oyster.v9_M.fa.s29.2.7.7.80.10.50.500.2.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: scaffold53
Parameters: 2 7 7 80 10 50 500
Length:  1214666

Tables:   1   2   3   4   

This is table  2  of  4  ( 373 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)
375244--375307	20	3.2	20	86	4	76	25	15	42	17	1.88
375264--375320	30	1.9	30	85	0	78	24	17	45	12	1.83
375839--375926	10	8.6	10	73	12	54	23	19	44	12	1.85
375827--375913	20	4.2	20	78	11	86	24	17	43	14	1.86
375996--376045	21	2.5	20	83	3	64	36	12	42	10	1.76
380001--380040	16	2.4	17	91	4	64	17	2	0	80	0.83
380001--380042	17	2.5	16	85	14	50	19	2	0	78	0.86
384422--384448	13	2.1	13	100	0	54	33	7	37	22	1.82
385367--385432	31	2.1	31	83	5	80	9	40	15	34	1.78
385416--385498	23	3.8	22	75	12	82	16	39	19	24	1.91
385406--385487	42	1.9	43	90	2	130	17	41	17	24	1.89
385398--385584	20	8.9	21	68	19	95	17	42	16	24	1.89
385494--385581	42	2.1	41	83	6	106	17	44	14	23	1.86
388282--388370	20	4.3	20	76	10	90	23	16	43	15	1.87
388307--388370	10	6.4	10	74	3	58	25	15	43	15	1.86
388443--388503	10	5.9	10	71	5	50	34	11	44	9	1.74
389659--389684	2	13.0	2	100	0	52	0	50	0	50	1.00
395180--395244	31	2.1	30	85	2	85	43	16	10	29	1.82
401675--401760	10	8.7	10	79	11	79	23	44	15	17	1.86
401705--401760	20	2.8	20	94	0	94	19	46	16	17	1.84
401683--401759	30	2.6	30	85	4	93	23	45	15	15	1.84
412217--412262	17	2.7	17	96	0	83	15	23	23	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
421949--422086	21	6.5	21	76	10	129	26	17	15	41	1.88
421978--422086	43	2.6	42	77	5	121	27	17	14	40	1.89
427725--427862	21	6.5	21	76	10	129	26	17	15	41	1.88
427754--427862	43	2.6	42	77	5	121	27	17	14	40	1.89
437478--437504	1	27.0	1	100	0	54	0	100	0	0	0.00
444899--444947	15	3.3	15	91	0	71	34	28	22	14	1.93
448397--448497	46	2.2	47	89	7	154	26	13	19	39	1.90
448977--449018	16	2.6	16	77	11	50	38	26	14	21	1.91
457942--457968	13	2.1	13	100	0	54	44	14	7	33	1.73
458162--458197	2	18.0	2	100	0	72	50	0	50	0	1.00
471513--471554	21	2.0	21	95	0	75	33	11	35	19	1.88
471918--471954	2	18.5	2	100	0	74	0	48	0	51	1.00
484713--484780	19	3.8	19	74	20	74	16	17	13	52	1.74
494781--494861	2	40.5	2	96	0	144	51	0	46	1	1.08
499298--499519	112	2.0	110	99	0	426	23	17	16	42	1.88
499720--499752	16	2.2	15	89	10	50	9	21	27	42	1.83
499674--499852	77	2.3	77	92	0	304	10	20	26	41	1.85
499797--499829	16	2.2	15	89	10	50	9	21	27	42	1.83
500026--500065	20	2.1	19	86	9	55	2	7	35	55	1.42
500036--500079	20	2.1	20	84	12	54	6	9	29	54	1.58
501880--501915	18	2.0	18	100	0	72	27	27	22	22	1.99
501969--502156	21	9.0	21	85	0	214	35	13	18	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
501972--502144	42	4.1	42	91	0	265	35	13	19	31	1.90
501969--502152	63	2.9	63	86	1	262	35	14	18	32	1.91
502207--502339	21	6.3	21	77	0	122	29	17	14	39	1.89
502205--502295	42	2.2	42	97	0	173	29	18	15	36	1.92
502205--502316	42	2.7	42	91	0	161	30	16	15	38	1.89
504905--505165	21	12.2	21	84	4	317	35	17	14	33	1.90
504913--505143	22	10.7	22	81	3	220	36	17	14	31	1.90
504913--505166	107	2.4	107	91	2	402	35	17	14	32	1.90
504914--505167	43	5.9	43	88	2	341	36	17	14	32	1.89
515068--515107	2	20.0	2	100	0	80	0	50	0	50	1.00
521198--521235	4	9.5	4	100	0	76	73	0	0	26	0.83
542205--542543	153	2.2	153	97	0	651	27	36	14	21	1.92
545958--545988	7	4.4	7	100	0	62	41	16	16	25	1.88
548146--548184	20	2.0	19	85	5	51	35	2	15	46	1.60
549971--550035	21	3.1	21	80	8	87	30	15	9	44	1.78
552828--552873	14	2.9	16	75	15	51	32	6	8	52	1.58
560567--560606	11	3.6	12	83	12	50	32	12	27	27	1.93
568838--569228	196	2.0	195	100	0	773	42	22	12	21	1.87
574859--575343	263	1.8	263	87	0	729	31	14	24	28	1.95
575122--575568	156	2.8	158	79	11	435	32	14	21	30	1.94
579420--580415	165	6.0	166	85	5	1019	34	14	22	28	1.93
585211--585236	3	8.7	3	100	0	52	65	34	0	0	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
606419--606493	37	2.0	37	94	0	132	46	13	4	36	1.62
606831--606856	2	13.0	2	100	0	52	50	0	0	50	1.00
608694--608725	4	8.0	4	92	0	55	0	25	46	28	1.53
608732--609061	161	2.0	162	85	1	446	29	14	20	36	1.92
609366--609400	17	2.1	17	100	0	70	54	17	5	22	1.64
609450--609482	17	1.9	17	100	0	66	51	18	6	24	1.68
609397--609570	91	1.9	91	85	0	240	39	14	13	33	1.85
618602--618631	12	2.4	12	94	5	51	33	10	10	46	1.71
620703--620785	2	41.5	2	100	0	166	49	0	50	0	1.00
624102--624129	2	14.0	2	100	0	56	50	0	0	50	1.00
628510--628615	53	2.0	53	96	0	194	23	30	26	19	1.98
629437--629469	15	2.1	16	88	11	50	36	3	0	60	1.12
638550--638595	21	2.2	21	96	0	83	45	13	6	34	1.69
639437--639496	2	30.0	2	100	0	120	50	0	50	0	1.00
641857--641904	2	24.0	2	100	0	96	50	0	50	0	1.00
642343--642394	17	3.1	17	82	0	77	28	13	19	38	1.89
643982--644079	50	2.0	50	93	0	169	34	26	8	30	1.86
649474--649521	2	24.0	2	86	0	60	58	0	41	0	0.98
655619--655788	21	8.1	21	87	2	243	35	21	18	23	1.95
656637--656868	21	11.0	21	83	3	270	23	19	21	35	1.96
662826--662914	43	2.1	44	76	17	100	41	4	15	38	1.68
679232--679282	7	7.3	7	86	0	75	35	13	23	27	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
679235--679282	21	2.3	21	96	0	87	35	14	25	25	1.94
679732--679793	2	31.5	2	90	3	90	51	3	45	0	1.17
679999--680043	2	22.5	2	100	0	90	0	51	0	48	1.00
682440--682506	7	9.6	7	83	0	89	26	22	14	35	1.93
682440--682506	21	3.2	21	86	0	98	26	22	14	35	1.93
692231--692261	16	1.9	16	93	0	53	51	6	6	35	1.53
693988--694019	16	1.9	17	93	6	57	68	3	15	12	1.32
694539--694886	64	5.4	65	92	0	515	35	13	16	33	1.88
694562--694877	150	2.1	150	95	0	560	35	13	16	34	1.88
695552--695761	22	9.7	22	81	3	221	38	16	14	30	1.89
695544--695784	107	2.2	107	91	0	383	36	16	14	32	1.89
695544--695783	64	3.7	63	86	5	284	36	16	14	32	1.89
695544--695785	43	5.6	43	89	1	308	36	16	14	32	1.89
696641--696687	2	23.5	2	100	0	94	48	0	51	0	1.00
697818--697933	57	2.0	57	98	0	223	25	16	15	42	1.87
709885--710227	181	1.9	180	95	0	623	36	17	15	30	1.91
711028--712159	228	5.0	228	94	2	1967	20	22	25	31	1.98
711028--712149	449	2.5	451	94	2	1964	19	22	25	31	1.98
713667--713717	25	2.0	25	100	0	102	43	15	13	27	1.85
719863--719914	15	3.5	15	68	5	52	36	13	5	44	1.68
719857--719913	29	2.0	29	96	0	105	36	12	5	45	1.64
720112--720731	168	3.7	168	87	1	823	29	19	20	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
724684--724733	10	4.8	10	92	7	82	42	40	16	2	1.59
724684--724733	21	2.4	21	96	0	91	42	40	16	2	1.59
727021--727053	17	1.9	17	100	0	66	24	21	24	30	1.99
731122--731180	21	2.9	20	74	18	59	11	11	37	38	1.79
731147--731181	11	3.3	11	88	8	54	11	14	37	37	1.82
731430--731478	10	4.8	10	87	5	71	4	14	38	42	1.64
731434--731478	21	2.2	20	88	4	63	4	15	37	42	1.67
735650--735679	15	1.9	16	93	6	53	43	20	0	36	1.52
736053--736084	16	2.0	16	93	0	55	37	12	9	40	1.75
737881--738694	37	22.1	37	91	1	1303	26	23	14	35	1.93

Tables:   1   2   3   4