oyster.v9_M.fa.s57.2.7.7.80.10.50.500.1.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: scaffold107
Parameters: 2 7 7 80 10 50 500
Length:  1028272

Tables:   1   2   3   

This is table  1  of  3  ( 334 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)
1793--1892	49	2.0	49	98	0	191	25	16	22	37	1.93
4197--4546	176	2.0	176	87	2	508	40	17	15	26	1.90
5990--6066	36	2.1	36	97	0	145	29	7	25	36	1.84
6116--6229	54	2.1	54	93	0	192	41	14	12	31	1.83
9811--10028	2	109.0	2	98	1	420	49	50	0	0	1.00
13903--13945	2	21.5	2	95	0	77	48	0	0	48	1.01
17004--17034	16	1.9	16	100	0	62	41	19	0	38	1.51
17479--17697	10	20.9	10	64	16	54	13	42	16	27	1.85
17523--17605	42	1.9	43	82	4	105	13	43	18	25	1.86
17612--17665	20	2.7	20	88	0	81	14	44	16	24	1.85
18641--18694	2	27.0	2	100	0	108	50	0	50	0	1.00
18887--18937	2	25.5	2	100	0	102	50	0	49	0	1.00
19938--19986	2	24.5	2	100	0	98	0	51	0	48	1.00
20498--20586	20	4.3	20	76	10	90	23	16	43	15	1.87
20523--20586	10	6.4	10	74	3	58	25	15	43	15	1.86
20582--20672	23	4.2	22	71	13	73	26	17	38	17	1.92
20593--20674	42	1.9	43	85	2	112	25	15	41	17	1.89
20542--20682	63	2.2	62	76	9	144	25	16	42	15	1.87
22021--22089	2	34.5	2	97	0	129	50	1	47	0	1.09
25710--25745	11	3.4	10	92	7	54	63	8	11	16	1.49
25663--26294	316	2.0	316	98	0	1228	43	16	13	26	1.85
26026--26061	11	3.4	10	92	7	54	63	8	11	16	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42026--42053	14	2.0	14	100	0	56	21	14	21	42	1.88
42262--42324	21	3.0	20	72	9	54	28	15	9	46	1.78
43260--43304	2	22.5	2	95	0	81	53	0	46	0	1.00
47163--47212	1	50.0	1	79	0	55	0	0	10	90	0.47
47162--47213	10	5.1	10	82	13	70	0	0	13	86	0.57
47166--47213	24	2.0	24	91	0	78	0	0	12	87	0.54
47162--47212	19	2.8	18	85	8	68	0	0	11	88	0.52
58400--58435	16	2.2	16	100	0	72	16	0	19	63	1.30
61398--61433	16	2.2	16	100	0	72	63	19	0	16	1.30
62445--63328	441	2.0	442	88	2	1299	32	14	16	36	1.88
63352--64223	437	2.0	429	87	4	1250	31	16	16	34	1.92
67228--67292	29	2.2	29	83	0	76	47	16	16	18	1.83
73556--73626	21	3.4	21	80	5	90	39	16	25	18	1.91
76802--76852	10	5.1	10	78	0	57	41	11	1	45	1.52
76799--76852	15	3.6	15	82	0	54	40	11	1	46	1.50
77581--77605	11	2.3	11	100	0	50	52	16	16	16	1.76
77752--77835	4	21.2	4	97	2	161	76	0	23	0	0.79
78265--78294	15	2.0	15	100	0	60	60	0	6	33	1.23
78612--78660	20	2.4	21	80	13	57	0	0	24	75	0.80
78633--78684	16	3.4	15	76	10	52	0	1	13	84	0.70
78632--78684	23	2.4	22	87	3	70	0	1	15	83	0.74
78647--78685	20	1.9	20	90	10	62	0	2	15	82	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
78633--78692	14	4.2	13	76	17	57	1	1	13	83	0.80
78634--78692	22	2.7	21	74	23	59	1	1	13	83	0.81
82533--82660	64	2.0	63	98	1	247	25	25	17	32	1.96
94194--94230	11	3.4	11	84	0	56	56	0	13	29	1.37
100704--101054	22	15.9	21	71	15	185	41	10	8	39	1.71
100704--101010	42	7.1	41	71	16	140	42	10	8	38	1.70
100985--101038	27	2.0	28	88	3	83	37	12	5	44	1.66
100748--101054	91	3.5	86	75	8	262	41	11	8	38	1.72
101492--101555	29	2.2	29	80	8	76	51	12	6	29	1.64
101533--101687	22	6.8	24	69	17	75	39	12	11	36	1.79
101582--101685	43	2.4	44	84	9	144	39	14	9	36	1.79
101584--101687	22	4.9	21	75	10	86	39	14	9	36	1.79
109912--109958	24	2.0	23	87	4	67	14	6	14	63	1.49
115012--115050	20	1.9	20	89	0	60	33	7	15	43	1.75
119943--120030	21	4.2	21	81	4	108	39	21	12	26	1.89
120043--120076	10	3.4	10	91	0	50	41	26	8	23	1.83
120043--120077	15	2.3	15	90	0	52	40	28	8	22	1.84
120225--120258	5	6.8	5	89	0	50	41	26	11	20	1.87
120225--120258	10	3.4	10	91	0	59	41	26	11	20	1.87
120281--120360	21	3.8	21	83	4	99	41	23	8	26	1.83
122652--122677	8	3.2	8	100	0	52	23	11	15	50	1.76
126503--126556	27	2.0	27	100	0	108	14	14	22	48	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
126667--126724	6	9.7	6	78	10	57	0	1	17	81	0.78
126674--126726	22	2.5	22	78	6	56	0	1	18	79	0.83
136191--136215	11	2.3	11	100	0	50	0	0	16	84	0.63
136190--136226	15	2.5	15	87	12	58	2	0	13	83	0.74
141800--141842	19	2.3	19	84	8	52	55	9	11	23	1.64
143553--143597	2	22.5	2	100	0	90	51	0	48	0	1.00
147172--147268	51	1.9	51	95	0	176	36	11	11	41	1.77
162501--162639	70	2.0	69	97	0	251	19	20	22	36	1.94
180205--180583	194	2.0	194	99	0	749	29	20	16	34	1.94
181172--181227	28	2.0	28	100	0	112	35	17	14	32	1.90
186217--186254	19	1.9	19	89	5	58	34	5	26	34	1.79
186426--186457	15	2.1	15	94	0	55	50	12	0	37	1.41
195004--195170	59	3.0	56	89	8	261	14	20	16	47	1.82
195007--195170	52	3.0	52	91	6	247	14	20	17	47	1.82
197937--198001	2	32.5	2	96	0	121	0	47	1	50	1.10
201560--201636	32	2.5	31	82	2	91	27	9	19	44	1.81
202401--202465	31	2.1	30	82	2	76	24	12	20	43	1.86
203201--203269	31	2.2	31	84	5	86	24	10	20	44	1.82
203934--204044	32	3.5	31	79	6	114	24	11	19	44	1.84
203998--204063	31	2.1	31	83	5	80	28	12	16	42	1.84
204627--205578	437	2.2	433	83	3	1194	35	14	17	31	1.90
235488--235531	4	11.0	4	85	0	61	27	22	45	4	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
266014--266119	54	2.0	53	84	1	140	45	16	20	16	1.86
268687--268711	13	1.9	13	100	0	50	8	16	36	40	1.77
268763--268802	2	20.0	2	100	0	80	0	50	0	50	1.00
275171--276008	146	5.7	146	89	2	1189	28	21	19	31	1.97
276019--276081	4	15.8	4	93	0	108	28	25	46	0	1.53
283847--283896	24	2.1	24	96	0	91	36	30	12	22	1.90
284290--284403	51	2.2	51	90	3	158	8	36	27	27	1.86
284885--284925	5	8.2	5	100	0	82	41	19	0	39	1.52
290253--290307	1	55.0	1	77	0	56	89	10	0	0	0.50
290253--290307	11	4.8	11	86	4	74	89	10	0	0	0.50
291417--291475	2	29.5	2	100	0	118	0	49	0	50	1.00
299285--299322	9	4.2	9	100	0	76	44	13	10	31	1.77
300002--300048	10	4.8	10	84	5	69	0	0	14	85	0.61
300005--300048	15	3.0	15	90	6	72	0	0	15	84	0.63
300001--300045	19	2.4	18	89	7	72	0	0	15	84	0.62
301342--302000	330	2.0	329	100	0	1309	29	13	16	39	1.88
309429--309483	27	2.1	26	89	3	83	0	0	16	83	0.64
309428--309475	6	7.5	6	90	9	69	0	0	14	85	0.60
309431--309495	27	2.3	27	84	10	78	1	1	18	78	0.91
309428--309495	33	2.0	33	88	5	100	1	1	17	79	0.88
310526--310621	21	4.6	21	97	0	183	28	40	19	11	1.86
311900--311939	21	1.9	21	85	10	55	27	10	2	60	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
315103--315212	21	5.2	21	94	2	143	18	38	30	13	1.89
320909--320940	11	2.9	11	90	0	55	28	9	31	31	1.88
320972--321000	11	2.6	11	100	0	58	31	10	31	27	1.90
321006--321081	11	7.0	11	86	3	109	26	31	11	30	1.92
321123--321161	11	3.7	10	93	6	60	28	28	10	33	1.90
326950--326986	19	1.9	19	89	10	58	21	5	5	67	1.31
329216--329254	2	19.5	2	100	0	78	0	51	0	48	1.00
333064--333093	1	30.0	1	93	0	51	96	0	0	3	0.21
333064--333092	15	1.9	15	100	0	58	96	0	0	3	0.22
343390--343423	1	34.0	1	100	0	68	0	0	0	100	0.00

Tables:   1   2   3