oyster.v9_M.fa.s24.2.7.7.80.10.50.500.1.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.04

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: scaffold211
Parameters: 2 7 7 80 10 50 500
Length:  1275876

Tables:   1   2   3   4   

This is table  1  of  4  ( 441 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)
7086--7577	164	3.0	164	95	0	876	26	22	20	29	1.99
12370--12735	187	2.0	187	93	2	637	29	15	18	36	1.92
17635--17679	2	23.5	2	91	8	76	48	0	51	0	1.00
21141--21213	4	18.2	4	100	0	146	24	24	0	50	1.49
27635--27666	12	2.7	12	95	0	55	46	34	18	0	1.49
28005--28235	126	1.8	126	80	1	275	38	18	16	26	1.92
66356--66407	2	26.0	2	100	0	104	0	50	0	50	1.00
78087--78180	32	3.0	32	89	4	129	21	13	14	50	1.78
100465--100514	20	2.5	20	96	0	91	38	26	36	0	1.57
100468--100521	4	13.8	4	80	3	56	35	25	38	0	1.57
111844--111889	21	2.1	22	88	4	67	13	17	26	43	1.85
112054--112095	11	3.8	11	81	9	50	7	14	33	45	1.72
112044--112102	22	2.7	22	75	0	73	6	23	27	42	1.79
112103--112146	11	3.8	11	82	17	54	47	27	15	9	1.76
112103--112148	24	2.0	22	91	8	74	47	26	17	8	1.76
126036--126142	53	2.0	53	98	0	205	38	16	9	35	1.81
154870--155667	397	2.0	397	99	0	1587	46	12	21	19	1.82
159255--159283	14	2.1	14	100	0	58	41	10	13	34	1.79
167884--167950	21	3.2	21	86	0	98	25	17	17	38	1.92
168305--168414	43	2.5	43	86	2	139	48	38	0	12	1.48
173329--173381	28	1.9	28	92	3	90	30	22	9	37	1.86
173504--173573	27	2.6	27	79	0	86	37	12	10	40	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
177250--177538	26	11.2	26	86	1	375	43	19	17	19	1.88
180116--180252	71	1.9	71	96	0	256	29	13	26	29	1.94
180959--181044	44	2.0	44	90	2	138	29	23	22	25	1.99
180999--181111	58	1.9	58	89	0	172	29	23	22	25	1.99
183331--183366	18	2.0	18	88	0	54	58	13	11	16	1.63
185574--185660	17	5.1	17	95	0	156	40	20	18	20	1.92
192151--192221	33	2.2	33	86	0	97	0	56	0	43	0.99
192159--192214	21	2.7	21	82	0	76	0	55	0	44	0.99
192160--192221	15	3.9	15	80	12	70	0	54	0	45	0.99
192162--192220	18	3.0	21	76	19	63	0	54	0	45	0.99
194473--194499	4	6.8	4	100	0	54	25	0	74	0	0.83
206213--206252	2	20.0	2	100	0	80	0	50	0	50	1.00
207537--207585	15	3.4	13	86	8	53	0	6	10	83	0.80
216609--216675	7	9.6	7	83	0	80	26	20	16	35	1.94
216609--216675	21	3.2	21	82	0	89	26	20	16	35	1.94
216609--216676	28	2.4	28	82	0	91	26	20	17	35	1.95
221495--221545	11	4.5	11	76	11	50	86	3	0	9	0.70
232148--232175	10	2.8	10	100	0	56	32	10	17	39	1.84
245449--245496	3	15.3	3	79	16	53	60	31	0	8	1.26
245448--245491	23	1.9	23	90	9	72	59	29	0	11	1.32
246414--246438	13	1.9	13	100	0	50	88	12	0	0	0.53
259705--259768	5	12.6	5	76	15	53	3	0	23	73	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
260499--260531	16	2.1	16	94	0	57	45	9	39	6	1.61
261397--261657	130	2.0	130	96	0	486	42	11	13	32	1.79
262350--262389	2	20.0	2	100	0	80	0	50	0	50	1.00
264318--264393	33	2.3	33	84	2	91	32	13	10	43	1.78
264422--265141	33	22.0	33	75	8	531	32	14	6	46	1.71
264422--265141	66	11.0	66	80	6	603	32	14	6	46	1.71
264826--264883	18	3.4	18	69	26	54	36	18	5	39	1.74
264809--264991	93	2.0	94	83	5	237	29	19	6	44	1.75
265061--265114	27	2.0	27	88	0	81	37	14	1	46	1.56
265874--266002	13	9.9	13	98	0	249	23	13	23	39	1.90
268347--268386	20	2.0	20	95	0	71	22	25	20	32	1.98
268728--268763	2	18.0	2	100	0	72	50	0	50	0	1.00
271366--271403	2	19.0	2	100	0	76	0	50	0	50	1.00
273474--273899	56	7.8	56	84	7	556	22	24	23	30	1.99
273474--273899	84	5.2	84	84	8	558	22	24	23	30	1.99
273474--273800	28	11.7	28	91	1	530	21	24	23	29	1.99
273756--273942	44	4.0	44	72	18	144	24	22	18	34	1.96
273800--273898	28	3.6	27	86	5	110	23	23	20	33	1.97
273818--273900	27	3.0	27	85	7	105	21	25	20	32	1.98
273719--273972	99	2.5	99	89	2	366	23	24	19	33	1.97
273821--273907	28	3.1	28	83	6	88	21	24	20	33	1.97
273843--274039	72	2.8	72	89	3	301	24	21	18	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
273971--274039	28	2.5	28	90	2	104	24	20	18	36	1.95
277016--277895	441	2.0	439	99	0	1715	27	12	15	43	1.83
283882--283914	17	1.9	17	100	0	66	42	24	0	33	1.55
291606--291635	15	1.9	16	93	6	53	40	3	26	30	1.72
298049--298083	15	2.2	16	90	5	54	5	40	14	40	1.69
298064--298105	22	1.9	22	90	0	66	11	40	14	33	1.82
298063--298135	30	2.5	30	84	8	80	9	42	15	32	1.79
298061--298158	8	13.0	8	71	21	52	11	42	14	31	1.80
298079--298158	30	2.7	29	84	11	92	11	43	15	30	1.81
298094--298157	22	2.9	22	83	4	67	9	45	15	29	1.78
314830--314855	13	2.0	13	100	0	52	53	0	23	23	1.46
316618--316651	16	2.1	16	94	0	59	14	11	41	32	1.82
319029--319062	12	2.8	12	90	0	50	61	29	5	2	1.34
319674--319719	2	23.0	2	100	0	92	50	0	50	0	1.00
320245--320353	54	2.0	54	100	0	218	32	27	22	18	1.97
320873--320898	12	2.2	12	100	0	52	38	15	11	34	1.83
323840--323880	21	2.0	21	100	0	82	43	17	9	29	1.80
333809--333997	100	1.9	100	100	0	378	32	20	21	25	1.97
342786--342825	21	1.9	21	85	10	55	30	7	12	50	1.68
346638--346674	2	18.5	2	100	0	74	48	0	51	0	1.00
347398--347437	20	1.9	22	85	10	57	25	12	15	47	1.80
352602--352637	7	5.1	7	86	0	54	27	38	30	2	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
354403--354763	169	2.1	169	97	0	686	31	14	19	34	1.92
360335--360484	71	2.1	71	96	1	273	33	16	13	37	1.87
367005--367035	13	2.4	13	94	0	53	51	3	9	35	1.51
373724--373786	30	2.1	29	82	8	74	77	14	0	7	0.97
374255--374289	16	2.1	17	94	5	63	20	5	20	54	1.64
378197--378229	14	2.4	14	100	0	66	33	9	6	51	1.58
384192--384256	33	2.0	33	96	0	121	41	9	6	43	1.61
387274--387327	21	2.6	21	87	0	72	40	14	7	37	1.74
392023--392047	13	1.9	13	100	0	50	44	8	8	40	1.63
394652--394687	18	2.0	18	88	0	54	52	8	13	25	1.68
398187--398226	14	2.7	14	88	7	53	0	0	27	72	0.85
406726--406841	57	2.0	57	98	0	223	47	14	11	26	1.78
425652--425927	39	7.1	38	79	5	277	20	12	20	46	1.82
425652--425931	78	3.6	78	85	1	359	20	12	20	47	1.82
425870--425988	57	2.1	57	84	6	152	21	6	23	47	1.74
425816--426066	135	1.9	135	88	3	380	21	9	20	48	1.77
425951--426409	39	11.7	39	81	2	499	21	9	19	49	1.77
425778--426105	174	1.9	174	81	6	396	22	9	20	47	1.78
426348--426409	21	3.1	21	63	21	51	17	9	20	51	1.73
426631--427259	39	15.6	39	87	6	907	15	12	22	48	1.79
428625--428650	10	2.6	10	100	0	52	65	7	15	11	1.46
429428--429491	5	12.0	5	74	12	56	46	0	1	51	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
429424--429499	33	2.5	28	79	20	91	48	0	1	50	1.09
429435--429503	33	2.1	33	97	0	129	46	0	2	50	1.16
429424--429495	16	4.4	16	81	13	85	48	0	1	50	1.09
438379--438500	59	2.1	59	95	0	217	35	12	20	31	1.90
440357--440385	14	2.0	15	93	6	51	17	20	13	48	1.81
442753--442895	23	6.2	23	96	0	250	37	25	16	20	1.93
453271--453320	21	2.3	22	86	3	66	28	2	4	66	1.21
453283--453329	22	2.2	21	92	3	76	25	0	2	72	0.96
459788--459818	15	2.1	15	93	0	53	29	22	0	48	1.51
460319--460449	22	6.0	22	95	0	226	47	22	10	19	1.80

Tables:   1   2   3   4