sallet_3.scaffold.fasta.s112.2.7.7.80.10.50.500.1.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: scaffold64
Parameters: 2 7 7 80 10 50 500
Length:  636599

Tables:   1   2   3   

This is table  1  of  3  ( 266 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)
989--1030	11	3.9	11	84	6	59	33	33	21	11	1.90
1087--1113	12	2.2	12	100	0	54	25	44	22	7	1.79
6677--6709	12	2.8	12	90	0	57	15	48	9	27	1.74
9960--9992	15	2.2	15	94	0	57	30	27	15	27	1.96
12389--12419	14	2.2	14	94	0	53	45	29	9	16	1.79
23082--23147	20	3.4	20	91	4	100	51	0	42	6	1.26
28989--29024	12	3.0	12	100	0	72	16	25	25	33	1.96
30990--31015	12	2.2	12	100	0	52	26	50	23	0	1.50
31152--31183	15	2.1	15	94	0	55	37	37	18	6	1.76
31464--31499	12	3.0	12	91	0	63	33	22	36	8	1.84
31590--31640	12	4.2	12	74	18	52	35	33	23	7	1.84
32510--32560	21	2.4	21	83	6	68	0	37	47	15	1.46
36947--36995	12	4.1	12	84	7	64	4	30	32	32	1.77
43768--43800	16	2.1	16	100	0	66	0	24	36	39	1.56
46613--46679	24	2.8	24	93	2	109	40	8	37	13	1.76
48778--48813	13	2.5	15	91	8	58	30	0	47	22	1.52
48772--48813	7	5.9	7	81	13	50	28	2	45	23	1.66
48824--48934	13	8.5	13	91	5	179	36	16	32	15	1.90
49009--49048	16	2.5	16	87	0	62	30	22	27	20	1.98
49282--49311	12	2.5	12	94	0	51	33	26	26	13	1.93
53783--53811	12	2.4	12	100	0	58	17	34	34	13	1.89
54753--54792	21	1.9	21	84	0	53	25	32	25	17	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54963--55005	21	2.0	21	86	0	59	27	41	18	11	1.85
55297--55449	21	6.7	21	71	15	90	26	18	28	25	1.98
55274--55449	70	2.5	71	78	7	173	26	19	29	25	1.98
55297--55449	46	3.3	45	72	10	132	26	18	28	25	1.98
55416--55500	17	4.8	17	88	5	107	30	22	29	17	1.97
55501--55585	25	3.2	28	74	15	83	32	18	20	28	1.96
57719--57760	21	2.0	21	85	0	57	0	23	45	30	1.53
57816--57871	12	4.4	12	76	12	58	33	35	28	1	1.68
57818--57870	27	2.0	27	88	0	79	33	33	30	1	1.69
57947--57985	18	2.2	18	90	0	60	30	48	10	10	1.70
58027--58061	15	2.3	15	95	0	61	5	62	2	28	1.32
66039--66096	17	3.4	17	83	7	73	15	32	18	32	1.93
66196--66244	17	2.9	17	100	0	98	10	34	18	36	1.85
66368--66461	30	3.0	30	79	16	86	14	36	17	31	1.90
66368--66461	15	6.1	15	74	8	66	14	36	17	31	1.90
66365--66487	17	7.6	17	75	18	120	15	34	17	31	1.92
67342--67377	13	2.8	13	95	0	63	19	5	50	25	1.69
100861--100907	21	2.2	22	77	11	53	6	31	19	42	1.76
124366--124392	12	2.2	12	100	0	54	29	44	7	18	1.77
128116--128151	9	4.0	9	85	0	54	30	41	25	2	1.69
149859--149919	27	2.3	27	88	0	86	21	32	27	18	1.96
149775--150057	90	3.1	90	87	2	354	24	32	26	16	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
149946--150009	27	2.4	27	86	0	92	25	35	23	15	1.94
149973--150154	72	2.7	63	80	14	206	26	32	23	17	1.96
149805--150070	90	3.0	90	88	2	356	25	32	24	17	1.96
150024--150200	72	2.4	72	89	1	264	25	32	23	18	1.97
150030--150115	45	1.9	45	80	4	102	25	30	24	19	1.98
150156--150271	45	2.6	45	72	8	101	25	32	19	21	1.97
150258--150433	96	1.8	96	92	0	298	21	36	22	19	1.95
150401--150435	18	1.9	18	94	0	61	22	40	28	8	1.84
151237--151306	12	5.8	12	87	0	95	45	20	30	4	1.70
151187--151306	12	10.0	12	76	15	79	50	18	29	2	1.60
162591--162630	18	2.3	18	86	4	55	37	12	37	12	1.81
162740--162767	14	2.0	14	100	0	56	14	57	0	28	1.38
162885--162914	15	2.0	15	93	0	51	6	43	23	26	1.78
164205--164237	12	2.8	12	95	0	57	0	6	48	45	1.27
168933--168969	14	2.6	14	100	0	74	45	27	27	0	1.54
174744--174778	15	2.3	15	100	0	70	20	20	40	20	1.92
174967--175010	11	3.8	12	82	11	56	22	61	6	9	1.50
175163--175210	3	16.0	3	86	0	60	2	27	31	39	1.68
176149--176196	12	4.0	12	88	0	69	0	4	41	54	1.20
202912--202947	18	2.0	18	94	0	63	0	52	33	13	1.41
226280--226325	20	2.2	20	84	3	56	10	17	50	21	1.77
236621--236670	15	3.3	15	75	10	57	8	42	30	20	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
248219--248246	14	2.0	14	100	0	56	21	50	0	28	1.49
254580--254615	12	3.0	12	100	0	72	16	50	25	8	1.73
263524--263557	15	2.3	15	89	0	50	2	41	17	38	1.65
276254--276297	18	2.4	18	92	0	70	22	34	22	20	1.97
276251--276297	9	5.2	9	81	0	58	23	34	23	19	1.97
283538--283606	30	2.3	30	92	0	111	11	20	43	24	1.85
299575--299612	12	3.2	12	92	0	58	0	39	0	60	0.97
299575--299624	21	2.4	21	93	0	82	0	38	4	58	1.17
299577--299602	9	2.9	9	100	0	52	0	42	0	57	0.98
307799--307890	15	6.1	15	93	5	134	11	27	39	21	1.89
313696--313763	21	3.0	23	77	20	79	25	20	48	5	1.72
332877--332928	19	2.7	19	100	0	104	19	11	46	23	1.82
332891--333006	12	10.5	12	74	21	78	22	13	45	18	1.84
332919--332945	9	3.0	9	100	0	54	22	11	44	22	1.84
333032--333091	8	8.2	8	79	20	78	28	0	58	13	1.36
333039--333091	14	3.8	14	100	0	106	28	0	58	13	1.35
333137--333212	22	3.5	22	81	5	100	22	11	43	22	1.85
333122--333206	44	1.9	44	83	9	111	24	10	43	21	1.84
333434--333470	14	2.6	14	100	0	74	32	18	16	32	1.93
333607--333642	11	3.2	11	92	7	63	25	58	8	8	1.55
333607--333643	12	3.2	12	96	3	67	24	59	8	8	1.53
333607--333650	23	1.9	23	90	9	72	27	54	9	9	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
334598--334663	9	7.7	9	75	16	50	36	0	51	12	1.39
334598--334663	18	3.8	19	79	18	74	36	0	51	12	1.39
334777--334812	12	3.0	12	100	0	72	33	41	16	8	1.78
334868--334907	9	4.4	9	100	0	80	22	47	20	10	1.79
335954--336007	27	2.0	27	92	0	90	22	33	29	14	1.94
336026--336069	15	2.9	15	96	0	79	20	50	25	4	1.67
336026--336082	30	1.9	30	85	0	78	24	45	22	7	1.77
336028--336082	15	3.7	15	90	0	56	25	47	20	7	1.75
336093--336142	21	2.4	21	93	0	82	16	50	16	18	1.79
337444--337522	21	3.8	21	94	0	122	17	40	31	10	1.83
339791--339832	15	2.8	15	96	0	75	16	40	28	14	1.88
342465--342489	12	2.1	12	100	0	50	8	32	16	44	1.76
347737--347776	7	5.9	7	94	5	73	12	0	60	27	1.33
347737--347776	20	2.0	21	95	5	73	12	0	60	27	1.33
347989--348017	9	3.0	10	90	10	51	31	48	0	20	1.50
349312--349513	95	2.1	95	89	0	305	40	23	14	20	1.90
349445--349581	68	2.0	68	91	0	220	40	26	13	19	1.88
353906--353941	11	3.1	11	92	8	54	44	33	22	0	1.53
354159--354193	17	2.1	17	100	0	70	34	37	28	0	1.58
356371--356516	28	5.2	28	74	10	129	24	15	30	29	1.95
356447--356541	28	3.4	28	85	7	104	28	17	27	26	1.98
356785--356848	26	2.5	26	81	0	65	21	26	23	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
358575--358645	27	2.6	27	82	10	92	21	0	61	16	1.34
358600--358643	18	2.4	18	92	0	70	25	0	56	18	1.41
358579--358645	9	7.3	9	75	14	57	22	0	61	16	1.34
361700--361733	6	5.7	6	92	0	59	14	38	47	0	1.45
362044--362171	27	4.8	27	82	12	156	23	25	17	33	1.96
362044--362171	53	2.4	53	85	11	172	23	25	17	33	1.96
363667--363694	5	5.6	5	100	0	56	57	0	42	0	0.99
363743--363850	11	10.9	10	77	16	70	3	2	42	50	1.34
363743--363850	22	5.0	21	72	17	87	3	2	42	50	1.34
363772--363807	8	4.5	8	92	0	63	0	0	47	52	1.00

Tables:   1   2   3