oyster.v9_M.fa.s9.2.7.7.80.10.50.500.3.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: scaffold337
Parameters: 2 7 7 80 10 50 500
Length:  1638316

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 594 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)
624239--624328	35	2.6	35	84	8	112	57	2	36	3	1.27
624413--624438	2	13.0	2	100	0	52	50	0	0	50	1.00
632502--632703	105	1.9	105	96	0	377	32	17	19	30	1.95
637674--637719	8	6.4	8	76	23	57	0	36	26	36	1.57
637675--637716	4	10.8	4	79	5	50	0	40	26	33	1.56
637681--637708	12	2.3	12	100	0	56	0	42	25	32	1.55
649677--649713	2	18.5	2	100	0	74	48	0	51	0	1.00
653552--653577	2	13.0	2	100	0	52	50	0	50	0	1.00
662497--662853	46	7.8	46	79	8	300	45	8	12	33	1.72
662637--662846	91	2.3	93	82	4	257	41	9	14	34	1.77
662821--662884	31	2.1	31	96	0	119	50	9	10	29	1.69
662860--662949	46	2.0	46	88	0	135	41	8	12	37	1.74
667553--667771	98	2.2	98	84	6	266	37	11	23	27	1.90
673517--673541	1	25.0	1	100	0	50	100	0	0	0	0.00
674054--674081	4	7.0	4	100	0	56	25	25	50	0	1.50
675134--675656	162	3.2	161	90	1	821	36	14	18	30	1.91
675750--676016	134	2.0	135	83	5	335	26	21	24	27	1.99
695827--695865	2	19.5	2	100	0	78	0	48	0	51	1.00
713585--713615	2	15.5	2	100	0	62	48	0	51	0	1.00
725047--725108	2	31.0	2	96	0	115	0	51	0	48	1.00
725849--725880	10	3.2	10	90	0	55	25	21	12	40	1.88
726743--726787	17	2.6	17	82	6	56	33	22	22	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
735571--735610	12	3.2	12	83	13	53	37	15	15	32	1.88
742978--743038	27	2.3	27	88	2	88	47	0	1	50	1.10
742978--743038	13	4.6	14	80	10	74	47	0	1	50	1.10
744451--744479	15	1.9	15	100	0	58	93	0	0	6	0.36
744454--744478	13	1.9	13	100	0	50	96	0	0	4	0.24
744453--744480	14	2.0	14	100	0	56	92	0	0	7	0.37
745883--745957	2	37.5	2	100	0	150	0	50	0	49	1.00
747640--747676	2	18.5	2	88	0	56	2	48	0	48	1.15
749339--749400	2	31.0	2	100	0	124	0	50	0	50	1.00
749865--749904	16	2.5	16	95	0	71	45	12	5	37	1.64
751905--752022	30	3.9	30	90	0	173	25	32	25	16	1.97
764982--765010	2	15.0	2	92	7	51	48	0	51	0	1.00
769569--769599	2	15.5	2	100	0	62	0	48	0	51	1.00
769810--769862	2	27.0	2	96	3	99	0	50	0	49	1.00
781016--781053	4	9.5	4	94	0	67	2	23	23	50	1.62
781051--781075	2	12.5	2	100	0	50	0	48	0	52	1.00
785248--785745	166	3.0	165	92	1	818	28	23	15	33	1.95
785915--785962	6	7.7	6	80	2	51	45	31	22	0	1.53
785915--785962	18	2.5	19	90	6	71	45	31	22	0	1.53
786298--786357	2	30.0	2	96	0	111	1	48	0	50	1.11
786731--786757	1	27.0	1	100	0	54	100	0	0	0	0.00
788147--788182	4	9.0	4	93	0	63	52	0	22	25	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
788358--788416	2	29.5	2	96	0	109	49	0	50	0	1.00
791073--791135	32	1.9	33	90	3	101	42	11	4	41	1.61
791920--791954	13	2.7	13	90	0	61	31	11	0	57	1.34
791959--791995	11	3.4	11	92	0	65	56	0	16	27	1.40
796770--796799	15	2.0	15	93	0	51	63	33	3	0	1.11
796773--796825	18	3.1	17	77	20	56	69	26	3	0	1.05
802186--802218	11	3.0	11	95	0	57	18	12	18	51	1.76
807353--807453	8	12.6	8	76	12	100	72	1	3	21	1.11
807353--807453	12	8.4	12	77	12	100	72	1	3	21	1.11
807357--807449	24	3.9	24	85	0	132	72	2	4	21	1.13
816848--816886	17	2.3	17	86	0	51	79	7	10	2	1.02
822944--822989	1	46.0	1	100	0	92	0	0	0	100	0.00
827169--827218	21	2.4	21	86	0	64	44	20	4	32	1.70
828276--828384	56	1.9	57	94	1	193	47	14	11	26	1.77
829129--829177	2	24.5	2	95	0	89	53	0	46	0	1.00
839044--839076	2	16.5	2	100	0	66	51	0	0	48	1.00
852506--852555	21	2.4	21	89	0	73	30	14	20	36	1.91
856015--856063	8	6.2	8	88	2	55	36	26	36	0	1.57
856015--856057	12	3.6	12	96	0	68	37	25	37	0	1.56
856760--856903	31	4.6	31	88	1	225	58	6	5	29	1.47
856760--856899	63	2.2	62	91	1	217	57	7	5	29	1.48
857735--857818	43	2.0	43	95	0	150	48	14	8	28	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
859082--859122	4	10.2	4	100	0	82	51	0	24	24	1.49
859114--859143	15	2.0	15	93	0	51	70	0	10	20	1.16
859110--859147	19	2.0	19	89	0	58	68	0	10	21	1.19
862775--862810	18	2.0	18	88	0	54	30	0	8	61	1.26
863049--863119	22	3.1	22	72	13	63	49	21	19	9	1.77
863062--863093	11	2.9	11	90	0	55	53	25	9	12	1.68
868004--868068	2	32.5	2	100	0	130	50	0	49	0	1.00
870599--870655	8	7.2	8	80	4	62	0	35	26	38	1.57
876914--876999	2	43.0	2	100	0	172	0	50	0	50	1.00
877630--877669	3	13.3	3	100	0	80	32	0	35	32	1.58
882019--882061	22	2.0	22	90	0	68	48	11	2	37	1.52
882704--882757	21	2.6	21	82	8	65	12	16	24	46	1.82
883022--883059	14	2.7	14	100	0	76	55	15	5	23	1.61
898639--898750	58	1.9	58	94	0	197	25	10	25	37	1.89
902037--902073	18	2.1	18	85	14	51	62	16	5	16	1.51
919838--919917	21	3.8	21	88	4	117	26	8	23	41	1.83
919941--919974	5	6.8	5	89	0	50	20	11	26	41	1.87
919941--919974	10	3.4	10	91	0	59	20	11	26	41	1.87
920122--920155	10	3.4	10	91	0	50	23	8	26	41	1.83
920121--920155	15	2.3	15	90	0	52	22	8	28	40	1.84
920168--920255	21	4.2	21	88	4	126	27	13	21	37	1.91
920138--920255	42	2.8	41	82	7	130	27	11	22	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
931046--931107	4	15.5	4	100	0	124	50	0	25	24	1.50
931888--931919	2	16.0	2	93	0	55	0	46	0	53	1.00
935106--935186	1	81.0	1	85	0	108	92	7	0	0	0.38
940791--940836	12	3.8	12	82	0	56	2	30	26	41	1.68
942322--942356	17	2.1	16	89	5	52	20	37	17	25	1.94
945072--945117	16	2.8	17	75	18	53	54	0	8	36	1.32
945061--945232	31	5.5	31	86	2	245	55	4	7	32	1.47
945061--945232	63	2.7	63	89	6	251	55	4	7	32	1.47
947080--947110	16	1.9	16	93	0	53	61	0	16	22	1.34
951282--951326	20	2.4	18	81	7	54	4	33	13	48	1.62
951851--951921	22	3.1	22	71	20	65	50	19	19	9	1.75
951864--951895	11	2.9	11	90	0	55	53	25	9	12	1.68
961427--961492	4	16.5	4	100	0	132	50	0	25	24	1.50
962854--962889	18	2.0	18	94	0	63	11	30	0	58	1.33
967504--967558	10	5.3	10	82	8	65	36	34	20	9	1.84
967500--967558	21	2.8	21	97	0	109	37	32	20	10	1.86
967500--967555	11	5.3	11	82	8	71	37	30	21	10	1.87
973696--973775	26	3.1	26	90	0	133	23	11	17	47	1.80
977485--977524	2	20.0	2	84	0	53	55	0	42	2	1.13
978343--978384	22	1.9	22	85	0	57	47	28	16	7	1.73
979161--979206	2	23.0	2	100	0	92	0	50	0	50	1.00
980508--980654	51	2.9	51	77	10	160	40	34	13	10	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
980422--980641	114	1.9	114	80	1	253	41	34	11	13	1.80
980579--980671	27	3.7	26	73	16	88	41	36	10	10	1.75
980585--980624	21	1.9	21	84	0	53	47	32	10	10	1.70
980523--980689	48	3.4	47	82	8	174	41	35	12	10	1.77
980488--981655	165	7.0	162	75	13	630	40	34	14	10	1.80
980622--980841	63	3.7	63	70	17	225	44	34	10	10	1.74
980678--980778	51	2.0	51	86	3	141	44	32	11	10	1.76
980747--980786	21	1.9	21	89	0	62	47	35	7	10	1.65
980751--980807	27	2.1	27	86	0	78	47	36	8	7	1.62
980699--980803	51	2.1	51	81	0	120	45	35	9	9	1.69

Tables:   1   2   3   4   5