oyster.v9_M.fa.s7.2.7.7.80.10.50.500.2.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: scaffold1532
Parameters: 2 7 7 80 10 50 500
Length:  1715538

Tables:   1   2   3   4   5   

This is table  2  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)
533320--533389	2	35.0	2	91	0	113	0	45	4	50	1.21
538358--538393	17	2.1	17	100	0	72	36	16	16	30	1.91
538544--538625	2	41.0	2	97	0	155	0	50	1	48	1.08
538625--538664	2	20.0	2	84	0	53	45	47	5	2	1.38
540476--540514	2	19.5	2	100	0	78	48	0	51	0	1.00
551878--551906	1	29.0	1	100	0	58	0	100	0	0	0.00
553280--553345	21	3.2	21	63	16	57	37	15	16	30	1.90
553271--553351	40	2.0	40	100	0	162	34	17	17	30	1.93
558710--558893	60	3.1	60	96	0	332	31	26	17	24	1.97
571636--571677	18	2.3	18	91	0	66	40	11	14	33	1.82
575782--575818	19	1.9	19	94	0	65	16	10	18	54	1.71
576071--576095	2	12.5	2	100	0	50	52	0	0	48	1.00
578188--578228	20	2.0	20	95	0	73	41	4	21	31	1.74
581513--581944	229	1.9	228	99	0	855	31	13	14	40	1.84
582038--582110	2	36.5	2	100	0	146	0	49	0	50	1.00
583109--583167	23	2.6	23	100	0	118	30	42	16	10	1.82
583143--583206	31	2.1	31	96	0	119	28	39	17	15	1.90
584333--584620	31	10.1	31	82	13	354	15	16	38	29	1.89
584403--584631	54	4.2	54	78	16	276	14	16	38	30	1.88
584435--584502	23	3.0	23	80	0	73	13	16	38	32	1.87
584459--584620	85	1.9	85	94	0	288	13	16	40	30	1.87
584373--584587	108	2.0	108	94	0	376	14	16	39	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
584542--584589	23	2.1	23	100	0	96	8	16	43	31	1.78
584344--584633	139	2.1	135	86	10	390	14	16	38	30	1.88
586726--586775	21	2.3	22	86	6	75	28	16	14	42	1.86
589555--589586	16	2.0	16	93	0	55	34	25	9	31	1.87
591876--591903	12	2.3	12	100	0	56	46	32	7	14	1.71
595073--595119	1	47.0	1	91	0	67	0	0	6	93	0.34
595059--595121	10	6.3	10	83	5	65	0	0	17	82	0.67
596831--596866	18	2.1	17	89	5	54	38	11	0	50	1.38
598250--598346	21	4.7	21	87	5	126	37	20	14	27	1.92
598521--598554	5	6.8	5	89	0	50	41	26	11	20	1.87
598521--598554	10	3.4	10	91	0	59	41	26	11	20	1.87
598578--598631	21	2.6	21	93	0	90	40	27	5	25	1.78
626428--627764	441	3.0	441	91	2	2162	32	14	16	36	1.89
628505--628537	17	1.9	17	93	0	57	33	24	18	24	1.97
632595--633308	165	4.2	167	85	5	881	25	25	16	32	1.96
635407--635503	21	4.7	21	87	5	135	37	21	13	27	1.91
635407--635525	42	2.9	41	86	5	141	36	22	12	27	1.91
635678--635706	15	1.9	15	100	0	58	41	27	10	20	1.85
635730--635809	21	3.8	21	86	4	108	40	25	8	26	1.84
636303--636724	163	2.5	168	90	6	656	29	18	14	36	1.91
637992--638044	4	13.0	4	80	11	54	47	0	24	28	1.52
640526--640585	26	2.3	26	97	0	111	26	23	20	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
648763--648804	21	2.0	21	90	0	66	40	21	26	11	1.88
648787--648845	21	2.8	21	84	0	82	40	20	28	10	1.85
648766--648845	42	1.9	42	84	5	108	41	20	27	11	1.86
649479--650937	166	8.8	166	88	1	2061	39	14	16	29	1.88
650964--651007	4	11.0	4	92	0	70	45	25	27	2	1.65
652945--653227	21	13.6	21	81	6	326	32	16	10	40	1.83
656014--656070	22	2.5	23	97	2	107	15	12	24	47	1.80
661322--661468	74	2.0	74	100	0	294	24	21	19	34	1.96
662719--663345	172	3.6	172	89	1	961	28	18	15	36	1.92
668289--668313	11	2.3	11	100	0	50	8	8	36	48	1.62
696497--696555	2	29.5	2	100	0	118	0	50	0	49	1.00
697312--697379	17	4.3	17	73	17	65	16	30	25	27	1.96
697317--697379	29	2.2	29	91	0	99	17	30	23	28	1.97
697430--697459	11	2.6	11	94	5	51	16	0	13	70	1.18
700804--700855	3	17.3	3	91	0	86	34	28	0	36	1.58
702795--702848	2	27.0	2	100	0	108	0	50	0	50	1.00
703938--703972	15	2.3	15	100	0	70	45	20	14	20	1.85
704519--704556	18	2.1	18	95	0	67	15	28	18	36	1.92
705626--705697	18	4.1	18	82	8	94	30	20	27	20	1.98
705707--705836	65	2.0	65	98	1	244	33	24	26	14	1.94
706448--706472	2	12.5	2	100	0	50	52	0	0	48	1.00
708394--708452	2	29.5	2	100	0	118	50	0	49	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
715376--715442	3	21.3	3	77	11	55	34	32	2	29	1.73
721176--721320	41	3.5	41	97	0	272	15	19	30	35	1.92
728283--728882	22	27.3	22	96	0	1092	14	13	17	54	1.71
729737--729847	45	2.5	46	91	2	181	19	9	28	41	1.84
729858--730004	55	2.7	55	94	0	258	17	12	26	42	1.86
729858--730020	29	5.8	29	84	8	221	17	12	28	41	1.86
733574--733607	3	11.3	3	100	0	68	35	32	0	32	1.58
734099--734321	93	2.4	93	93	0	383	38	20	17	24	1.93
739016--739040	11	2.3	11	100	0	50	48	8	20	24	1.76
739145--739172	1	28.0	1	100	0	56	0	100	0	0	0.00
747314--747341	12	2.3	12	100	0	56	10	0	0	89	0.49
749632--749697	2	33.0	2	93	0	78	45	0	0	45	1.03
750612--750710	2	50.5	2	87	4	130	46	0	53	0	1.00
754643--754670	3	9.3	3	100	0	56	0	67	0	32	0.91
754669--754730	3	20.7	3	100	0	124	0	33	0	66	0.92
754741--754779	15	2.6	15	91	0	60	12	41	10	35	1.77
764966--765027	2	31.0	2	93	0	88	46	0	0	46	1.03
769175--769209	14	2.5	14	90	0	52	37	11	28	22	1.89
770000--770046	2	23.5	2	100	0	94	0	48	0	51	1.00
772004--772103	2	50.0	2	90	0	155	0	46	4	50	1.20
773692--774304	305	2.0	304	91	0	1003	30	18	20	30	1.96
774310--774433	62	2.0	62	91	0	203	41	15	12	29	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
776712--776749	17	2.1	19	85	9	53	44	15	7	31	1.75
780247--780276	14	2.1	14	93	0	51	0	53	0	46	1.00
783901--783927	3	9.0	3	100	0	54	33	33	0	33	1.58
784581--784637	2	28.5	2	100	0	114	49	0	50	0	1.00
790561--790627	2	33.5	2	100	0	134	49	0	50	0	1.00
794422--794581	59	2.6	60	86	4	207	43	18	15	23	1.87
794421--794515	30	3.2	30	64	28	76	43	20	14	22	1.88
794439--794533	30	3.2	30	66	22	83	37	18	17	25	1.93
796209--796249	2	20.5	2	100	0	82	51	0	48	0	1.00
798764--798814	2	26.5	2	92	7	88	50	0	49	0	1.00
799691--799787	3	32.3	3	84	4	88	39	3	26	30	1.72
801139--801177	20	1.9	21	94	5	71	30	10	12	46	1.75
815120--815153	2	17.0	2	87	0	50	55	0	44	0	0.99
815120--815150	12	2.6	12	100	0	62	58	0	41	0	0.98
815153--815196	2	22.0	2	90	0	70	0	0	45	54	0.99
816945--816988	11	4.0	11	84	0	52	9	13	27	50	1.72
821143--821275	66	2.0	66	97	0	248	50	9	10	29	1.69
830176--830267	8	11.5	8	84	0	94	1	35	26	36	1.64
830188--830266	4	19.8	4	84	0	86	0	34	26	39	1.57
831753--831796	21	2.1	21	91	0	70	15	31	27	25	1.96
834567--834591	2	12.5	2	100	0	50	48	0	52	0	1.00
841355--841397	2	21.5	2	95	0	77	51	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
846299--846583	134	2.1	134	81	8	321	26	25	20	28	1.99
852241--852293	19	2.8	19	82	0	70	39	26	11	22	1.88
854979--855097	22	5.4	22	89	2	150	36	9	21	32	1.85
854989--855082	11	8.5	11	78	0	98	36	9	23	30	1.87
866342--866425	2	42.0	2	97	0	159	0	48	0	51	1.00
867977--868071	4	24.2	4	85	8	79	0	33	25	41	1.56
867977--868071	12	8.1	12	83	9	88	0	33	25	41	1.56
868039--868067	14	2.1	14	100	0	58	0	20	27	51	1.47
868035--868083	18	2.7	18	93	0	80	0	18	30	51	1.47
868081--868112	2	16.0	2	100	0	64	0	50	0	50	1.00

Tables:   1   2   3   4   5