oyster.v9_M.fa.s29.2.7.7.80.10.50.500.1.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: scaffold53
Parameters: 2 7 7 80 10 50 500
Length:  1214666

Tables:   1   2   3   4   

This is table  1  of  4  ( 373 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)
19143--19176	10	3.5	10	88	4	52	58	8	0	32	1.29
26282--26360	27	2.9	27	92	0	122	30	24	17	27	1.97
28497--28549	22	2.3	25	76	23	62	32	13	22	32	1.92
45734--45899	89	1.9	87	94	1	287	22	21	25	28	1.99
53509--53543	2	17.5	2	100	0	70	51	48	0	0	1.00
55548--55594	2	23.5	2	100	0	94	0	48	0	51	1.00
67467--67514	23	2.2	23	88	7	73	39	14	25	20	1.91
68475--68527	3	17.7	3	84	0	52	28	28	5	37	1.80
69430--69455	2	13.0	2	100	0	52	0	50	0	50	1.00
83268--83310	19	2.3	19	84	8	52	41	9	20	27	1.83
84576--84640	2	32.5	2	100	0	130	0	49	0	50	1.00
87537--87594	2	29.0	2	100	0	116	50	0	50	0	1.00
89959--90014	2	28.0	2	100	0	112	0	50	0	50	1.00
91703--91734	12	2.6	12	95	5	55	50	0	40	9	1.35
91904--91952	2	24.0	2	91	4	80	48	0	46	4	1.20
96832--97014	61	3.0	61	97	0	339	27	14	28	28	1.95
104436--105377	471	2.0	470	99	0	1875	34	17	19	28	1.94
106728--106803	2	38.0	2	100	0	152	50	0	50	0	1.00
111618--111907	29	10.9	29	60	23	102	25	8	34	31	1.87
111587--111981	78	5.0	78	98	0	745	26	9	34	30	1.87
116615--116647	2	16.5	2	100	0	66	48	0	0	51	1.00
119603--119645	16	2.7	16	81	0	59	44	13	30	11	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
122788--122814	14	1.9	14	100	0	54	37	0	18	44	1.50
131421--131465	22	2.0	22	100	0	90	17	8	31	42	1.80
131368--131525	77	2.0	81	87	6	234	30	11	21	36	1.89
132696--132822	41	3.1	40	78	5	128	33	16	28	22	1.95
132772--132904	49	2.8	48	75	17	134	32	14	28	24	1.94
137858--137967	54	2.0	55	91	1	177	32	14	11	40	1.82
138239--138324	28	3.0	28	74	22	90	52	15	18	13	1.75
138239--138381	57	2.5	57	85	3	180	51	13	17	17	1.77
138281--138408	57	2.3	55	83	8	150	54	13	14	17	1.71
139456--139559	30	3.5	30	88	2	129	26	35	7	29	1.85
140529--140586	2	29.0	2	100	0	116	50	0	50	0	1.00
140566--140648	42	2.0	41	90	0	121	45	8	30	14	1.74
145838--146088	46	5.5	46	91	0	394	27	29	12	30	1.93
150795--150858	2	32.0	2	90	0	101	0	45	0	54	0.99
152989--153042	2	27.5	2	96	3	101	0	50	0	50	1.00
153868--153905	2	20.0	2	84	10	53	44	0	55	0	0.99
153865--153898	9	3.9	9	92	7	61	44	0	55	0	0.99
153865--153905	13	3.1	14	86	13	61	43	0	56	0	0.99
163143--163181	2	20.0	2	94	5	71	48	0	51	0	1.00
163514--163543	2	15.0	2	100	0	60	0	50	0	50	1.00
165012--165222	69	2.9	73	90	7	349	7	27	15	50	1.69
165146--165179	2	17.0	2	100	0	68	0	50	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
166393--166454	11	5.6	11	70	14	56	32	9	11	46	1.72
166366--166473	22	4.8	23	93	2	175	32	10	12	45	1.75
166366--166473	45	2.4	45	90	4	173	32	10	12	45	1.75
167296--167362	2	33.5	2	100	0	134	0	49	0	50	1.00
170712--171072	180	2.0	180	96	0	668	29	15	18	37	1.91
176444--176486	22	2.0	22	90	0	68	37	9	16	37	1.81
180768--180847	23	3.5	22	78	11	81	27	20	23	28	1.99
180782--180861	23	3.3	23	84	7	97	23	23	23	28	1.99
182086--182137	24	2.2	24	86	6	70	15	17	26	40	1.89
182096--182145	24	2.1	24	100	0	100	8	20	26	46	1.78
186626--186694	10	6.8	10	71	18	54	52	8	1	37	1.42
188736--188851	59	2.0	59	84	0	151	33	17	19	29	1.95
191744--191837	21	4.5	21	72	10	84	31	19	22	26	1.97
194004--194041	2	19.0	2	100	0	76	50	0	50	0	1.00
202320--202389	35	2.0	35	91	2	115	14	25	4	55	1.57
202376--202413	15	2.5	15	95	0	67	18	10	0	71	1.14
209266--209292	2	13.5	2	100	0	54	0	48	0	51	1.00
212607--212643	19	1.9	19	88	0	56	56	5	32	5	1.45
219583--219685	30	3.5	30	90	1	163	27	25	23	24	2.00
225552--225588	8	4.6	8	86	0	56	37	24	37	0	1.56
225549--225588	12	3.3	12	92	0	71	40	25	35	0	1.56
226982--227009	9	3.1	9	100	0	56	57	10	0	32	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
227337--227405	32	2.2	32	94	0	120	24	10	5	59	1.52
227704--227738	18	1.9	18	94	0	61	45	20	22	11	1.82
230161--230202	19	2.2	19	83	8	50	40	30	4	23	1.75
230935--230988	2	27.5	2	96	3	101	50	0	50	0	1.00
237072--237105	2	17.0	2	87	0	50	50	0	5	44	1.26
243669--243706	18	2.1	18	95	0	67	52	13	10	23	1.71
245390--245545	77	2.0	79	91	2	253	52	16	7	24	1.68
251851--252050	102	1.9	103	93	2	348	27	17	16	39	1.90
253386--253436	21	2.4	21	83	0	66	25	25	29	19	1.99
253990--254038	25	2.0	25	87	0	71	38	10	12	38	1.77
254036--254064	15	1.9	15	100	0	58	51	13	0	34	1.42
254450--254488	19	2.0	20	95	5	71	35	33	5	25	1.78
260010--260046	16	2.4	15	86	8	56	37	10	2	48	1.52
260017--260049	16	2.1	16	100	0	66	30	12	6	51	1.63
268793--268829	2	18.5	2	100	0	74	0	51	0	48	1.00
272995--273054	27	2.1	27	84	6	75	35	16	3	45	1.64
273247--273272	1	26.0	1	100	0	52	0	0	100	0	0.00
275622--275692	2	35.5	2	100	0	142	50	0	49	0	1.00
282611--282664	2	27.0	2	100	0	108	50	0	50	0	1.00
286746--286771	1	26.0	1	100	0	52	0	0	100	0	0.00
289079--289221	49	2.9	49	75	6	144	15	20	23	39	1.91
289079--289242	50	3.3	49	73	7	136	14	20	25	40	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
290746--290784	2	19.5	2	100	0	78	0	48	0	51	1.00
316650--317036	137	2.8	137	91	2	585	32	16	17	33	1.92
326671--326713	19	2.3	19	95	0	77	46	9	13	30	1.75
326736--326760	13	1.9	13	100	0	50	96	4	0	0	0.24
326734--326766	15	2.2	15	100	0	66	93	6	0	0	0.33
328154--329014	436	2.0	434	83	4	1074	29	17	16	36	1.92
334478--334758	138	2.0	141	87	4	408	33	16	17	33	1.92
336856--337724	166	5.2	166	93	1	1361	26	24	15	33	1.95
337890--337918	8	3.6	8	100	0	58	34	27	37	0	1.57
338470--338504	10	3.6	10	88	3	54	68	0	11	20	1.20
338910--338941	2	16.0	2	100	0	64	50	0	0	50	1.00
340923--340973	2	25.5	2	100	0	102	49	0	50	0	1.00
341004--341037	2	18.0	2	88	11	54	50	0	50	0	1.00
343544--343578	2	17.5	2	100	0	70	0	51	0	48	1.00
343912--344151	120	2.0	119	99	0	471	43	9	13	33	1.76
357035--357070	2	18.0	2	100	0	72	50	0	50	0	1.00
358832--358928	38	2.6	38	93	0	167	45	14	15	24	1.84
360108--360153	2	23.0	2	100	0	92	0	50	0	50	1.00
360191--360228	12	3.2	12	88	0	58	44	7	10	36	1.68
363402--363457	2	28.5	2	96	3	105	0	50	0	50	1.00
364660--364693	2	17.5	2	93	6	61	0	50	0	50	1.00
365801--365845	20	2.2	20	88	0	63	24	15	44	15	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
365841--365885	24	1.9	23	86	4	63	26	17	42	13	1.86
365802--365926	54	2.3	53	83	12	166	24	17	44	13	1.85
365863--365926	33	1.9	34	90	3	103	23	18	43	14	1.86
365876--365933	21	2.6	22	71	15	57	27	17	41	13	1.87
366095--366123	1	29.0	1	100	0	58	100	0	0	0	0.00
371107--371420	135	2.3	135	79	4	328	30	18	21	29	1.97
371208--371781	135	4.2	133	74	14	421	29	18	23	27	1.98
372199--372264	31	2.1	30	83	10	80	9	37	13	39	1.77
372889--372923	2	17.5	2	93	0	61	48	0	48	2	1.16
374096--374127	2	16.5	2	93	6	57	0	50	0	50	1.00

Tables:   1   2   3   4