oyster.v9_M.fa.s51.2.7.7.80.10.50.500.1.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: scaffold226
Parameters: 2 7 7 80 10 50 500
Length:  1071921

Tables:   1   2   3   

This is table  1  of  3  ( 262 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)
5622--5719	49	2.0	48	96	2	178	28	21	14	34	1.92
5793--5854	4	15.8	4	83	3	72	33	25	40	0	1.56
5790--5848	20	3.0	20	94	0	100	35	25	38	0	1.56
10976--11042	7	9.6	7	83	0	89	35	14	22	26	1.93
37530--37642	55	2.0	56	81	8	133	34	15	25	23	1.95
37605--37696	32	2.8	32	88	1	112	26	19	26	28	1.99
37625--37696	32	2.2	32	95	0	135	27	16	30	25	1.97
43111--43140	15	2.0	15	93	0	51	30	33	26	10	1.89
44448--44559	11	10.1	11	72	7	66	11	12	30	45	1.77
44448--44559	22	5.0	22	73	4	100	11	12	30	45	1.77
44723--44764	11	3.8	11	90	0	66	11	16	28	42	1.84
44719--44771	22	2.4	22	80	0	70	11	24	24	39	1.88
80277--80312	14	2.6	14	90	0	54	36	19	22	22	1.95
80292--80370	37	2.1	37	90	0	131	43	18	22	15	1.88
82161--82214	2	27.0	2	96	0	99	0	48	0	51	1.00
97401--97438	3	12.7	3	100	0	76	31	0	34	34	1.58
100834--100866	14	2.4	14	100	0	66	27	24	21	27	1.99
100850--100940	37	2.5	37	87	3	121	38	13	23	25	1.91
100887--100991	51	2.1	51	87	3	149	36	16	22	24	1.94
100924--100954	14	2.2	14	100	0	62	29	22	19	29	1.98
100836--101006	88	1.9	88	92	2	290	39	14	23	22	1.91
100936--101014	37	2.1	37	100	0	158	39	17	24	18	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
101144--101542	177	2.3	176	90	0	618	30	17	14	38	1.89
102384--102426	2	21.5	2	95	0	77	51	0	46	2	1.13
102926--102978	22	2.4	22	83	0	70	39	11	28	20	1.87
102983--103011	11	2.6	11	100	0	58	27	31	10	31	1.90
103043--103096	11	4.9	11	95	0	99	27	33	9	29	1.88
104436--104483	2	24.0	2	100	0	96	50	0	50	0	1.00
104869--104918	11	4.6	11	92	2	75	34	10	28	28	1.89
104989--105028	11	3.7	11	90	3	55	25	30	10	35	1.88
114698--114747	2	25.0	2	100	0	100	50	0	50	0	1.00
118801--118982	95	1.9	95	85	2	249	32	23	12	31	1.92
118971--119032	31	2.0	31	96	0	115	40	9	19	30	1.84
121983--122009	3	9.0	3	100	0	54	33	0	33	33	1.58
124121--124155	16	2.2	16	94	0	61	28	17	5	48	1.69
129692--129770	40	2.0	40	100	0	158	43	15	10	31	1.80
133263--133309	23	2.0	24	87	4	69	46	8	10	34	1.69
133546--133586	17	2.6	16	88	7	57	21	17	19	41	1.90
146712--146736	6	4.2	6	100	0	50	48	0	20	32	1.50
148269--148309	20	2.1	19	86	13	57	73	26	0	0	0.84
148271--148313	12	3.2	15	75	24	51	69	30	0	0	0.88
159206--159704	254	1.9	257	96	2	916	30	12	11	45	1.77
160513--160548	12	3.0	12	84	15	56	66	8	0	25	1.19
184723--184760	19	2.0	19	100	0	76	47	10	15	26	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
184841--184871	11	2.9	11	95	4	55	22	0	9	67	1.19
194643--194684	17	2.4	16	85	14	57	7	0	11	80	0.88
194641--194697	19	3.1	19	85	10	73	10	1	10	77	1.07
197219--197268	20	2.5	20	80	3	57	22	12	16	50	1.77
197200--197299	38	2.6	37	80	9	103	18	11	16	55	1.69
197246--197354	19	5.8	19	79	4	123	16	11	13	57	1.65
197155--197359	18	11.1	18	76	6	178	17	11	16	55	1.70
197247--197354	55	1.9	55	84	3	144	15	12	13	58	1.64
202317--202732	168	2.5	168	90	1	649	29	18	20	31	1.96
207029--208203	49	24.0	49	85	2	1538	27	16	19	35	1.94
210465--210614	65	2.3	65	96	0	273	41	10	20	28	1.84
211279--211726	49	9.1	49	89	0	680	28	18	19	33	1.96
216539--217435	448	2.0	448	98	0	1733	35	14	16	32	1.90
233799--233833	5	6.8	5	93	6	61	82	17	0	0	0.66
233792--233834	16	2.6	16	96	3	77	83	16	0	0	0.64
233791--233833	11	3.9	11	88	8	61	83	16	0	0	0.64
238363--238394	16	2.0	16	93	0	55	18	0	9	71	1.12
250404--250453	18	2.8	18	100	0	100	40	18	14	28	1.89
251262--251311	18	2.8	18	100	0	100	40	18	14	28	1.89
256385--256415	16	1.9	16	100	0	62	38	22	38	0	1.54
266073--266107	16	2.1	17	89	5	54	31	0	28	40	1.57
266061--266112	27	1.9	27	84	0	68	30	1	25	42	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
272352--272473	18	6.8	18	94	0	172	25	43	16	14	1.86
275550--275607	2	29.0	2	100	0	116	0	50	0	50	1.00
276114--276151	17	2.2	18	85	4	51	34	5	2	57	1.35
277687--277826	50	2.8	50	85	0	181	37	13	14	35	1.85
284335--284372	12	3.1	13	85	11	53	28	10	13	47	1.76
286234--286259	12	2.2	12	100	0	52	92	7	0	0	0.39
297882--297917	2	18.0	2	100	0	72	0	0	50	50	1.00
309829--309927	28	3.5	28	85	0	126	27	16	16	40	1.89
315886--315923	2	19.0	2	94	0	67	47	2	50	0	1.15
327385--327830	21	20.9	21	81	3	460	34	16	14	34	1.88
327396--327829	43	10.2	42	91	1	544	35	16	14	34	1.89
327396--327830	64	6.8	64	85	2	552	35	16	14	34	1.88
340485--340528	2	22.0	2	100	0	88	0	50	0	50	1.00
341823--341869	11	4.1	11	78	10	58	38	19	17	25	1.92
341828--341883	24	2.3	25	90	3	87	35	21	17	25	1.95
341840--341892	25	2.2	24	82	3	61	33	26	15	24	1.95
343797--343853	4	14.2	4	78	7	53	47	22	26	3	1.67
343797--343852	12	4.7	12	77	4	60	46	23	26	3	1.68
344116--344658	25	22.1	25	87	3	753	19	16	12	51	1.77
344122--344658	74	7.3	74	92	2	839	19	16	12	51	1.76
344116--344658	99	5.5	99	88	3	774	19	16	12	51	1.77
356732--356775	14	3.0	14	87	12	70	20	43	0	36	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
356735--356779	16	2.8	16	100	0	90	17	44	0	37	1.49
359468--359497	15	2.0	15	100	0	60	26	33	26	13	1.93
361191--361241	11	4.7	11	90	2	77	33	9	31	25	1.88
361312--361361	11	4.7	10	85	11	64	30	26	10	34	1.89
361312--361361	22	2.3	21	89	3	73	30	26	10	34	1.89
361312--361353	11	3.8	11	93	0	66	30	28	9	30	1.89
361354--361414	22	2.8	22	78	9	70	18	24	14	42	1.88
361745--361810	2	33.0	2	93	0	114	0	46	0	53	1.00
367189--368206	166	6.1	166	95	0	1734	25	17	19	38	1.93
367189--368206	333	3.1	332	94	1	1752	25	17	19	38	1.93
368379--368424	4	11.8	4	86	4	58	30	23	43	2	1.66
368376--368429	12	4.7	12	79	6	58	33	24	40	1	1.66
374309--374510	101	2.0	100	96	0	368	32	21	6	39	1.80
380363--380490	62	2.1	61	95	2	238	44	11	8	34	1.72
380646--380724	32	2.4	32	93	2	140	27	29	17	25	1.98
381870--381919	13	4.2	13	80	19	72	82	18	0	0	0.68
381869--381912	22	2.0	22	100	0	88	86	13	0	0	0.57
391036--391064	1	29.0	1	100	0	58	0	100	0	0	0.00
391059--391134	32	2.3	32	95	2	134	28	30	18	22	1.97
391059--391147	32	2.8	32	91	1	124	29	28	19	23	1.98
392297--392322	12	2.2	12	100	0	52	76	23	0	0	0.78
392280--392324	15	2.9	15	80	6	54	80	20	0	0	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
392280--392315	19	1.9	19	94	5	65	86	13	0	0	0.58
393154--393187	17	2.0	17	88	0	50	35	11	35	17	1.87
394112--394163	2	26.0	2	96	0	95	51	0	48	0	1.00
397038--397069	2	15.5	2	93	6	55	46	0	0	50	1.01
397038--397069	15	2.2	14	94	5	55	46	0	0	50	1.01
403040--403092	22	2.4	22	83	0	70	39	11	28	20	1.87
403097--403125	11	2.6	11	100	0	58	27	31	10	31	1.90
403157--403210	11	4.9	11	95	0	99	27	33	9	29	1.88
406559--406583	6	4.2	6	100	0	50	20	16	16	48	1.82
412774--412803	15	2.0	15	93	0	51	40	30	6	23	1.80

Tables:   1   2   3