oyster.v9_M.fa.s33.2.7.7.80.10.50.500.2.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: scaffold100
Parameters: 2 7 7 80 10 50 500
Length:  1174989

Tables:   1   2   3   4   

This is table  2  of  4  ( 392 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)
295999--296044	21	2.2	21	77	14	51	52	19	4	23	1.64
296901--296959	24	2.4	25	80	13	68	27	18	13	40	1.88
297050--297125	26	2.9	26	78	7	91	28	13	19	38	1.90
297050--297155	52	2.0	52	83	0	131	31	13	16	38	1.87
297229--297336	26	4.2	26	79	9	121	33	15	18	32	1.93
312521--312578	21	2.6	22	71	20	57	39	10	10	39	1.74
312751--312807	21	2.6	22	73	18	64	40	10	8	40	1.71
312849--312910	22	2.8	22	92	0	106	35	17	11	35	1.86
331074--331145	37	1.9	37	88	2	108	47	5	11	36	1.63
335241--335985	166	4.5	166	91	2	1122	26	15	19	38	1.91
336158--336254	4	24.8	4	77	8	92	30	25	42	0	1.55
336165--336256	47	2.0	46	93	2	157	32	25	41	0	1.55
337310--337426	21	5.6	21	76	2	101	37	19	15	27	1.92
337463--337635	42	4.1	42	78	3	168	31	14	14	39	1.86
337463--337638	21	8.4	21	75	2	111	31	14	14	39	1.86
337463--337656	63	3.1	63	74	0	181	29	15	14	40	1.87
337481--337658	21	8.5	21	79	0	149	28	16	15	39	1.89
337724--337825	21	4.9	21	81	4	109	38	17	18	25	1.93
337880--337927	21	2.3	21	85	0	60	45	14	16	22	1.84
337888--337961	21	3.5	20	81	7	76	39	17	16	27	1.91
352737--352778	2	21.0	2	100	0	84	50	0	50	0	1.00
353091--353169	31	2.4	32	91	8	124	26	12	27	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
353086--353396	37	8.6	37	80	6	201	23	22	22	31	1.99
354772--354848	25	3.4	25	66	23	78	48	16	9	25	1.76
354763--354850	43	2.0	43	97	0	167	48	15	11	23	1.78
358381--358551	46	3.8	46	76	6	170	26	12	30	29	1.93
358617--358813	44	4.5	44	99	0	385	27	13	27	30	1.94
376623--376698	2	38.0	2	100	0	152	0	50	0	50	1.00
388775--388805	2	15.5	2	100	0	62	48	0	51	0	1.00
397254--397346	5	18.6	5	93	0	132	37	20	4	37	1.72
399796--399855	2	30.0	2	100	0	120	50	0	50	0	1.00
413211--413239	2	14.5	2	100	0	58	48	0	0	51	1.00
423099--423475	189	2.0	188	100	0	745	30	18	15	35	1.92
425128--425301	84	2.1	84	85	2	233	35	12	14	37	1.84
425128--425230	21	4.9	21	70	13	77	30	13	16	39	1.87
426043--426084	2	21.0	2	100	0	84	0	50	0	50	1.00
428221--428262	20	2.1	20	100	0	84	50	14	14	21	1.78
432846--432886	2	20.5	2	89	0	64	2	0	46	51	1.14
433979--434019	2	20.5	2	100	0	82	48	0	51	0	1.00
434304--434337	2	17.0	2	100	0	68	0	50	0	50	1.00
440457--440482	3	8.7	3	100	0	52	34	0	65	0	0.93
445889--445923	16	2.1	17	94	5	63	51	0	20	28	1.47
455129--455162	16	2.1	16	94	0	59	41	0	5	52	1.25
461288--461360	2	37.0	2	97	2	139	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)
461681--461724	2	22.0	2	100	0	88	0	50	0	50	1.00
461349--462101	377	2.0	376	100	0	1497	32	19	15	32	1.93
462058--462104	2	23.5	2	100	0	94	0	48	0	51	1.00
471178--471202	1	25.0	1	100	0	50	0	0	0	100	0.00
479316--479343	2	14.0	2	100	0	56	50	0	0	50	1.00
482190--482258	17	3.9	17	80	16	70	2	2	15	78	1.00
482209--482267	7	8.3	7	76	16	59	3	1	13	81	0.90
482200--482238	5	7.4	5	85	8	51	0	2	17	79	0.84
482190--482258	35	2.0	35	83	11	88	2	2	15	78	1.00
482200--482266	22	3.1	22	83	10	77	2	2	14	79	0.98
482167--482258	12	7.8	12	75	15	52	5	3	13	78	1.05
486402--486451	17	2.9	17	80	20	59	74	4	0	22	0.99
486853--486931	6	13.8	6	80	12	87	83	15	0	1	0.71
486850--486932	23	3.6	22	82	10	96	84	14	0	1	0.69
486850--486933	1	84.0	1	71	0	51	84	14	0	1	0.68
486853--486933	17	4.8	16	83	8	99	83	14	0	1	0.70
488523--488583	4	15.0	4	94	5	97	77	0	0	22	0.78
506678--506730	12	4.2	12	81	9	61	83	0	1	15	0.74
506682--506739	28	2.1	28	90	6	93	81	0	1	17	0.78
506677--506738	31	2.0	31	87	3	88	82	0	1	16	0.75
518930--519324	22	18.4	22	77	11	252	34	14	17	33	1.91
518929--519181	20	12.1	20	77	9	166	35	15	17	32	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
519078--519201	20	5.7	23	89	3	102	35	13	18	32	1.90
518930--519181	104	2.4	106	80	6	273	35	15	17	31	1.91
518930--519339	42	9.5	42	72	11	201	34	14	17	33	1.90
520420--520803	22	17.8	21	73	10	167	33	17	15	33	1.91
520551--520805	20	11.9	20	74	14	149	32	17	15	34	1.92
520618--520738	42	2.9	42	81	8	140	26	20	15	37	1.93
522224--522291	16	4.0	16	74	18	66	8	13	45	32	1.74
531124--531148	12	2.1	12	100	0	50	40	0	16	44	1.47
535416--536157	382	1.9	384	83	4	953	34	15	20	29	1.94
537315--537443	63	2.0	63	96	0	240	48	13	20	17	1.81
544575--544615	2	20.5	2	100	0	82	0	51	0	48	1.00
567541--567575	12	2.9	12	100	0	70	40	25	0	34	1.56
570418--570483	26	2.6	25	79	13	64	3	1	24	71	1.09
573677--573764	7	12.6	7	76	0	86	36	15	20	27	1.93
573701--573764	21	3.0	21	93	0	110	34	17	23	25	1.96
573677--573764	14	6.3	14	82	0	95	36	15	20	27	1.93
581036--581107	23	3.1	23	100	0	144	15	12	22	50	1.77
584137--584164	3	9.3	3	100	0	56	0	67	0	32	0.91
584163--584208	15	3.3	15	73	17	53	28	26	6	39	1.81
584163--584218	27	2.1	27	96	0	103	26	26	7	39	1.82
592587--592638	2	26.0	2	84	7	70	1	51	0	46	1.12
594373--594595	112	2.0	112	94	0	392	31	18	20	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
595607--595660	11	4.9	11	95	0	99	29	9	33	27	1.88
595692--595720	11	2.6	11	100	0	58	31	10	31	27	1.90
595786--595817	11	2.9	11	95	0	55	34	9	28	28	1.88
595823--595861	11	3.6	11	82	6	53	30	23	7	38	1.83
596703--596769	31	2.2	31	97	2	127	14	32	8	43	1.77
596949--596986	16	2.4	16	95	0	67	36	21	42	0	1.53
599107--599644	177	3.0	179	94	2	947	30	15	17	36	1.91
599976--600594	168	3.7	167	81	7	718	30	20	18	30	1.96
606090--606129	4	10.0	4	88	0	53	30	25	42	2	1.68
606085--606124	20	2.0	20	95	0	71	35	25	37	2	1.69
606457--606498	21	2.0	22	85	4	59	26	16	23	33	1.96
608345--608699	181	2.0	181	81	6	416	37	18	10	34	1.85
608827--609783	166	5.8	166	88	2	1361	39	15	16	28	1.89
609810--609877	4	17.0	4	93	0	109	45	25	29	0	1.54
610241--610293	8	6.6	8	91	0	88	37	24	37	0	1.56
610241--610293	12	4.4	12	85	0	70	37	24	37	0	1.56
611024--611271	21	11.8	21	69	6	162	18	34	10	35	1.86
611077--611284	42	5.0	42	84	6	228	19	32	11	36	1.88
617475--617555	4	20.2	4	97	0	117	0	44	6	49	1.27
619288--619318	14	2.2	14	94	0	53	48	19	9	22	1.78
621389--621685	162	1.8	161	99	0	576	26	11	27	33	1.91
622072--622106	16	2.2	16	100	0	70	51	20	5	22	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
626809--626890	41	2.0	42	90	2	130	54	4	8	31	1.52
630621--630654	15	2.3	15	100	0	68	32	20	11	35	1.89
637993--638531	41	13.3	41	93	3	930	33	17	22	27	1.96
637993--638531	284	1.9	284	96	0	990	33	17	22	27	1.96
638783--638820	17	2.2	17	90	0	58	39	23	10	26	1.87
647051--647242	38	4.8	40	80	7	187	31	20	11	36	1.89
648603--649308	44	16.0	44	83	1	876	31	16	22	30	1.95
648815--648926	20	5.2	20	64	16	62	33	17	21	27	1.96
648603--649308	132	5.3	132	89	1	995	31	16	22	30	1.95
648823--648939	24	5.2	23	62	15	66	30	17	22	29	1.96

Tables:   1   2   3   4