20	55	24	1.43
18237--18341	30	3.5	29	83	10	106	2	20	52	24	1.60
18351--18395	12	3.8	12	81	0	54	6	37	31	24	1.81
18350--18395	24	1.9	24	95	0	83	6	36	30	26	1.82
18414--18449	9	4.0	9	96	0	63	0	36	8	55	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18529--18563	18	1.9	18	100	0	70	0	28	45	25	1.54
20964--21005	14	3.0	14	85	0	66	40	14	21	23	1.90
23261--23299	13	2.8	14	88	11	62	20	12	43	23	1.86
23476--23507	11	2.9	11	100	0	64	25	9	56	9	1.61
23748--23798	12	4.3	12	82	5	68	35	41	0	23	1.55
23760--23824	22	3.0	21	82	8	67	33	44	1	20	1.61
23783--23824	22	2.0	22	90	4	68	35	47	2	14	1.57
24279--24325	13	3.8	12	80	8	58	40	0	44	14	1.46
24266--24304	20	1.9	20	84	5	51	38	0	46	15	1.46
24321--24378	4	14.0	4	82	7	71	50	0	46	3	1.18
24308--24371	30	2.2	29	91	2	101	48	0	45	6	1.27
24321--24394	38	1.9	38	94	0	130	47	1	45	5	1.34
24385--24444	14	4.3	14	84	0	66	41	0	43	15	1.46
24709--24753	14	3.3	14	96	3	83	42	20	37	0	1.52
24886--24915	10	3.0	10	90	0	51	10	26	30	33	1.89
25031--25072	10	4.0	11	90	3	61	9	54	28	7	1.59
25034--25072	21	1.9	20	89	5	60	10	58	25	5	1.51
30848--30887	20	2.0	21	90	5	64	40	27	22	10	1.86
30939--30963	13	1.9	13	100	0	50	20	0	0	80	0.72
32284--32345	18	3.4	18	95	0	106	11	6	56	25	1.58
32284--32354	36	1.9	36	82	2	88	12	7	53	26	1.64
32712--32765	14	3.9	13	79	11	54	31	40	7	20	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32707--32780	15	5.1	15	83	9	82	31	41	6	20	1.78
33357--33381	12	2.1	12	100	0	50	24	52	24	0	1.48
33564--33594	15	2.1	15	93	0	53	25	16	51	6	1.68
34124--34190	33	2.0	34	82	8	84	43	0	53	2	1.16
35362--35441	42	1.9	42	84	0	106	17	33	40	8	1.81
37424--37566	7	21.1	7	70	16	79	52	0	27	18	1.51
37442--37466	13	1.9	13	100	0	50	56	4	24	16	1.57
37848--37934	12	7.5	12	82	7	108	8	43	1	47	1.40
37859--37922	22	2.9	22	83	2	83	7	45	1	45	1.42
37848--37934	34	2.5	34	85	5	113	8	43	1	47	1.40
38186--38213	10	2.8	10	100	0	56	57	32	0	10	1.33
38247--38281	12	2.9	12	100	0	70	42	51	0	5	1.25
40063--40101	12	3.2	12	100	0	78	17	17	33	30	1.94
42674--42728	11	5.1	11	88	4	85	58	25	14	1	1.47
42673--42762	22	4.0	21	80	9	90	58	27	8	4	1.47
42729--42764	12	3.0	12	95	0	63	55	33	0	11	1.35
42814--42847	16	2.1	16	100	0	68	11	38	17	32	1.86
42820--42872	25	2.1	26	92	3	90	13	37	16	32	1.88
43899--43958	32	1.9	30	93	6	102	0	13	45	41	1.43
43899--43957	15	3.8	15	86	8	91	0	13	45	40	1.43
44521--44551	9	3.4	9	95	0	53	0	32	41	25	1.56
46601--46636	10	3.6	10	92	0	63	22	22	55	0	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49125--49162	15	2.5	15	87	8	51	2	23	55	18	1.55
50632--50733	9	11.4	9	87	10	131	42	32	1	23	1.65
50619--50732	27	4.3	27	79	13	96	42	29	3	23	1.71
54945--54982	17	2.2	18	90	4	60	26	55	0	18	1.43
77949--77997	15	3.3	15	83	11	64	38	6	36	18	1.76
77994--78056	19	3.2	19	81	4	72	39	9	30	20	1.84
78017--78154	7	20.3	7	82	5	149	37	18	28	15	1.91
78001--78063	19	3.2	19	81	4	54	38	14	28	19	1.90
78149--78178	12	2.6	12	94	5	53	33	26	23	16	1.96
78222--78261	12	3.3	12	85	0	53	37	20	22	20	1.94
81592--81629	10	3.7	10	92	3	58	36	2	50	10	1.51
87414--87443	15	2.0	15	93	0	51	13	30	26	30	1.94
88842--88914	19	3.8	19	96	0	128	32	27	30	9	1.89
90381--90424	14	3.1	14	93	6	79	50	13	15	20	1.78
90446--90485	14	2.9	14	82	14	55	15	45	7	32	1.74
93041--93087	23	2.1	23	92	4	78	8	19	48	23	1.75
93040--93091	11	4.5	12	92	4	81	7	17	51	23	1.70
96271--96300	10	3.0	10	90	0	51	36	13	40	10	1.78
97508--97539	14	2.2	15	94	5	57	28	6	46	18	1.73
97915--97963	9	5.4	9	97	0	89	24	42	10	22	1.84
97933--97973	18	2.3	18	86	0	55	29	43	7	19	1.78
97915--97973	27	2.2	27	87	0	82	27	42	8	22	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
99655--99742	12	7.5	12	72	16	53	55	2	36	5	1.36
99688--99738	26	1.9	27	84	4	68	52	3	35	7	1.49
103289--103340	13	4.2	12	82	7	68	48	3	28	19	1.66
103508--103568	14	4.4	14	100	0	122	44	21	34	0	1.53
103696--103800	39	2.8	37	78	12	99	14	43	5	36	1.69
105746--105794	3	16.3	3	80	16	57	0	0	61	38	0.96
105797--105841	11	4.2	11	85	2	65	4	0	53	42	1.21
105797--105850	21	2.5	22	87	3	74	9	0	48	42	1.35
106430--106468	11	3.7	11	80	13	55	33	30	35	0	1.58
107041--107089	12	4.0	12	83	2	62	24	61	0	14	1.33

Tables:   1   2   3   4   5   6