oyster.v9_M.fa.s46.2.7.7.80.10.50.500.1.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: scaffold121
Parameters: 2 7 7 80 10 50 500
Length:  1096690

Tables:   1   2   3   

This is table  1  of  3  ( 313 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)
1293--1446	51	2.9	53	91	3	258	32	11	15	40	1.82
1293--1446	53	2.9	51	91	3	236	32	11	15	40	1.82
4820--4931	54	2.1	54	91	1	181	32	10	16	41	1.82
4959--4995	16	2.3	16	85	0	56	67	0	13	18	1.23
9022--9158	2	69.0	2	89	1	213	0	46	0	52	1.05
10045--10155	32	3.5	32	91	2	179	18	23	31	26	1.98
10235--10285	21	2.5	21	84	9	61	39	11	23	25	1.89
18358--18413	2	28.0	2	100	0	112	50	50	0	0	1.00
25487--27198	25	68.5	25	87	1	2309	34	30	13	22	1.92
28048--28086	20	1.9	20	85	15	53	46	17	10	25	1.80
29193--29249	29	2.0	29	85	0	78	26	17	28	28	1.98
46275--46322	2	24.0	2	100	0	96	50	0	50	0	1.00
46632--46755	63	2.0	63	80	6	144	29	16	18	35	1.93
46645--46873	21	10.9	21	77	3	156	33	14	17	34	1.90
46645--46873	42	5.5	41	71	3	188	33	14	17	34	1.90
46626--46852	84	2.7	84	95	0	409	31	15	18	34	1.92
47200--47286	21	4.1	21	83	1	102	29	16	16	37	1.90
47200--47286	42	2.0	43	84	6	115	29	16	16	37	1.90
49297--49326	4	7.5	4	100	0	60	26	26	0	46	1.53
49340--49372	2	16.5	2	93	0	57	3	51	0	45	1.16
50289--50327	19	2.1	19	100	0	78	25	20	10	43	1.83
61332--61394	25	2.6	25	82	2	74	26	15	39	17	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
64168--64225	2	29.0	2	100	0	116	0	50	0	50	1.00
65860--65937	26	3.0	26	81	7	104	28	30	2	38	1.70
68895--69043	33	4.5	33	84	3	160	27	17	15	39	1.90
68895--69059	66	2.5	66	79	5	183	27	16	16	38	1.91
73109--73142	2	17.0	2	100	0	68	0	50	0	50	1.00
73623--73669	14	3.3	14	84	3	67	12	0	70	17	1.17
73620--73680	15	4.1	15	83	8	81	13	0	67	19	1.23
74763--74817	2	27.5	2	100	0	110	0	49	0	50	1.00
78675--78729	2	27.5	2	100	0	110	0	49	0	50	1.00
80762--80789	1	28.0	1	100	0	56	0	100	0	0	0.00
80847--81048	106	1.9	106	92	1	334	31	18	12	37	1.88
82771--82830	2	31.5	2	90	9	99	0	51	0	48	1.00
83181--83206	1	26.0	1	100	0	52	0	100	0	0	0.00
84354--84514	58	2.8	58	92	0	259	26	8	34	29	1.87
86242--86275	14	2.4	14	95	5	59	11	38	11	38	1.79
90550--90624	32	2.3	32	86	0	96	46	13	13	26	1.80
100701--100749	25	2.0	25	91	0	80	38	16	20	24	1.92
102682--102761	42	1.9	42	84	0	106	48	21	7	22	1.74
102941--102974	2	17.0	2	93	0	50	0	44	0	55	0.99
107001--107036	2	18.0	2	100	0	72	50	0	50	0	1.00
107684--107806	2	65.5	2	80	12	145	0	51	0	48	1.00
108610--108643	2	17.0	2	93	0	59	47	0	52	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
112357--112463	2	56.0	2	80	9	125	0	49	0	49	1.07
115093--115130	18	2.1	18	100	0	76	39	15	15	28	1.89
115811--115864	2	27.0	2	100	0	108	0	50	0	50	1.00
146058--146289	69	3.4	69	96	0	428	29	16	16	37	1.91
147730--147834	43	2.8	36	74	16	104	38	14	20	27	1.91
149340--149466	25	5.2	25	73	4	98	30	19	11	37	1.88
153227--153265	2	19.5	2	100	0	78	51	0	48	0	1.00
159616--159737	28	4.3	28	88	4	156	22	26	8	43	1.81
164745--164795	21	2.4	21	75	18	52	27	9	13	49	1.74
164928--164983	4	14.0	4	92	0	58	0	35	25	39	1.56
164933--164990	20	2.9	20	92	0	98	0	37	25	36	1.57
164937--164990	4	13.5	4	92	0	63	0	38	25	35	1.57
164928--164990	16	3.9	16	85	0	90	0	36	25	38	1.56
165014--165974	166	5.8	167	90	1	1468	29	17	14	38	1.90
170108--170137	13	2.3	13	94	0	51	43	26	0	30	1.55
172656--172685	11	2.7	11	94	0	51	26	13	20	40	1.89
177514--177627	2	59.0	2	81	6	119	3	47	0	49	1.18
177514--177617	25	4.2	25	87	9	167	3	48	0	48	1.20
182640--182817	10	17.7	10	69	12	80	23	12	17	46	1.82
183657--183687	2	15.5	2	93	0	53	0	48	0	51	1.00
183875--183924	2	25.0	2	100	0	100	0	50	0	50	1.00
184036--184078	2	21.5	2	95	0	77	0	53	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
184226--184478	134	1.9	134	90	1	400	32	19	24	23	1.98
185125--185302	10	17.7	10	70	13	80	45	18	11	24	1.83
185088--185157	20	3.5	20	73	11	72	38	18	11	31	1.86
185094--185210	41	2.9	40	81	7	130	43	21	11	23	1.85
188431--188684	62	4.1	63	73	4	203	32	23	15	29	1.95
189346--189371	9	2.9	9	100	0	52	92	0	7	0	0.39
193091--193131	2	20.5	2	100	0	82	0	48	0	51	1.00
193836--193909	3	24.7	3	100	0	148	0	33	0	66	0.92
196605--196684	21	3.8	21	86	4	90	25	8	23	42	1.82
196605--196684	42	1.9	42	84	5	108	25	8	23	42	1.82
196889--196922	10	3.4	10	91	0	50	23	8	26	41	1.83
196888--196922	15	2.3	15	90	0	52	22	8	28	40	1.84
196935--197022	21	4.2	21	86	4	126	26	13	21	38	1.91
196935--197022	42	2.1	41	91	2	140	26	13	21	38	1.91
200485--200578	21	4.5	21	66	5	64	32	9	21	36	1.86
200451--200554	42	2.5	42	88	0	145	38	7	18	35	1.79
200605--200654	2	25.0	2	100	0	100	50	0	50	0	1.00
205024--205056	17	1.9	17	93	0	57	27	6	6	60	1.44
207918--207963	23	2.0	23	87	4	67	41	8	26	23	1.83
212826--212854	8	3.6	8	100	0	58	0	37	24	37	1.56
252730--252806	33	2.4	33	86	2	120	31	24	15	28	1.96
256345--256922	169	3.5	164	77	8	445	28	24	13	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
257002--257026	11	2.3	11	100	0	50	20	16	12	52	1.75
281281--281643	178	2.0	179	82	2	435	36	17	13	32	1.89
285509--285903	200	2.0	200	100	0	790	35	17	11	34	1.86
286391--286580	97	2.0	97	98	0	371	37	11	14	36	1.82
287570--287686	53	2.2	54	86	3	157	40	13	11	35	1.80
327687--327723	14	2.5	15	86	4	58	0	0	16	83	0.64
331694--331735	2	21.5	2	95	4	77	0	50	0	50	1.00
343793--343869	27	3.1	27	62	27	71	50	9	18	22	1.74
343779--343998	46	4.8	46	94	0	377	50	10	15	22	1.74
345220--345282	25	2.5	25	100	0	126	36	30	7	25	1.84
345146--345327	89	2.0	91	89	7	280	34	25	13	26	1.93
345296--346854	194	7.8	195	69	13	639	34	16	15	32	1.91
345296--345843	39	14.1	39	82	2	564	35	16	15	32	1.90
346078--346854	39	19.5	39	76	6	540	35	17	15	31	1.91
346237--346293	25	2.3	25	96	0	105	35	29	8	26	1.87
347101--347207	40	2.7	40	82	5	128	37	14	18	29	1.90
347083--347237	39	3.9	38	77	6	132	36	15	18	29	1.92
354817--354878	24	2.6	24	82	2	72	16	37	11	35	1.84
366366--366417	8	6.5	8	81	0	50	1	36	25	36	1.67
366368--366414	12	3.9	12	94	0	85	2	38	25	34	1.68
366368--366410	4	10.8	4	82	0	50	2	39	25	32	1.69
366422--367369	146	6.5	145	87	3	1304	29	18	22	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
366422--367369	293	3.2	293	89	3	1371	29	18	22	29	1.98
366422--367369	439	2.2	435	87	3	1334	29	18	22	29	1.98
375187--376246	166	6.6	162	79	9	1042	27	22	14	34	1.94
375680--376164	156	3.0	153	84	8	600	26	23	15	34	1.94
375363--376319	322	3.0	315	81	9	998	27	22	15	34	1.94
382348--382379	15	2.2	15	94	5	57	15	6	0	78	0.95
387236--387277	16	2.6	16	92	0	66	54	7	7	30	1.54
391698--391748	25	2.0	25	96	0	93	50	9	11	27	1.70
401948--402003	15	3.7	15	76	9	60	46	19	12	21	1.83
403137--403324	21	9.0	21	69	11	100	26	18	18	37	1.93

Tables:   1   2   3