oyster.v9_M.fa.s46.2.7.7.80.10.50.500.2.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: scaffold121
Parameters: 2 7 7 80 10 50 500
Length:  1096690

Tables:   1   2   3   

This is table  2  of  3  ( 313 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)
405868--405893	2	13.0	2	100	0	52	50	0	50	0	1.00
409925--410224	149	2.0	150	93	0	512	31	15	12	41	1.83
414478--414529	2	26.0	2	100	0	104	0	50	0	50	1.00
414997--415040	2	22.0	2	100	0	88	50	0	50	0	1.00
415693--415781	46	2.0	45	81	2	106	33	13	31	21	1.92
418325--418352	13	2.2	13	100	0	56	28	7	32	32	1.84
427838--427872	16	2.2	16	90	5	54	8	5	0	85	0.73
427974--428002	1	29.0	1	100	0	58	0	0	0	100	0.00
431955--432141	56	3.3	56	86	1	259	34	13	19	32	1.91
434337--434383	24	1.9	25	83	12	62	25	8	8	57	1.57
435255--435565	152	2.0	152	98	0	595	38	19	18	23	1.93
450962--451008	2	23.5	2	95	0	85	48	0	51	0	1.00
451358--451384	2	13.5	2	100	0	54	51	0	0	48	1.00
451879--451972	21	4.5	21	74	5	82	41	17	10	30	1.83
470167--470690	146	3.6	145	90	2	766	29	20	18	30	1.97
471034--471703	166	4.0	166	87	2	898	26	24	16	32	1.96
474603--474637	8	4.4	8	92	0	61	37	25	37	0	1.57
477822--478444	181	3.4	180	88	5	875	37	17	14	30	1.90
481425--481458	11	3.1	11	91	8	52	8	17	26	47	1.77
481716--481747	11	2.9	11	90	0	55	43	28	15	12	1.83
492355--492396	2	21.0	2	100	0	84	0	50	0	50	1.00
498854--498918	2	32.5	2	96	0	121	1	50	0	47	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
500372--500532	26	6.1	26	75	11	134	22	21	19	35	1.96
502734--502771	2	19.0	2	88	0	58	2	47	2	47	1.30
503931--504000	36	1.9	36	94	5	124	42	7	12	37	1.71
507570--507634	2	33.0	2	90	3	96	0	46	0	53	1.00
507636--507662	1	27.0	1	100	0	54	0	100	0	0	0.00
509476--509512	1	37.0	1	100	0	74	0	0	0	100	0.00
509583--509621	2	19.5	2	100	0	78	48	0	51	0	1.00
520335--520360	13	2.0	13	100	0	52	38	0	7	53	1.30
542274--543324	166	6.3	166	97	0	1951	24	16	19	38	1.92
543497--543542	4	11.8	4	88	4	67	28	28	43	0	1.55
555926--555974	23	2.1	24	92	3	82	48	0	42	8	1.32
555934--555995	32	1.9	32	90	0	97	48	0	41	9	1.36
555975--556002	13	2.2	13	100	0	56	39	0	39	21	1.54
558343--558436	35	2.7	35	91	0	152	31	15	23	28	1.96
560577--560611	18	1.9	18	88	0	52	37	17	25	20	1.94
560592--560666	35	2.2	32	83	6	87	38	18	20	22	1.93
560740--560792	15	3.3	15	71	19	52	39	18	15	26	1.90
560717--560902	34	5.7	33	84	7	238	37	17	18	26	1.93
560728--560901	66	2.7	66	90	2	273	37	17	18	26	1.92
560717--560902	100	1.9	96	86	7	266	37	17	18	26	1.93
562470--562501	15	2.1	15	100	0	64	46	0	12	40	1.42
565787--565813	9	3.0	9	100	0	54	22	44	11	22	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
566767--566795	14	2.0	15	93	6	51	48	6	10	34	1.64
567386--567413	14	2.0	14	100	0	56	50	7	7	35	1.57
567384--567418	14	2.8	12	84	16	52	48	8	8	34	1.64
574581--574609	2	15.0	2	92	7	51	0	48	0	51	1.00
574581--574616	8	4.3	9	93	6	51	0	47	0	52	1.00
578555--578881	81	4.0	81	84	7	419	33	16	14	34	1.90
580113--580154	21	2.0	21	90	4	68	0	0	21	78	0.75
580116--580164	21	2.4	20	80	10	53	0	0	22	77	0.77
580167--580194	1	28.0	1	100	0	56	0	0	100	0	0.00
583914--583982	33	2.1	34	88	2	104	42	14	14	28	1.85
587596--587620	11	2.3	11	100	0	50	60	8	16	16	1.58
592734--592785	2	26.0	2	100	0	104	0	50	0	50	1.00
592785--592824	1	40.0	1	100	0	80	0	100	0	0	0.00
594368--595092	180	4.0	180	95	1	1301	36	17	15	29	1.92
601199--601241	2	21.5	2	95	0	77	46	0	53	0	1.00
612471--613483	166	6.2	166	82	7	1139	33	15	22	28	1.95
612471--613483	322	3.1	319	84	5	1182	33	15	22	28	1.95
618366--618875	161	3.1	161	87	2	662	30	15	18	36	1.92
634662--634696	17	2.1	17	94	0	61	34	20	5	40	1.76
642442--642476	1	35.0	1	100	0	70	0	0	0	100	0.00
645765--646888	166	6.8	166	92	1	1745	38	14	17	29	1.90
646919--646978	4	15.0	4	89	0	75	41	25	33	0	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
649728--649781	2	27.0	2	100	0	108	50	0	50	0	1.00
651468--651492	2	12.5	2	100	0	50	0	48	0	52	1.00
656392--656438	1	47.0	1	95	0	67	0	93	0	0	0.09
660468--660524	16	3.6	16	97	0	96	10	29	12	47	1.74
673806--674164	180	2.0	180	87	2	515	31	14	16	37	1.89
678642--678718	24	3.2	24	66	20	70	41	19	18	20	1.90
686048--686092	1	45.0	1	81	0	54	4	0	4	91	0.52
686048--686092	14	3.2	14	87	9	65	4	0	4	91	0.52
688126--688165	2	20.0	2	100	0	80	0	50	0	50	1.00
690312--690342	1	31.0	1	93	0	53	3	0	96	0	0.21
690343--690368	11	2.4	11	100	0	52	42	7	38	11	1.70
694801--694985	69	2.8	65	77	14	216	16	21	14	47	1.82
695859--696710	437	1.9	435	81	5	1020	36	14	17	31	1.90
700924--700992	2	34.5	2	100	0	138	50	0	49	0	1.00
701286--701334	2	24.5	2	100	0	98	0	51	0	48	1.00
702561--702623	2	31.5	2	93	0	108	53	0	46	0	1.00
703473--703537	2	33.0	2	96	3	123	0	50	0	49	1.00
703952--704020	2	34.5	2	100	0	138	50	0	49	0	1.00
704844--704891	2	24.0	2	100	0	96	50	0	50	0	1.00
712727--712751	13	1.9	13	100	0	50	68	0	32	0	0.90
718114--722697	128	35.8	128	89	2	6591	26	20	21	31	1.98
730353--730617	130	2.0	130	99	0	521	25	20	23	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
735729--735773	2	22.5	2	100	0	90	0	0	48	51	1.00
737032--737061	14	2.1	14	93	6	51	43	0	6	50	1.28
737032--737062	15	2.1	15	93	0	53	45	0	6	48	1.28
741575--741604	16	1.9	15	93	6	51	33	10	13	43	1.77
745919--745945	12	2.2	12	100	0	54	0	37	25	37	1.57
745957--746369	145	2.8	146	88	3	609	29	18	21	30	1.97
756151--756192	21	2.0	21	95	0	75	21	16	9	52	1.72
758813--758845	2	16.5	2	100	0	66	0	51	0	48	1.00
764104--764183	21	3.6	21	76	12	79	28	18	16	36	1.93
764132--764264	28	4.9	28	96	2	236	31	20	12	36	1.89
764185--764284	28	4.1	21	67	30	56	32	18	13	37	1.88
764245--764290	21	2.2	21	88	0	65	32	10	15	41	1.82
764665--764704	2	20.0	2	100	0	80	0	50	0	50	1.00
767281--767535	32	8.0	32	92	0	395	25	15	17	41	1.89
777309--777412	55	1.9	55	91	0	172	33	17	12	36	1.87
778775--778802	14	2.0	14	100	0	56	14	35	28	21	1.92
787285--787362	32	2.4	32	89	0	111	28	15	17	38	1.91
787421--787496	32	2.4	32	80	4	91	28	14	19	36	1.91
787700--787762	32	2.0	32	90	0	99	36	17	12	33	1.88
787775--787886	32	3.5	32	81	0	152	32	9	23	34	1.87
790597--790645	22	2.2	22	88	0	71	24	20	12	42	1.86
793796--793854	2	29.5	2	96	0	109	52	0	47	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
799331--799363	11	2.8	12	90	4	50	15	9	3	72	1.21
803865--803919	27	2.0	28	96	3	103	52	21	3	21	1.62
804750--804783	14	2.3	15	90	5	52	58	0	0	41	0.98
805107--805187	41	2.0	41	95	0	144	39	11	18	30	1.86
807589--808003	21	19.8	21	76	8	314	31	21	20	27	1.98
808294--808714	21	20.0	21	81	6	372	33	20	18	27	1.96
809568--810085	21	24.7	21	78	9	461	26	19	21	32	1.97
809701--809754	11	5.1	11	70	17	51	29	18	24	27	1.98
809568--810084	105	4.9	105	88	4	740	26	19	20	32	1.97
810431--810531	38	2.7	37	78	13	102	31	14	18	34	1.92

Tables:   1   2   3