genome.fa.s515.2.7.7.80.10.50.1000.1.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: Scaffold515
Parameters: 2 7 7 80 10 50 1000
Length:  459219

Tables:   1   2   3   4   

This is table  1  of  4  ( 410 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)
2553--2621	34	2.0	34	94	0	120	33	20	17	28	1.95
2802--2834	2	16.5	2	100	0	66	51	0	0	48	1.00
3171--3233	25	2.5	25	76	19	69	55	3	4	36	1.37
4713--4747	16	2.2	16	89	0	52	54	14	8	22	1.67
6013--6046	17	2.1	16	88	5	50	26	8	2	61	1.40
8069--8132	29	2.2	29	94	0	110	12	15	9	62	1.54
9322--9362	18	2.2	18	86	4	55	63	7	2	26	1.33
10112--10209	47	2.1	47	90	0	151	50	4	20	25	1.66
17347--17380	10	3.4	10	95	0	59	8	32	0	58	1.29
19992--20018	2	13.5	2	100	0	54	51	0	0	48	1.00
23554--23628	20	3.8	20	78	0	87	33	13	13	40	1.83
32067--32604	27	19.6	27	85	5	634	24	32	13	28	1.94
32473--33098	28	21.1	28	80	8	335	29	30	18	22	1.97
32543--33383	28	28.0	32	78	10	568	28	30	19	21	1.98
32478--33609	56	19.2	56	78	8	705	28	29	18	22	1.98
32477--33103	32	21.1	27	82	7	268	28	29	18	22	1.98
33104--33628	28	18.4	28	81	5	516	27	29	19	23	1.98
33010--33628	84	7.0	94	79	9	297	26	29	19	24	1.98
33734--33912	96	1.9	96	84	1	243	20	26	18	34	1.95
33734--33913	48	3.8	48	82	2	218	20	26	18	34	1.96
34292--34387	20	4.7	20	73	2	84	31	13	13	41	1.83
34292--34387	40	2.3	40	84	7	122	31	13	13	41	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41447--41731	79	3.6	79	82	7	328	33	14	25	26	1.94
41663--41833	51	3.4	51	86	3	236	33	14	24	28	1.94
41584--41912	181	1.8	181	90	0	532	34	14	24	26	1.94
41765--41990	79	2.9	79	89	0	344	33	14	25	26	1.94
41718--42251	209	2.6	209	94	1	921	34	13	24	28	1.93
41505--42042	260	2.1	260	92	2	893	34	13	25	26	1.94
41927--42042	51	2.3	51	86	0	160	33	12	23	30	1.92
41978--42198	79	2.8	79	89	0	325	33	13	24	28	1.93
41582--42393	260	3.1	260	82	8	858	34	13	24	27	1.93
42132--42302	51	3.4	51	87	3	254	32	12	25	29	1.92
42053--42396	181	1.9	181	90	0	544	34	12	25	28	1.92
42234--42381	79	1.9	79	94	0	260	32	14	25	27	1.95
44750--44775	13	2.0	13	100	0	52	38	15	15	30	1.88
44729--44795	33	2.0	33	85	5	91	41	16	16	25	1.88
44816--44882	19	3.9	18	76	23	81	38	14	11	34	1.84
44837--44861	13	1.9	13	100	0	50	32	16	16	36	1.90
44818--44880	32	2.0	32	96	0	117	36	15	12	34	1.86
44918--44994	21	3.7	21	89	3	111	35	16	12	35	1.88
45392--45450	2	29.5	2	85	0	55	38	5	6	49	1.52
45503--45603	15	6.6	15	80	8	82	55	6	9	27	1.58
45563--45603	16	2.7	15	85	14	57	58	9	9	21	1.59
45503--45627	31	4.1	30	74	11	101	56	6	9	28	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45985--46038	25	2.3	22	87	9	72	12	16	3	66	1.38
46263--46312	3	16.7	3	91	0	82	66	2	2	30	1.14
47093--47126	15	2.2	15	89	5	50	41	0	20	38	1.53
50146--50183	3	12.7	3	100	0	76	68	0	0	31	0.90
50420--50457	20	2.0	20	89	5	60	23	0	2	73	0.95
50968--51000	2	16.5	2	100	0	66	48	0	0	51	1.00
52215--52257	7	6.4	7	86	7	54	39	0	0	60	0.97
52218--52253	18	2.0	18	88	0	54	38	0	0	61	0.96
52348--52398	15	3.5	15	81	2	50	54	5	0	39	1.24
53079--53133	28	2.0	28	85	7	76	40	1	0	58	1.09
53077--53116	12	3.5	11	87	12	55	37	0	0	62	0.95
55085--55116	2	16.5	2	93	6	57	53	46	0	0	1.00
64113--64271	50	3.2	50	93	0	264	28	19	22	29	1.98
68671--68829	50	3.2	50	93	0	264	28	19	22	29	1.98
71207--71502	144	2.0	145	80	7	334	46	14	11	27	1.79
72230--72433	15	13.6	15	67	22	83	58	5	7	28	1.47
72233--72414	30	6.1	28	75	13	159	58	5	7	28	1.47
72241--72434	59	3.2	58	82	10	239	59	5	7	28	1.46
80320--80389	27	2.6	27	84	6	88	50	21	5	22	1.70
84861--84932	27	2.6	27	86	2	108	47	20	11	20	1.81
92236--92280	20	2.4	18	85	7	63	48	0	0	51	1.00
92235--92281	19	2.5	18	82	6	58	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
92277--92329	21	2.6	21	80	11	58	56	0	0	43	0.99
94363--94397	5	7.0	5	90	9	54	2	17	0	80	0.84
94369--94396	14	2.0	14	100	0	56	0	14	0	85	0.59
94909--94939	11	2.8	11	90	0	53	80	0	0	19	0.71
96586--96945	154	2.3	154	75	8	347	28	13	18	40	1.88
100133--100187	28	2.0	28	96	0	101	18	9	21	50	1.74
100133--100211	28	2.9	28	85	7	92	21	6	22	49	1.72
100169--100237	24	2.8	24	82	4	75	21	5	26	46	1.74
104699--104753	28	2.0	28	100	0	110	18	10	21	49	1.78
104758--104803	24	1.9	24	90	0	74	21	4	28	45	1.71
108197--108222	11	2.4	11	100	0	52	65	0	11	23	1.25
108225--108758	81	6.7	80	81	3	508	32	11	26	29	1.91
111010--111087	31	2.5	31	97	0	147	35	15	19	29	1.92
111166--111220	20	2.7	20	80	2	56	36	14	9	40	1.78
117591--117642	15	3.6	15	84	5	54	80	1	7	9	0.97
120418--120448	2	15.5	2	93	0	53	48	0	3	48	1.17
124276--124325	4	12.2	4	80	2	55	58	0	0	42	0.98
124282--124325	16	2.8	16	100	0	88	59	0	0	40	0.98
129537--129571	6	5.7	6	96	3	61	80	0	0	20	0.72
135292--135349	13	4.0	13	74	23	53	32	15	15	36	1.89
135306--135390	19	4.7	19	77	19	92	34	16	12	36	1.87
135293--135368	32	2.4	32	95	0	134	34	17	14	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
139861--139915	2	27.5	2	100	0	110	50	0	0	49	1.00
142063--142130	33	2.1	33	88	0	100	60	14	7	17	1.57
152384--152423	21	2.0	21	85	5	55	55	0	0	45	0.99
154383--154418	18	2.0	18	88	0	54	41	0	2	55	1.14
154377--154426	26	1.9	26	88	8	75	42	0	2	56	1.11
154401--154468	32	2.1	32	81	10	77	48	2	1	47	1.26
156844--156887	22	2.0	23	82	13	56	65	6	9	18	1.42
157174--157213	2	20.0	2	100	0	80	50	0	0	50	1.00
157213--157246	2	17.0	2	100	0	68	0	0	50	50	1.00
162076--162108	15	2.2	15	89	10	50	51	3	9	36	1.49
163033--163114	26	3.3	24	68	22	62	15	6	24	53	1.65
163024--163123	49	2.0	49	96	0	182	16	6	24	54	1.64
164309--164364	25	2.2	26	78	15	71	66	0	0	33	0.92
164313--164360	25	1.9	25	91	0	78	64	0	0	35	0.94
164380--164559	90	2.0	90	97	0	342	35	10	8	45	1.69
166444--166484	2	20.5	2	100	0	82	51	0	0	48	1.00
166990--167025	13	2.6	14	86	8	56	19	19	13	47	1.83
167312--167376	3	21.7	3	87	0	94	63	1	1	33	1.13
171751--171818	31	2.2	31	89	0	100	35	20	16	27	1.94
172860--172896	19	1.9	19	88	0	56	48	5	0	45	1.25
175948--175996	21	2.3	21	89	0	71	36	12	20	30	1.89
178547--178572	12	2.2	12	100	0	52	42	0	42	15	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
194952--194997	16	2.9	16	76	0	56	23	15	17	43	1.87
197703--197770	19	3.9	19	78	21	85	35	11	14	38	1.83
197705--197767	32	2.0	32	96	0	117	34	12	15	36	1.86
197724--197748	13	1.9	13	100	0	50	36	16	16	32	1.90
197810--197835	13	2.0	13	100	0	52	30	15	15	38	1.88
197790--197856	33	2.0	33	88	0	98	25	14	16	43	1.86
200199--200540	52	6.5	53	69	17	187	29	26	12	31	1.92
200316--200384	27	2.5	27	88	2	93	24	31	21	21	1.98
200262--200654	107	3.7	105	72	11	323	27	27	14	29	1.95
200524--200600	28	2.8	28	87	0	100	23	33	19	23	1.97

Tables:   1   2   3   4