oyster.v9_M.fa.s7.2.7.7.80.10.50.500.1.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: scaffold1532
Parameters: 2 7 7 80 10 50 500
Length:  1715538

Tables:   1   2   3   4   5   

This is table  1  of  5  ( 495 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)
487--666	89	2.0	89	96	0	333	42	12	11	33	1.78
408--980	287	2.0	286	100	0	1137	37	13	15	33	1.87
774--953	89	2.0	89	96	0	333	42	12	11	33	1.78
7931--7956	12	2.2	12	100	0	52	19	0	30	50	1.48
8248--8298	10	5.0	10	97	2	93	19	11	39	29	1.87
21407--21489	39	2.1	39	90	0	130	31	28	28	10	1.91
22472--22496	1	25.0	1	100	0	50	0	0	100	0	0.00
29412--29445	14	2.4	14	100	0	68	11	5	29	52	1.61
34561--34613	8	6.6	8	91	0	88	0	37	24	37	1.56
34561--34616	4	14.0	4	80	0	58	0	35	25	39	1.56
34567--34616	12	4.2	12	89	0	73	0	34	26	40	1.56
39658--39704	2	23.5	2	95	0	85	46	0	2	51	1.13
41507--41598	22	4.2	22	76	8	89	16	7	16	59	1.58
47554--47587	2	17.0	2	100	0	68	50	0	50	0	1.00
59562--59878	162	2.0	162	89	1	492	32	14	19	33	1.91
69963--71134	436	2.7	434	88	2	1708	31	18	15	34	1.92
72375--72493	63	1.9	63	89	6	188	47	15	20	15	1.82
73310--73565	38	6.8	38	83	6	322	29	20	18	31	1.96
73281--73565	74	3.7	75	81	9	321	30	20	18	30	1.97
73561--73600	17	2.4	17	95	4	73	40	7	27	25	1.82
82956--83059	37	2.9	37	80	7	117	31	11	11	45	1.76
82969--83063	34	2.7	35	80	11	104	33	12	11	42	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
86091--86150	23	2.7	23	89	5	79	28	11	13	46	1.78
86099--86152	23	2.3	23	96	0	99	29	9	14	46	1.76
88591--88655	31	2.1	31	94	0	112	32	21	16	29	1.96
90181--90207	13	2.1	13	100	0	54	14	7	40	37	1.74
93114--93143	11	2.6	12	89	10	53	56	10	10	23	1.62
108151--108298	55	2.7	55	92	0	233	37	17	10	33	1.85
108128--108403	55	5.2	50	77	14	216	40	19	9	29	1.83
120341--120466	28	4.4	29	90	1	193	56	15	12	15	1.68
124716--124767	2	26.0	2	100	0	104	0	50	0	50	1.00
144411--144603	102	1.9	102	87	0	287	24	17	25	32	1.96
146131--146167	2	18.5	2	88	0	56	48	0	48	2	1.15
149439--149468	15	2.0	15	93	0	51	0	0	36	63	0.95
154928--154975	22	2.3	20	82	13	53	56	10	6	27	1.57
168115--168410	145	2.0	146	98	1	576	41	10	12	35	1.77
178608--178647	20	2.0	21	90	5	64	40	17	10	32	1.83
179747--179821	27	2.6	28	80	15	91	38	0	0	61	0.96
182387--182424	16	2.4	16	100	0	76	42	0	23	34	1.55
188724--188761	20	1.9	19	94	5	67	52	2	18	26	1.58
190499--190528	12	2.5	12	100	0	60	0	43	6	50	1.28
197144--197186	17	2.4	18	84	11	61	39	9	4	46	1.57
199228--199322	21	4.5	21	77	5	102	40	11	17	30	1.86
211781--211825	20	2.2	20	92	0	72	31	11	17	40	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
217056--217090	18	1.9	17	88	11	52	71	11	5	11	1.30
228058--228237	63	3.0	60	82	8	222	46	14	22	16	1.83
235230--235295	31	2.1	31	97	0	123	28	6	13	51	1.65
247029--247074	21	2.2	21	84	0	56	41	23	10	23	1.86
248308--248368	29	2.1	29	90	0	95	29	6	21	42	1.78
251508--251548	17	2.6	16	88	7	57	41	19	17	21	1.90
252026--252091	29	2.2	29	94	2	114	36	15	13	34	1.87
252355--252391	2	18.5	2	94	0	65	0	48	0	51	1.00
254745--254851	30	3.6	30	82	7	128	29	14	17	38	1.89
254838--254913	30	2.5	30	82	0	89	28	17	15	38	1.90
265588--265619	5	6.4	5	100	0	64	59	21	0	18	1.38
268644--268684	10	4.1	10	90	0	64	39	12	17	31	1.86
271442--271485	2	22.0	2	100	0	88	50	0	0	50	1.00
271979--272015	2	18.5	2	100	0	74	0	51	0	48	1.00
272914--272956	21	2.0	21	100	0	86	41	4	9	44	1.57
274355--274488	30	4.5	29	81	5	126	26	20	17	35	1.94
280321--280356	2	18.0	2	100	0	72	0	50	0	50	1.00
282741--282818	30	2.6	30	89	0	120	25	17	19	37	1.94
285954--285988	2	17.5	2	100	0	70	51	0	48	0	1.00
296872--296917	21	2.2	21	88	0	65	43	26	8	21	1.81
300245--300305	2	30.5	2	93	0	104	1	47	0	50	1.10
301558--301650	22	4.3	22	91	1	143	38	20	16	24	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
310256--310505	125	2.0	125	97	0	473	24	20	24	30	1.99
316797--316844	2	24.0	2	100	0	96	50	0	50	0	1.00
317162--317209	2	24.0	2	95	0	87	0	47	0	52	1.00
319890--319934	2	22.5	2	95	0	81	48	0	48	2	1.13
326842--326887	2	23.0	2	100	0	92	0	50	0	50	1.00
332311--332420	54	2.1	51	91	5	175	37	13	11	37	1.82
332533--332584	2	26.0	2	100	0	104	0	50	0	50	1.00
334303--334337	17	2.2	17	90	10	56	51	0	11	37	1.38
360343--360391	18	2.7	18	87	0	71	22	18	16	42	1.88
365239--365338	49	2.0	49	82	3	121	35	17	15	33	1.90
372393--372465	4	18.2	4	100	0	146	24	24	0	50	1.49
372463--372491	4	7.2	4	100	0	58	0	24	24	51	1.48
382783--382859	4	19.2	4	100	0	154	24	24	0	50	1.49
382857--382889	4	8.2	4	93	0	57	0	27	21	51	1.48
386050--386094	12	3.8	12	86	13	67	0	35	22	42	1.54
387055--387089	2	17.5	2	100	0	70	0	0	51	48	1.00
390366--390639	100	2.8	101	89	5	397	24	21	18	34	1.96
390533--390588	19	2.9	19	84	5	69	17	35	16	30	1.92
396330--396359	15	2.0	15	93	0	51	36	6	30	26	1.82
397815--397851	11	3.4	11	84	0	56	24	27	8	40	1.83
399996--400047	26	2.0	26	96	0	95	32	19	23	25	1.97
403993--404031	12	3.5	11	86	10	53	2	0	7	89	0.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
403993--404028	17	2.2	17	90	9	58	2	0	8	88	0.59
407104--407148	22	2.0	21	91	8	72	35	8	46	6	1.61
408086--408151	2	33.0	2	100	0	132	0	50	0	50	1.00
409084--409125	4	10.8	4	89	5	68	0	2	23	73	0.94
415264--415301	19	2.0	19	100	0	76	63	0	5	31	1.17
425941--425998	29	2.0	28	93	3	98	34	8	25	29	1.86
434916--434946	14	2.2	14	100	0	62	54	12	6	25	1.62
435177--435322	21	7.0	21	73	0	130	41	17	24	17	1.90
435193--435297	42	2.5	42	93	0	183	40	19	22	17	1.91
435177--435322	42	3.5	42	86	1	168	41	17	24	17	1.90
437291--437356	21	3.1	21	78	8	80	43	19	21	15	1.87
437291--437377	42	2.1	42	86	0	120	42	18	21	17	1.89
449010--449039	15	2.0	15	93	0	51	23	6	23	46	1.75
463769--463800	2	16.0	2	100	0	64	50	50	0	0	1.00
473801--473836	17	2.1	17	89	0	54	38	13	16	30	1.88
478774--479179	200	2.0	201	99	0	805	33	14	18	33	1.90
479916--479968	10	5.0	11	84	15	76	84	15	0	0	0.61
479916--479968	27	2.0	26	89	10	81	84	15	0	0	0.61
479919--479970	12	4.6	12	75	22	58	84	15	0	0	0.62
486879--487269	196	2.0	195	100	0	773	32	17	15	33	1.92
510951--511138	21	9.2	21	73	12	176	35	13	17	32	1.89
510949--511138	43	4.6	42	75	12	189	35	13	17	33	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
511001--511115	56	2.1	56	90	3	178	38	11	17	33	1.85
511810--512045	22	11.0	21	78	3	175	33	15	14	35	1.89
511836--512044	107	2.0	107	85	0	283	33	16	15	35	1.90
511808--512001	64	3.0	64	80	0	226	33	15	13	36	1.88
511808--512046	43	5.6	43	80	3	221	33	15	14	35	1.89
521883--521967	2	43.0	2	97	2	163	50	0	49	0	1.00
525511--525548	2	19.0	2	100	0	76	50	0	50	0	1.00
531214--531287	6	12.3	6	95	0	121	50	0	45	4	1.20
531214--531287	10	7.4	10	95	0	121	50	0	45	4	1.20
531214--531287	4	18.5	4	94	0	121	50	0	45	4	1.20

Tables:   1   2   3   4   5