oyster.v9_M.fa.s45.2.7.7.80.10.50.500.2.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: scaffold354
Parameters: 2 7 7 80 10 50 500
Length:  1097647

Tables:   1   2   3   

This is table  2  of  3  ( 311 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)
469916--469993	21	3.7	22	83	6	74	38	17	19	24	1.93
470087--470171	42	2.0	42	93	0	143	25	12	20	41	1.88
470087--470171	21	4.0	21	79	8	93	25	12	20	41	1.88
470266--470323	21	2.8	21	83	0	71	39	17	15	27	1.90
470424--470515	21	4.4	21	85	0	112	39	20	17	22	1.93
470424--470515	42	2.2	42	88	3	132	39	20	17	22	1.93
471491--471543	2	26.5	2	100	0	106	0	50	0	49	1.00
473205--473246	2	21.5	2	87	4	59	0	42	0	57	0.99
475296--475341	2	23.0	2	100	0	92	0	50	0	50	1.00
480761--480797	14	2.4	16	82	13	51	21	2	5	70	1.20
493878--494035	79	2.0	79	100	0	316	40	13	16	29	1.87
499492--499529	20	1.9	20	94	0	67	28	5	15	50	1.66
517534--517559	12	2.2	12	100	0	52	30	7	11	50	1.67
517965--518010	23	2.0	23	83	8	58	32	8	17	41	1.80
529964--529994	14	2.1	15	94	5	55	90	0	0	9	0.46
537231--537313	4	20.0	4	74	16	71	26	3	19	50	1.64
537271--537308	13	2.8	13	84	15	51	23	7	15	52	1.69
558698--558751	16	3.4	16	85	7	74	11	22	46	20	1.82
558722--558757	16	2.2	16	90	0	54	8	22	41	27	1.82
573289--573509	123	1.8	119	88	7	338	29	28	14	26	1.96
573421--574035	162	3.8	161	81	9	660	29	22	14	33	1.94
574977--575057	36	2.4	33	85	8	110	25	27	18	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
575045--575078	17	2.0	17	88	0	50	20	26	14	38	1.91
576184--577255	166	6.5	166	86	5	1454	25	24	16	33	1.96
576184--577255	324	3.3	325	86	6	1395	25	24	16	33	1.96
576184--577255	490	2.2	484	87	6	1527	25	24	16	33	1.96
578886--578943	8	7.4	8	88	3	91	37	25	36	0	1.57
578886--578935	12	4.2	12	86	0	64	38	26	36	0	1.57
578889--578942	4	13.8	4	80	3	56	35	25	38	0	1.57
578897--578936	12	3.3	12	92	0	71	35	25	40	0	1.56
580343--580409	1	67.0	1	72	0	53	86	11	0	1	0.64
580340--580411	6	11.7	6	84	8	76	84	13	0	1	0.68
580343--580411	28	2.5	27	86	11	95	85	13	0	1	0.66
585788--585829	2	21.0	2	100	0	84	50	0	50	0	1.00
586948--586981	17	1.9	18	88	5	52	52	5	0	41	1.25
589783--589969	20	9.2	20	70	11	92	40	23	7	28	1.81
589762--589969	41	5.1	40	72	12	154	40	23	7	28	1.81
591021--591075	20	2.9	18	79	12	58	3	1	14	80	0.94
598757--598805	2	24.5	2	87	0	71	0	44	0	55	0.99
605782--605833	21	2.5	21	100	0	104	34	17	11	36	1.86
613292--613344	2	26.5	2	100	0	106	0	49	0	50	1.00
617793--617825	3	11.0	3	93	0	57	30	33	3	33	1.73
618063--618155	39	2.4	39	76	7	100	25	33	13	26	1.94
618324--619087	39	19.6	39	71	8	392	24	28	12	34	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
618405--619039	78	8.1	78	74	9	454	25	28	11	33	1.92
618324--618740	195	2.1	194	91	0	672	23	28	11	35	1.91
618512--621265	234	11.8	234	72	8	1026	23	28	13	33	1.93
618473--621397	117	25.0	117	74	8	916	24	28	13	34	1.93
619164--619496	39	8.6	39	68	13	127	26	27	14	32	1.94
619637--619732	39	2.5	39	84	5	115	25	30	12	32	1.92
620001--620169	39	4.3	39	71	11	105	26	28	9	36	1.87
620946--621114	39	4.3	39	71	11	105	26	28	9	36	1.87
621717--621868	78	1.9	78	82	0	187	22	32	15	30	1.94
624187--624235	8	6.1	8	84	15	66	36	0	0	63	0.95
624191--624233	18	2.4	18	96	3	79	37	0	0	62	0.95
624998--625042	2	22.5	2	100	0	90	51	0	48	0	1.00
630956--631044	29	3.1	29	100	0	178	31	13	20	34	1.91
634018--634055	15	2.5	15	83	8	51	10	50	0	39	1.37
641945--641982	15	2.5	15	83	8	51	10	50	0	39	1.37
644295--644353	2	29.5	2	92	0	100	49	0	47	3	1.18
649665--649906	83	2.9	83	92	0	385	28	16	23	31	1.96
652558--652687	51	2.5	51	96	0	233	38	15	17	28	1.90
676701--676767	4	16.8	4	100	0	134	25	23	0	50	1.49
676832--676897	2	33.5	2	96	3	125	50	0	50	0	1.00
680969--680998	13	2.3	13	100	0	60	40	13	16	30	1.87
691880--692057	10	17.7	10	70	12	71	23	12	18	45	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
692714--692749	2	18.0	2	100	0	72	0	50	0	50	1.00
692913--692949	2	18.5	2	100	0	74	0	48	0	51	1.00
693147--693194	2	24.0	2	100	0	96	0	50	0	50	1.00
693306--693358	2	26.5	2	96	0	97	1	49	0	49	1.12
693508--693760	134	1.9	134	91	0	416	32	20	23	23	1.98
694405--694582	10	17.7	10	69	13	89	46	17	11	24	1.82
694374--694490	41	2.9	40	81	7	130	43	21	11	23	1.85
694454--694582	60	2.2	59	81	8	145	47	16	10	25	1.79
694485--694580	40	2.4	40	85	5	131	44	16	11	27	1.82
698695--698724	1	30.0	1	93	0	51	96	0	3	0	0.21
700217--700253	2	18.5	2	100	0	74	48	0	51	0	1.00
701723--701764	13	3.2	13	81	18	52	0	4	16	78	0.91
706248--706293	23	2.0	23	91	0	74	23	4	19	52	1.64
707454--707486	17	2.0	17	88	5	50	15	36	21	27	1.93
707454--707572	51	2.3	51	84	2	141	21	29	15	32	1.95
707768--707802	17	2.1	17	100	0	70	22	5	17	54	1.64
709265--709551	157	1.8	155	85	4	407	34	13	14	36	1.86
711572--711618	2	24.0	2	95	4	87	48	0	51	0	1.00
712664--712698	11	2.8	13	83	16	56	8	14	25	51	1.70
712916--712957	22	1.9	22	95	0	75	38	33	16	11	1.86
712916--712964	22	2.2	22	88	0	71	36	34	18	10	1.85
714660--714743	44	1.9	44	97	0	159	45	16	14	23	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
723641--723719	2	39.5	2	100	0	158	0	49	0	50	1.00
723860--723910	2	25.5	2	84	15	70	0	50	3	45	1.20
730626--730656	15	2.1	15	93	0	53	29	0	6	64	1.18
732740--732767	2	14.0	2	100	0	56	50	0	0	50	1.00
735571--735601	14	2.2	14	94	0	53	16	22	12	48	1.80
739805--740134	74	4.3	74	72	15	263	21	25	18	34	1.96
739826--739982	83	1.9	83	84	2	208	21	23	20	34	1.97
739964--740136	78	2.3	74	83	6	213	20	27	17	34	1.96
740331--740418	45	2.0	44	86	6	124	17	25	14	43	1.87
740588--740852	92	2.9	92	93	0	458	34	18	21	24	1.96
752208--752418	88	2.4	88	91	0	350	31	18	16	34	1.93
762631--762670	20	2.0	20	85	0	53	35	2	12	50	1.54
765198--765237	1	40.0	1	89	0	62	95	0	0	5	0.29
769164--769225	20	3.1	20	92	0	106	30	20	20	27	1.98
772749--772809	16	3.8	16	79	14	72	37	8	24	29	1.84
780086--780125	18	2.3	18	95	4	73	52	0	0	47	1.00
781515--781547	2	16.5	2	100	0	66	51	0	48	0	1.00
796992--797326	168	2.0	167	100	0	661	32	20	15	31	1.94
812223--812250	12	2.3	12	100	0	56	50	0	14	35	1.43
816307--816472	86	1.9	86	80	7	194	36	12	13	36	1.83
824709--824785	12	6.9	11	75	11	50	79	20	0	0	0.74
824709--824785	13	5.8	12	76	18	64	79	20	0	0	0.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
824741--824782	4	11.0	4	85	14	54	78	21	0	0	0.75
825385--825483	50	2.0	50	95	0	180	41	15	21	22	1.90
831366--831482	30	3.9	30	95	2	200	23	23	26	25	2.00
835953--835980	2	14.0	2	100	0	56	50	0	0	50	1.00
836936--837093	76	2.1	76	92	0	262	29	26	7	36	1.84
838559--838591	17	1.9	17	100	0	66	51	18	6	24	1.68
838641--838673	17	1.9	17	100	0	66	48	21	6	24	1.72
840037--840070	17	2.0	17	100	0	68	23	5	17	52	1.66
839958--840139	84	2.2	84	88	0	274	32	11	15	39	1.84
842001--842097	21	4.7	21	87	5	135	37	21	13	27	1.91

Tables:   1   2   3