genome.fa.s426.2.7.7.80.10.50.1000.1.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: Scaffold426
Parameters: 2 7 7 80 10 50 1000
Length:  634051

Tables:   1   2   3   4   5   6   

This is table  1  of  6  ( 702 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)
754--780	4	6.8	4	100	0	54	77	0	0	22	0.76
4098--4146	23	2.3	20	78	18	62	63	8	8	20	1.48
4103--4155	23	2.3	23	100	0	106	60	9	11	18	1.57
5064--5138	20	3.8	20	80	3	80	40	12	13	34	1.81
5061--5138	40	2.0	39	87	2	111	39	12	12	34	1.82
6535--6573	16	2.4	16	95	0	69	53	7	0	38	1.30
10576--10615	17	2.4	17	83	8	55	45	0	0	55	0.99
10950--11012	28	2.2	28	86	8	83	34	1	3	60	1.22
14853--14920	31	2.2	31	89	0	100	47	10	0	42	1.37
15451--15506	13	4.5	12	80	10	60	55	1	0	42	1.10
15451--15506	25	2.2	24	84	12	69	55	1	0	42	1.10
15440--15508	10	6.6	11	70	21	51	55	1	1	42	1.18
17256--17496	97	2.5	98	85	4	335	32	12	27	27	1.93
19610--19657	20	2.4	20	86	6	62	43	12	12	31	1.80
19681--19732	20	2.6	20	81	0	59	40	13	9	36	1.77
19842--19880	20	2.0	20	100	0	78	15	43	10	30	1.80
20426--20461	13	2.8	12	88	12	54	19	0	0	80	0.71
20526--20567	22	1.9	22	85	9	59	40	0	7	52	1.29
21287--21331	15	3.1	15	81	15	58	51	0	0	48	1.00
21308--21340	14	2.4	14	90	10	50	45	0	0	54	0.99
21725--21764	3	13.0	3	94	5	71	67	0	32	0	0.91
23007--23054	24	2.0	24	95	0	87	35	4	0	60	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23957--23989	2	16.5	2	93	0	57	48	3	0	48	1.17
25340--25402	6	10.3	6	76	20	60	38	0	0	61	0.96
25345--25395	19	2.7	19	85	11	70	37	0	0	62	0.95
39881--40243	103	3.5	102	87	2	467	45	3	3	46	1.39
39899--40163	54	5.1	53	65	21	132	45	2	4	47	1.37
42277--42318	17	2.6	16	85	7	57	33	0	0	66	0.92
42492--42554	27	2.2	29	81	13	69	58	1	0	39	1.07
42842--42876	3	11.7	3	100	0	70	65	0	0	34	0.93
45808--45874	35	1.9	35	84	6	91	44	0	1	53	1.09
47829--47868	21	1.9	21	90	10	64	62	0	0	37	0.95
48222--48248	2	13.5	2	100	0	54	51	0	0	48	1.00
49088--49116	2	14.5	2	100	0	58	51	0	0	48	1.00
49442--49514	26	2.8	26	76	10	78	54	0	0	45	0.99
49588--49621	16	2.1	16	88	5	50	50	0	0	50	1.00
49753--49778	2	13.0	2	100	0	52	50	0	0	50	1.00
51560--51584	13	1.9	13	100	0	50	44	8	16	32	1.76
51917--51964	23	2.1	23	85	11	64	62	0	0	37	0.95
51928--51974	19	2.5	19	86	6	60	61	0	0	38	0.96
53483--53507	2	12.5	2	100	0	50	48	0	0	52	1.00
54004--54061	7	8.3	7	79	7	55	62	0	0	37	0.96
54004--54072	14	4.7	15	78	12	65	60	0	0	39	0.97
54054--54102	13	3.5	14	80	8	55	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55204--55254	26	2.0	26	85	11	70	58	0	1	39	1.09
55650--55690	21	2.0	21	90	0	64	43	0	2	53	1.13
56027--56052	13	2.0	13	100	0	52	53	0	0	46	1.00
56032--56065	17	2.0	17	88	0	50	47	0	0	52	1.00
56212--56248	12	2.9	13	88	11	51	35	0	0	64	0.94
56212--56261	20	2.4	21	80	16	59	36	0	0	64	0.94
56255--56301	18	2.4	19	82	13	60	51	0	0	48	1.00
56237--56308	28	2.5	28	82	13	76	47	0	0	52	1.00
57116--57163	20	2.4	20	83	13	55	52	0	0	47	1.00
57921--57962	22	1.9	22	85	9	59	38	0	2	59	1.10
58747--58819	19	3.9	19	70	26	59	42	0	0	57	0.98
58839--58942	25	4.2	26	74	24	91	38	1	0	59	1.08
58831--58955	64	1.9	65	91	4	209	38	2	0	59	1.11
58834--58923	20	4.3	20	68	24	69	35	2	0	62	1.08
58854--58935	15	5.3	15	65	23	53	37	2	0	59	1.11
59135--59187	19	2.7	19	85	8	63	43	0	0	56	0.99
59134--59204	20	3.7	18	81	11	70	49	0	0	50	1.00
59226--59270	22	2.0	23	87	8	67	60	13	2	24	1.45
59948--59985	20	1.9	20	88	0	58	60	0	5	34	1.19
65643--65751	46	2.4	46	80	11	134	39	0	0	58	1.10
65623--65697	29	2.6	28	73	19	75	36	1	2	60	1.20
65652--65734	16	5.4	14	71	23	60	40	0	1	57	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
65669--65738	17	4.3	17	73	24	71	41	0	1	57	1.08
65868--65927	27	2.2	27	85	8	86	35	0	1	63	1.05
65886--65925	20	2.1	18	86	9	53	35	0	2	62	1.09
65863--65966	28	3.8	26	73	14	86	34	0	2	62	1.10
66029--66071	14	3.1	14	84	12	54	37	2	0	60	1.10
66033--66072	15	2.6	16	84	11	57	35	2	0	62	1.09
74572--74646	34	2.2	33	86	11	100	45	1	0	53	1.08
78559--78632	21	3.6	20	83	7	78	29	14	14	40	1.87
82333--82390	23	2.5	23	75	13	64	22	8	25	43	1.82
90143--90172	15	1.9	16	93	6	53	40	6	0	53	1.27
90176--90230	26	2.1	25	80	12	58	29	5	1	63	1.27
92505--92544	18	2.1	20	86	9	57	37	0	7	55	1.29
92951--92999	8	6.1	8	80	0	53	44	10	2	42	1.49
93620--93692	20	3.7	19	71	12	58	24	5	21	47	1.72
93620--93662	19	2.3	19	84	4	52	23	6	20	48	1.73
94442--94470	13	2.3	13	94	5	51	51	0	0	48	1.00
95803--95865	24	2.6	24	82	5	65	63	1	1	33	1.13
95820--95951	17	7.4	17	68	18	65	59	0	0	39	1.08
95820--95959	11	12.9	11	69	14	67	59	0	0	39	1.08
96234--96286	13	3.9	14	75	20	58	56	13	3	26	1.54
96228--96283	28	2.0	28	96	0	103	55	12	7	25	1.62
96366--96426	21	2.9	21	82	4	61	70	0	29	0	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
96446--96487	21	2.0	20	86	4	57	71	0	28	0	0.86
96641--96817	85	2.1	86	80	5	198	35	6	7	50	1.57
97031--97083	24	2.2	25	80	6	65	43	5	3	47	1.45
97470--97503	2	17.0	2	100	0	68	50	0	0	50	1.00
98323--98379	22	2.7	21	89	5	80	40	3	1	54	1.28
98336--98385	22	2.2	23	89	3	75	34	4	4	58	1.36
99152--99209	20	2.8	20	82	10	71	51	0	0	48	1.00
99175--99211	17	2.1	18	90	5	58	51	0	0	48	1.00
100061--100098	15	2.6	15	80	19	53	60	7	0	31	1.25
104323--104362	11	3.2	13	80	20	50	67	25	0	7	1.16
104334--104365	11	2.9	11	100	0	64	62	28	0	9	1.26
108714--108776	21	3.0	21	79	6	65	41	7	4	46	1.54
108979--109032	18	2.8	20	89	8	78	40	1	0	57	1.09
108977--109043	20	3.2	23	82	14	74	38	1	1	58	1.17
112676--112732	7	9.0	7	78	21	72	56	0	0	43	0.99
112676--112732	12	4.6	12	89	8	87	56	0	0	43	0.99
112676--112732	19	3.0	19	82	10	80	56	0	0	43	0.99
112679--112730	6	8.5	6	83	8	61	57	0	0	42	0.98
113173--113217	22	2.0	22	82	0	54	60	6	0	33	1.23
113719--113800	18	4.4	18	72	15	60	45	0	0	54	0.99
113738--113777	21	1.9	21	90	10	64	45	0	0	55	0.99
114591--114636	24	1.9	24	95	0	83	19	6	28	45	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
114689--114735	13	3.6	13	75	11	51	14	38	6	40	1.72
118695--118720	13	2.0	13	100	0	52	30	15	15	38	1.88
120288--120342	28	2.0	28	96	0	101	20	10	20	49	1.78
120444--120490	13	3.6	13	86	11	69	14	38	6	40	1.72
120794--120833	21	1.9	21	90	10	64	45	0	0	55	0.99
125829--125892	32	2.0	32	96	0	119	45	3	20	31	1.67
126744--126777	15	2.4	14	90	5	50	47	0	8	44	1.34
126837--126868	13	2.5	13	89	0	55	68	0	0	31	0.90
129525--129640	30	3.9	30	75	8	96	37	12	4	44	1.63
130647--130692	23	2.0	23	83	8	58	43	0	0	56	0.99

Tables:   1   2   3   4   5   6