oyster.v9_M.fa.s23.2.7.7.80.10.50.500.2.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: scaffold471
Parameters: 2 7 7 80 10 50 500
Length:  1282308

Tables:   1   2   3   4   

This is table  2  of  4  ( 419 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)
317623--317845	112	2.0	112	93	0	383	29	18	17	35	1.93
318049--318100	2	26.0	2	100	0	104	50	0	50	0	1.00
318488--318539	21	2.4	22	83	3	70	34	15	23	26	1.94
318619--318659	11	3.7	11	93	0	73	24	36	9	29	1.87
319536--319619	2	42.5	2	97	2	161	50	0	50	0	1.00
320590--320716	5	25.4	5	76	9	116	56	22	15	5	1.60
320930--320973	2	22.0	2	100	0	88	50	0	50	0	1.00
321059--321084	3	8.7	3	100	0	52	34	0	30	34	1.58
321754--321804	20	2.7	18	77	11	57	31	11	17	39	1.86
322518--322544	12	2.2	12	100	0	54	0	33	0	66	0.92
322602--322683	2	41.0	2	95	0	146	0	47	2	50	1.14
322920--323029	5	21.4	5	72	12	71	5	13	22	58	1.56
322921--323016	20	4.7	20	84	8	104	4	11	23	60	1.48
323153--323191	8	4.9	8	93	0	69	0	35	35	28	1.58
323162--323199	16	2.4	16	95	0	67	2	31	34	31	1.72
323154--323204	8	6.4	8	88	0	57	1	33	33	31	1.69
323149--323204	24	2.3	24	84	0	76	1	35	32	30	1.68
323213--323822	172	3.5	172	91	2	1004	29	17	15	37	1.90
335344--335392	2	24.5	2	93	0	80	51	0	46	2	1.12
336145--336199	12	4.6	12	82	8	67	3	40	21	34	1.71
339961--339989	15	1.9	15	100	0	58	20	10	27	41	1.85
340156--340221	26	2.5	26	92	0	105	27	10	22	39	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
341814--341868	2	27.5	2	92	0	92	0	49	0	50	1.00
360086--360125	2	20.0	2	89	0	53	55	0	42	2	1.13
361107--361207	2	51.0	2	92	2	159	53	0	46	0	1.00
361786--361969	92	2.0	91	98	1	359	33	16	18	30	1.93
362404--362431	2	14.0	2	100	0	56	50	0	0	50	1.00
370562--370600	13	2.9	13	84	3	51	38	17	2	41	1.64
374048--374116	32	2.2	32	87	10	106	34	15	18	30	1.93
373993--374157	84	1.9	87	86	4	237	40	15	20	24	1.90
374609--374675	2	33.5	2	93	0	116	49	1	49	0	1.10
390068--390464	194	2.0	195	83	4	489	33	17	14	34	1.90
391495--391642	53	2.7	53	87	3	197	45	16	17	20	1.85
410273--410343	35	2.0	35	97	0	133	28	16	23	30	1.97
421417--421469	26	2.0	26	88	0	79	39	32	13	15	1.85
423636--424148	33	16.0	33	70	16	305	22	24	16	35	1.95
423636--423902	94	2.7	96	80	11	301	23	25	17	33	1.96
423982--424130	27	5.1	27	73	16	127	20	26	18	34	1.95
427099--428104	166	6.0	165	79	7	1104	28	24	15	31	1.95
427117--428100	335	2.9	335	93	2	1620	28	25	15	31	1.95
432804--432885	21	3.9	21	86	0	101	41	13	4	40	1.66
432867--433082	21	10.2	21	78	7	197	43	6	12	37	1.70
442915--443651	42	17.7	42	82	8	909	31	13	5	49	1.64
442952--443015	21	3.0	22	66	15	62	35	12	6	45	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
443242--443651	76	5.1	76	75	15	398	32	14	5	48	1.66
443200--443651	118	3.7	118	87	5	600	32	14	5	48	1.66
443577--443645	21	3.3	21	68	22	63	33	14	4	47	1.64
445377--445410	17	2.0	17	88	0	50	29	14	14	41	1.86
455490--455548	30	2.0	30	93	0	100	42	13	16	27	1.86
458265--458340	21	3.6	20	83	3	89	34	15	17	32	1.91
462129--462630	161	3.1	160	87	2	686	35	19	15	29	1.93
464743--464907	53	3.1	53	92	4	278	35	21	17	26	1.95
469051--469079	9	3.3	9	90	9	51	68	0	20	10	1.18
476660--476697	6	6.3	6	88	11	60	0	31	50	18	1.47
477022--477061	19	2.1	19	90	0	62	22	2	37	37	1.68
476835--477714	177	4.9	176	91	1	1253	24	16	25	33	1.95
478373--478415	20	2.1	20	91	0	68	39	4	13	41	1.66
478658--478804	15	9.3	15	72	15	73	37	4	12	44	1.64
478675--478841	50	3.4	46	75	11	147	35	4	13	45	1.65
478729--478763	18	1.9	18	94	0	61	40	0	8	51	1.33
478641--478863	98	2.3	97	87	7	305	36	5	12	46	1.64
478720--478868	15	9.4	15	70	21	90	35	4	13	46	1.62
478873--478902	15	2.0	15	93	0	51	50	0	6	43	1.28
485809--485856	23	2.0	24	92	4	80	39	6	16	37	1.74
488827--488867	17	2.3	18	83	4	57	31	21	7	39	1.81
489013--489043	16	1.9	16	93	0	53	19	12	22	45	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
494330--494379	2	25.0	2	95	0	91	52	0	48	0	1.00
498430--498502	21	3.5	21	100	0	146	34	17	12	35	1.88
498413--498502	42	2.1	42	91	4	146	35	15	12	36	1.85
499644--499783	4	34.5	4	67	8	77	27	23	20	27	1.99
500618--500702	21	4.0	22	96	3	149	37	37	9	15	1.80
500618--500702	11	8.0	11	92	7	149	37	37	9	15	1.80
500618--500704	32	2.8	32	94	5	135	37	37	9	14	1.79
501436--501593	11	15.0	11	77	11	161	19	8	32	39	1.81
501434--501593	21	7.6	20	81	6	151	19	8	33	39	1.81
502366--502405	7	5.7	7	87	0	62	80	0	2	17	0.83
503977--504031	10	5.3	10	82	8	65	36	34	20	9	1.84
503973--504031	21	2.8	21	97	0	109	37	32	20	10	1.86
503973--504028	11	5.3	11	82	8	71	37	30	21	10	1.87
505043--505096	21	2.6	21	91	5	83	31	37	16	14	1.89
508147--508378	32	7.3	32	87	4	337	30	27	17	25	1.97
526293--526317	1	25.0	1	100	0	50	0	0	100	0	0.00
527907--527992	42	2.0	42	86	0	118	19	11	19	48	1.79
572896--572920	2	12.5	2	100	0	50	52	0	0	48	1.00
576415--576445	11	2.8	11	90	0	53	45	29	16	9	1.79
579060--579101	22	2.0	21	90	9	68	21	38	19	21	1.94
583224--583271	17	2.8	17	93	3	78	0	2	14	83	0.74
586471--586517	4	11.8	4	100	0	94	51	0	23	25	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
589189--589220	15	2.1	15	100	0	64	15	18	31	34	1.93
589277--589464	20	9.0	20	77	12	155	43	10	7	37	1.69
589240--589487	62	3.9	62	83	9	270	43	10	8	37	1.70
589234--589503	20	12.6	21	74	13	83	41	10	8	38	1.71
589388--589504	22	5.4	22	76	10	89	39	10	11	39	1.75
589234--589504	42	6.4	42	75	9	176	42	10	8	38	1.70
589527--589580	22	2.5	22	75	3	56	42	14	7	35	1.74
589622--589665	22	2.0	22	86	0	61	45	6	11	36	1.67
599465--599539	32	2.3	32	95	2	132	29	29	18	22	1.98
599465--599552	32	2.7	32	91	1	122	29	27	19	23	1.98
600397--600442	4	11.5	4	95	0	83	28	23	47	0	1.52
617285--617397	56	2.0	56	80	0	127	30	23	13	31	1.93
618558--618652	36	2.5	38	88	5	140	30	8	22	38	1.83
627825--627993	91	1.9	91	86	2	241	39	20	10	29	1.86
629324--629642	159	2.0	159	88	1	478	34	15	15	34	1.90
639448--639483	18	2.0	18	94	0	63	41	22	16	19	1.90
652196--652245	2	25.0	2	91	0	82	50	0	0	48	1.01
652196--652257	10	5.7	11	83	11	67	51	1	0	45	1.11
661485--661511	12	2.2	12	100	0	54	44	14	0	40	1.46
665597--665621	2	12.5	2	100	0	50	52	0	0	48	1.00
666379--666421	2	23.0	2	86	13	65	46	0	0	53	1.00
667860--668266	202	2.0	202	97	0	769	29	19	25	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
671623--672445	168	4.9	168	93	2	1352	30	18	18	32	1.95
672650--672695	7	6.4	7	90	5	74	32	41	26	0	1.56
672650--672695	22	2.1	22	96	4	85	32	41	26	0	1.56
682560--683356	172	4.6	172	96	0	1452	35	14	19	30	1.92
683370--683463	8	11.8	8	86	0	116	30	41	26	1	1.63
683365--683464	24	4.2	24	88	0	128	30	40	29	1	1.63
684450--684475	2	13.0	2	100	0	52	50	0	0	50	1.00
685806--685840	16	2.2	16	100	0	70	37	5	20	37	1.76
686463--686495	16	2.0	17	94	5	59	0	36	15	48	1.45
686748--687864	166	6.7	166	88	2	1460	29	17	14	38	1.89

Tables:   1   2   3   4