oyster.v9_M.fa.s19.2.7.7.80.10.50.500.2.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: scaffold3
Parameters: 2 7 7 80 10 50 500
Length:  1336734

Tables:   1   2   3   4   

This is table  2  of  4  ( 390 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)
411192--411242	26	2.0	25	88	3	75	19	25	13	41	1.88
417294--418695	441	3.2	438	93	2	2348	33	14	16	35	1.89
417294--418695	440	3.2	439	93	2	2361	33	14	16	35	1.89
418457--418492	19	1.9	19	88	5	56	36	5	22	36	1.78
419063--420479	437	3.3	435	93	1	2390	30	16	15	37	1.90
422575--423260	146	4.7	146	87	2	984	29	21	19	29	1.98
422575--423262	291	2.4	292	89	1	1049	29	21	19	28	1.98
427472--427504	11	3.0	11	90	0	57	27	42	18	12	1.85
433962--434010	2	24.5	2	100	0	98	0	48	0	51	1.00
437858--437890	16	2.1	16	94	0	57	3	27	39	30	1.72
437897--438394	161	3.1	161	90	2	799	28	13	20	36	1.91
443327--443390	5	13.2	5	74	12	53	57	25	14	3	1.51
443330--443375	15	3.1	14	90	6	65	58	26	13	2	1.46
443334--443385	15	3.6	14	85	10	61	59	25	11	3	1.49
443472--443526	2	27.5	2	84	0	74	56	0	43	0	0.99
444040--444065	3	8.7	3	100	0	52	34	30	0	34	1.58
444162--444190	2	15.0	2	92	7	51	0	48	0	51	1.00
444164--444189	13	2.0	13	100	0	52	0	46	0	53	1.00
444162--444190	15	1.9	15	100	0	58	0	48	0	51	1.00
447252--447737	173	2.8	173	85	7	638	31	14	26	26	1.95
450450--451344	436	2.0	441	88	3	1315	29	18	15	36	1.92
455725--455755	15	2.1	15	100	0	62	19	54	12	12	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
455317--456316	168	5.9	168	86	6	1161	32	19	18	30	1.95
459817--459856	2	20.0	2	100	0	80	0	50	0	50	1.00
463697--463749	24	2.2	25	80	16	67	16	18	20	43	1.88
464061--464100	12	3.3	12	89	0	62	0	40	25	35	1.56
464062--464101	16	2.5	16	95	0	71	0	40	25	35	1.56
464062--464096	4	8.8	4	87	0	52	0	42	25	31	1.55
464108--464455	146	2.4	141	91	3	563	31	20	20	28	1.97
464365--464562	107	1.8	108	85	3	283	34	18	21	25	1.96
464207--464697	248	2.0	248	87	4	715	31	18	21	28	1.97
464455--464857	141	2.8	147	84	10	560	29	17	22	29	1.97
478963--479045	41	2.0	41	97	0	157	36	13	19	31	1.90
486540--486573	11	3.1	11	91	0	59	29	17	0	52	1.45
490964--491031	2	35.0	2	94	5	122	51	0	48	0	1.00
491997--492049	2	26.5	2	92	0	88	52	0	45	1	1.11
496665--496789	62	2.0	62	87	0	178	50	6	14	28	1.67
496780--496825	2	23.0	2	100	0	92	50	0	50	0	1.00
497793--497846	2	27.0	2	92	0	90	48	0	50	1	1.11
503897--503927	15	2.1	15	93	0	53	54	9	0	35	1.33
504157--504196	2	20.0	2	100	0	80	50	0	50	0	1.00
513231--513285	4	13.8	4	84	0	74	7	20	47	25	1.75
518123--518177	10	5.3	10	78	8	56	36	34	18	10	1.86
518119--518177	21	2.8	21	92	0	100	37	32	18	11	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
518119--518174	11	5.3	11	78	8	62	37	30	19	12	1.89
519213--519263	21	2.4	21	90	6	77	31	39	15	13	1.87
522386--522470	21	3.8	21	80	10	89	36	30	17	15	1.91
522922--522954	2	16.5	2	100	0	66	51	0	48	0	1.00
525790--525926	21	6.5	21	88	1	204	30	32	19	17	1.95
555842--555871	14	2.1	15	93	6	53	46	20	13	20	1.83
556329--556604	144	1.9	146	84	5	373	37	25	17	20	1.94
560279--560321	2	22.0	2	95	4	79	48	0	51	0	1.00
562176--562656	241	2.0	240	100	0	953	29	12	22	35	1.90
611463--611492	12	2.5	12	94	0	51	43	20	36	0	1.52
612129--612163	16	2.2	16	100	0	70	37	20	5	37	1.76
613036--613070	12	2.9	12	91	0	61	0	40	17	42	1.49
618552--618592	15	2.6	16	88	7	57	26	19	12	41	1.87
620256--620285	12	2.6	11	90	10	51	80	20	0	0	0.72
633709--633773	6	10.8	6	88	0	85	50	4	44	0	1.22
636912--636941	2	15.0	2	92	0	51	46	0	0	50	1.01
637000--637038	2	19.5	2	100	0	78	0	51	0	48	1.00
642038--642090	26	2.0	26	92	7	90	24	28	7	39	1.82
687411--687477	21	3.1	21	70	4	62	37	16	16	29	1.91
687521--687553	2	16.5	2	100	0	66	0	51	0	48	1.00
692643--692674	2	16.0	2	100	0	64	50	0	50	0	1.00
694948--694999	2	26.0	2	100	0	104	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
697113--697926	161	5.1	161	90	1	1161	30	13	19	37	1.89
698185--698221	19	1.9	19	94	0	65	2	27	32	37	1.71
699240--699292	25	2.1	25	96	0	97	39	16	9	33	1.81
716868--716918	22	2.3	22	86	0	66	9	15	29	45	1.79
716885--716923	11	3.5	11	85	0	60	10	12	25	51	1.71
716886--716936	22	2.3	22	86	0	66	13	13	25	47	1.80
717127--717161	11	2.9	12	91	8	54	48	25	17	8	1.75
740596--740627	11	2.9	11	95	0	55	46	12	15	25	1.81
740874--740898	2	12.5	2	100	0	50	0	52	0	48	1.00
742359--742432	2	37.0	2	97	0	139	0	51	0	48	1.00
745655--745700	2	23.0	2	100	0	92	50	0	50	0	1.00
758853--760372	166	9.2	166	85	3	1896	27	22	14	34	1.94
758853--760372	497	3.1	495	85	4	1934	27	22	14	34	1.94
758853--760372	331	4.6	332	86	3	1948	27	22	14	34	1.94
760542--760598	15	3.7	15	95	4	96	49	31	19	0	1.49
762227--762299	6	12.0	6	80	13	69	0	1	17	80	0.78
762227--762300	29	2.7	26	79	10	85	0	1	17	81	0.77
762227--762298	11	6.5	11	77	22	71	0	1	18	80	0.78
764286--765363	130	8.0	129	83	8	1142	23	26	27	21	1.99
764433--765237	273	2.9	273	86	4	1141	23	25	27	22	2.00
764819--765237	143	2.9	143	91	2	637	24	26	27	21	1.99
764051--765363	416	3.2	411	86	5	1750	24	26	27	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
767780--767817	2	19.0	2	94	0	67	47	0	52	0	1.00
771596--771948	185	1.9	183	95	1	634	33	7	15	43	1.75
774242--774705	170	2.8	164	84	6	564	27	23	14	33	1.94
774242--774709	165	2.8	165	83	7	563	27	23	14	33	1.94
776383--777564	437	2.7	437	94	0	2087	30	16	15	36	1.91
777567--777713	53	2.6	53	86	10	170	15	23	17	43	1.87
777615--777738	61	2.0	61	92	6	207	15	21	15	47	1.82
778171--779560	437	3.2	436	88	2	1928	33	15	19	31	1.93
780394--781592	437	2.7	435	90	1	1855	33	15	18	31	1.93
782340--783483	437	2.6	437	88	1	1695	34	15	18	31	1.93
784931--785502	146	3.9	146	88	3	821	30	18	21	29	1.97
784932--785482	293	1.9	293	89	3	867	29	19	21	29	1.97
786713--786741	12	2.3	13	94	5	51	13	34	17	34	1.89
786874--786935	21	3.0	21	95	0	106	29	30	14	25	1.95
786924--786978	15	3.7	15	97	0	101	36	30	16	16	1.91
789860--790008	75	2.0	75	98	0	289	30	10	16	42	1.82
801421--801553	39	3.1	40	79	17	142	24	28	16	30	1.96
801471--801548	25	3.1	25	94	3	131	23	30	16	29	1.96
806362--806467	38	2.9	37	70	17	96	33	16	8	42	1.78
811776--812443	172	3.9	172	93	0	1095	29	19	15	36	1.92
813948--813991	18	2.4	18	88	3	61	29	22	18	29	1.97
816161--816189	15	1.9	15	100	0	58	27	6	13	51	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
818214--818856	140	4.5	143	82	6	725	31	21	17	29	1.96
830249--830287	2	19.5	2	100	0	78	48	0	51	0	1.00
830608--830790	92	2.0	91	100	0	357	29	14	17	38	1.89
832184--832213	2	15.0	2	100	0	60	0	0	50	50	1.00
835789--835823	4	8.8	4	87	0	52	45	25	28	0	1.54
835789--835845	10	5.3	10	74	15	51	47	21	28	3	1.67
836826--836857	2	16.0	2	100	0	64	50	0	50	0	1.00
840737--840763	14	1.9	14	100	0	54	0	44	0	55	0.99
843575--843609	13	2.8	13	87	12	56	8	17	25	48	1.75
859467--859921	172	2.6	172	93	0	768	36	14	19	30	1.91

Tables:   1   2   3   4