oyster.v9_M.fa.s55.2.7.7.80.10.50.500.4.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: scaffold1267
Parameters: 2 7 7 80 10 50 500
Length:  1050379

Tables:   1   2   3   4   

This is table  4  of  4  ( 449 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)
854018--856177	23	94.0	24	70	11	409	23	32	9	34	1.86
853988--856538	46	55.3	46	72	6	1018	23	32	9	34	1.87
854018--856538	69	36.4	69	73	7	755	23	32	9	34	1.87
854243--854393	81	1.9	81	83	5	198	24	29	9	36	1.87
856258--856539	23	12.4	23	72	5	160	24	32	8	34	1.86
856919--856985	2	33.5	2	100	0	134	49	0	50	0	1.00
858044--858709	50	13.0	50	88	6	1005	37	12	18	31	1.88
858389--858503	59	1.9	60	89	5	180	35	12	20	31	1.90
858280--858709	159	2.7	159	88	5	613	37	11	18	32	1.87
858583--858676	32	3.2	32	66	25	96	40	11	18	29	1.86
860245--860336	29	3.2	29	87	1	105	26	13	20	40	1.89
860334--860522	29	6.5	29	85	2	236	34	5	21	37	1.78
860344--860885	58	9.6	58	74	8	249	33	6	19	39	1.77
860339--860522	87	2.1	87	87	0	260	35	5	21	37	1.78
860478--860568	46	2.0	46	84	0	119	36	3	16	43	1.64
860530--860885	29	12.3	29	78	5	328	33	6	19	40	1.77
860426--860626	104	1.9	104	83	0	258	33	4	20	41	1.74
860402--860800	145	2.9	133	74	13	320	33	6	19	40	1.77
862494--862539	2	23.0	2	100	0	92	0	50	0	50	1.00
863276--863473	25	7.9	25	93	0	324	30	23	16	28	1.96
864862--865194	27	12.3	27	88	0	468	34	17	21	26	1.95
864862--865194	108	3.1	108	94	0	558	34	17	21	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
865318--865361	21	2.1	20	83	4	52	27	6	20	45	1.76
866693--866732	4	10.0	4	83	0	53	42	25	32	0	1.55
866696--866732	8	4.6	8	93	0	65	40	24	35	0	1.55
866797--866830	10	3.4	10	83	0	50	23	8	26	41	1.83
866797--866831	15	2.3	15	90	0	52	25	8	25	40	1.84
867818--868102	57	5.0	56	87	1	347	33	20	12	34	1.89
867818--868102	114	2.5	114	91	2	439	33	20	12	34	1.89
869209--869424	34	6.3	35	89	2	312	29	16	19	34	1.94
869209--869424	69	3.1	70	88	3	312	29	16	19	34	1.94
869212--869416	103	2.0	103	88	1	304	29	16	20	33	1.94
875447--875536	31	2.9	30	90	3	126	45	16	18	18	1.86
875506--875551	24	1.9	24	86	0	65	41	17	17	23	1.90
876108--876251	42	3.1	48	77	14	165	10	47	14	27	1.76
876470--877023	277	2.0	277	95	0	984	36	19	11	32	1.88
877430--877972	73	7.6	73	88	3	780	24	15	16	43	1.87
877496--877972	210	2.2	215	88	3	721	25	15	16	42	1.87
877370--877972	283	2.1	283	96	0	1098	24	15	16	42	1.87
878032--878306	61	4.7	60	89	4	418	49	24	8	17	1.74
878032--878306	119	2.3	116	87	5	415	49	24	8	17	1.74
889395--890338	166	5.8	165	85	5	1086	27	21	16	34	1.95
889368--890334	331	3.0	325	82	5	1143	28	21	16	34	1.94
911025--911063	20	1.9	20	89	0	60	12	15	0	71	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
920979--921051	36	2.0	36	100	0	146	41	5	19	34	1.74
921654--921678	1	25.0	1	100	0	50	0	0	100	0	0.00
925195--925246	2	26.0	2	100	0	104	0	50	0	50	1.00
929650--929694	23	2.0	23	95	0	81	42	13	15	28	1.85
932009--932036	2	14.0	2	100	0	56	50	0	50	0	1.00
935009--935039	1	31.0	1	100	0	62	100	0	0	0	0.00
941231--941258	11	2.5	11	100	0	56	42	0	7	50	1.30
943181--943250	18	3.9	18	94	0	122	27	24	10	38	1.87
943181--943258	18	4.6	16	88	4	77	25	25	8	39	1.85
952275--952316	2	21.0	2	100	0	84	0	50	0	50	1.00
958586--958619	14	2.4	14	90	0	50	52	17	0	29	1.45
958645--958690	2	23.0	2	100	0	92	50	0	50	0	1.00
975637--975682	2	23.0	2	100	0	92	0	50	0	50	1.00
980206--980271	2	33.0	2	100	0	132	0	50	0	50	1.00
981145--981197	19	2.8	18	75	8	52	71	5	20	1	1.16
981145--981197	20	2.8	18	78	15	54	71	5	20	1	1.16
998588--998638	2	25.5	2	100	0	102	0	50	0	49	1.00
1001164--1001194	8	3.9	8	95	0	53	51	6	41	0	1.27
1008532--1008628	2	50.0	2	93	6	173	50	0	49	0	1.00
1008707--1008785	2	39.5	2	97	0	149	49	0	50	0	1.00
1016363--1016448	21	4.1	21	81	0	100	24	18	20	36	1.95
1019150--1019209	21	2.9	21	90	2	95	36	15	16	31	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1019219--1019366	22	6.6	22	80	13	153	37	11	15	35	1.84
1019220--1019315	50	1.9	50	91	4	158	38	11	13	36	1.81
1019270--1019366	21	4.5	22	89	6	139	35	12	16	36	1.86
1021542--1021916	22	17.4	22	77	11	255	35	14	17	32	1.90
1021538--1021599	20	3.0	20	80	13	72	29	17	14	38	1.89
1021542--1021916	42	8.7	41	73	14	240	35	14	17	32	1.90
1021607--1021814	20	9.7	21	76	12	158	36	15	17	29	1.92
1021542--1021916	44	8.7	43	76	10	284	35	14	17	32	1.90
1022908--1023253	22	16.1	21	78	8	213	32	17	14	35	1.90
1022913--1023080	21	7.8	22	81	9	170	34	16	14	35	1.88
1022908--1023231	42	7.5	43	76	10	202	32	17	14	35	1.90
1023110--1023216	40	2.6	42	83	5	137	29	20	14	35	1.92
1023090--1023252	83	2.0	83	81	2	193	29	19	14	36	1.91
1023042--1023294	105	2.4	106	80	6	260	33	18	13	33	1.91
1023242--1023281	20	1.9	22	90	10	66	52	20	10	17	1.72
1029916--1029977	4	15.8	4	89	3	90	30	25	43	0	1.55
1032844--1033337	164	3.0	164	94	1	828	32	15	25	26	1.96
1036635--1036664	11	2.7	11	89	0	51	16	10	13	60	1.59
1038841--1038896	26	2.2	26	90	3	87	23	7	14	55	1.63
1044801--1044912	56	2.0	56	94	0	197	30	11	21	36	1.89
1045611--1046996	146	9.5	146	87	2	1736	29	18	20	31	1.96
1047275--1047311	2	18.5	2	94	0	65	45	0	2	51	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1049429--1049520	46	2.0	46	95	0	166	39	16	14	30	1.88

Tables:   1   2   3   4

The End!