oyster.v9_M.fa.s26.2.7.7.80.10.50.500.2.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: scaffold601
Parameters: 2 7 7 80 10 50 500
Length:  1259944

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 521 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)
254303--254355	13	3.9	13	79	16	54	3	0	11	84	0.73
254303--254355	14	3.9	13	80	7	61	3	0	11	84	0.73
254303--254354	15	3.5	14	82	12	59	3	0	9	86	0.69
257766--257815	2	25.0	2	100	0	100	50	0	50	0	1.00
260306--260336	2	15.5	2	100	0	62	51	0	0	48	1.00
265612--265716	17	6.4	17	72	14	76	17	27	23	31	1.97
265653--265701	18	2.7	18	80	0	62	24	24	24	26	2.00
265612--265701	29	2.7	35	75	18	102	17	27	25	28	1.98
266788--266892	17	6.4	17	75	14	112	27	23	30	18	1.97
266823--266887	29	2.2	30	88	2	96	29	23	30	16	1.96
270477--270514	11	3.5	11	85	0	58	26	21	0	52	1.47
281188--281307	25	4.8	25	98	0	231	32	15	19	33	1.92
289669--289764	43	2.2	43	96	0	174	9	8	33	48	1.65
299904--299947	20	2.1	20	83	8	52	43	2	15	38	1.60
299914--299955	20	2.1	20	90	0	66	45	7	14	33	1.72
301749--301809	2	30.5	2	100	0	122	50	0	49	0	1.00
305763--305845	35	2.3	35	83	4	103	32	7	12	48	1.68
309452--309511	30	2.0	30	86	0	84	31	5	16	46	1.69
312765--312800	17	2.1	17	94	0	63	55	5	11	27	1.57
312977--313327	38	9.2	38	82	5	431	23	10	26	39	1.87
316605--316775	27	6.3	27	94	0	288	40	22	5	30	1.76
319250--319684	94	4.4	95	84	9	490	17	16	22	42	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
319247--319684	192	2.2	193	92	4	727	17	16	22	42	1.88
322502--322648	22	6.7	22	88	0	204	29	11	27	30	1.92
322502--322648	66	2.2	66	91	0	240	29	11	27	30	1.92
322670--323360	53	13.0	53	98	0	1301	30	12	27	30	1.93
324239--324340	44	2.3	44	81	3	116	25	9	16	48	1.77
324256--324347	22	4.2	22	75	8	89	21	9	19	48	1.77
324256--324347	44	2.1	44	87	0	130	21	9	19	48	1.77
325391--325539	38	3.9	38	84	0	174	32	10	32	23	1.89
325519--325546	10	2.8	10	100	0	56	17	10	42	28	1.83
325489--325584	48	2.0	48	93	0	165	20	12	40	26	1.88
326020--326047	10	2.8	10	100	0	56	17	10	42	28	1.83
327007--327043	2	18.5	2	100	0	74	0	48	0	51	1.00
332422--332913	65	7.4	65	94	3	867	28	15	19	36	1.92
332422--332913	133	3.7	132	96	1	875	28	15	19	36	1.92
332422--332913	198	2.5	198	98	1	939	28	15	19	36	1.92
335707--335731	10	2.5	10	100	0	50	8	28	20	44	1.79
340273--340329	15	3.8	15	88	4	80	12	33	19	35	1.89
343110--343154	23	1.9	23	86	4	63	37	11	15	35	1.83
343115--343183	23	3.0	23	80	2	75	36	10	14	39	1.80
351424--352036	177	3.4	175	86	5	725	24	17	24	33	1.96
352651--352693	20	2.1	20	91	0	68	39	4	13	41	1.66
354136--354178	20	2.1	20	91	0	68	39	4	13	41	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
354418--354564	15	9.3	15	69	15	64	36	4	14	44	1.66
354435--354600	50	3.4	49	74	12	153	36	4	13	44	1.66
354401--354600	98	2.1	96	87	4	285	37	5	12	45	1.65
355171--355212	16	2.8	16	85	7	52	30	7	30	30	1.84
356907--356962	20	2.8	20	91	0	94	25	8	30	35	1.86
356988--357024	2	18.5	2	100	0	74	48	0	51	0	1.00
357111--357136	9	2.9	9	100	0	52	42	23	0	34	1.54
357126--357214	21	4.2	21	88	4	126	38	24	11	25	1.89
358932--358976	22	2.0	22	87	8	65	24	22	15	37	1.93
365797--366221	171	2.5	169	83	4	493	32	14	25	28	1.94
366888--367155	141	1.9	139	82	3	331	30	14	23	30	1.95
367028--367432	163	2.4	164	83	6	469	31	13	23	31	1.93
371172--371209	19	2.0	19	89	0	58	21	5	31	42	1.75
372003--372029	13	2.1	13	100	0	54	29	0	14	55	1.40
372152--372191	10	4.1	10	83	6	55	50	15	2	32	1.57
372151--372189	19	2.0	20	95	5	71	46	15	2	35	1.60
383952--384002	1	51.0	1	84	0	57	90	9	0	0	0.46
383952--384002	7	7.7	7	89	6	72	90	9	0	0	0.46
383959--383999	15	2.7	15	88	0	64	90	9	0	0	0.46
392304--392335	16	2.0	16	93	0	55	3	37	21	37	1.70
392518--393142	320	2.0	316	81	3	725	32	15	23	28	1.95
398333--398372	15	2.7	15	92	3	64	27	0	0	72	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
402590--402630	21	1.9	22	90	5	66	34	14	29	21	1.93
402700--402738	11	3.6	11	93	3	62	28	28	10	33	1.90
402731--402791	22	2.8	22	78	9	70	18	24	14	42	1.88
402826--402930	51	2.1	51	100	0	210	32	13	26	27	1.94
403168--403221	2	27.0	2	100	0	108	0	50	0	50	1.00
413394--413460	20	3.4	20	80	0	89	35	25	8	29	1.86
413394--413574	40	4.5	40	77	8	152	40	22	10	26	1.86
413470--413619	21	7.3	21	70	8	103	44	21	12	22	1.84
413430--413619	41	4.7	40	74	10	116	42	22	11	23	1.86
422121--422642	21	25.0	21	76	6	407	33	20	19	27	1.96
422486--422629	44	3.4	41	78	6	137	37	18	17	26	1.93
423344--423385	4	10.5	4	94	0	75	0	47	23	28	1.52
423908--424302	163	2.4	163	87	3	555	35	13	17	32	1.90
424356--424648	134	2.2	135	83	5	353	27	20	25	26	1.99
427502--427534	16	2.0	17	94	5	59	0	36	15	48	1.45
430616--430658	22	2.0	22	90	0	68	37	6	13	41	1.72
430626--430744	19	5.7	20	72	15	89	39	10	12	37	1.77
430626--430752	41	3.1	40	80	10	132	37	10	12	39	1.77
430626--430699	22	3.5	20	80	10	78	37	10	13	37	1.80
430639--430774	42	3.3	40	76	9	121	37	11	12	38	1.79
430959--431021	22	3.0	20	77	13	56	38	14	11	36	1.81
449763--449858	4	24.0	4	95	0	165	23	26	2	47	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
463134--463177	15	2.9	15	78	21	56	34	6	2	56	1.38
463601--465832	165	13.4	164	88	5	3126	31	15	26	26	1.95
463601--465832	334	6.7	331	89	4	3258	31	15	26	26	1.95
463601--465832	499	4.5	502	90	3	3345	31	15	26	26	1.95
469578--470433	165	5.3	164	81	7	920	29	22	14	33	1.93
474469--474496	1	28.0	1	100	0	56	0	0	100	0	0.00
486564--486603	2	20.5	2	94	5	73	0	52	0	47	1.00
490181--490234	21	2.6	21	87	0	81	24	24	33	18	1.97
491263--491341	37	2.1	38	90	4	124	37	15	2	43	1.60
494051--494140	2	45.0	2	95	0	162	0	52	0	47	1.00
499149--499192	17	2.6	16	82	13	52	2	0	29	68	1.02
501556--501638	21	4.0	21	85	0	112	43	14	16	25	1.86
501559--501638	42	1.9	42	89	0	124	41	15	17	26	1.88
501717--501937	21	10.5	21	77	5	164	33	15	13	37	1.87
501717--501937	63	3.5	63	79	1	192	33	15	13	37	1.87
501945--502122	63	2.8	63	86	0	212	34	13	16	34	1.88
501936--502127	21	9.1	21	82	0	186	35	13	16	34	1.87
502201--502263	21	3.0	21	70	9	56	26	19	15	38	1.92
505318--505818	44	11.6	44	76	10	407	21	12	41	23	1.88
505301--505780	127	3.7	126	78	11	419	20	12	41	25	1.87
505318--505818	85	5.8	85	76	10	450	21	12	41	23	1.88
513597--513637	20	2.0	20	100	0	82	9	21	14	53	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
518946--519025	21	3.8	21	86	1	115	41	11	11	36	1.77
523228--523257	7	4.4	7	91	8	53	83	16	0	0	0.65
523230--523257	13	2.2	13	100	0	56	85	14	0	0	0.59
534500--534536	19	1.9	19	88	0	56	45	2	5	45	1.40
537553--537597	2	22.5	2	100	0	90	0	51	0	48	1.00
542125--542183	19	3.2	19	95	2	102	18	23	23	33	1.97
558849--558877	15	1.9	15	100	0	58	34	0	24	41	1.55
560016--560061	19	2.5	18	83	13	58	63	10	8	17	1.51
560030--560062	17	1.9	17	88	11	50	60	15	6	18	1.54
560295--560387	46	2.0	46	97	0	177	32	20	10	36	1.87

Tables:   1   2   3   4   5