oyster.v9_M.fa.s44.2.7.7.80.10.50.500.2.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: scaffold619
Parameters: 2 7 7 80 10 50 500
Length:  1099986

Tables:   1   2   3   

This is table  2  of  3  ( 300 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)
379297--380263	41	23.8	40	74	11	365	30	15	16	36	1.90
379763--380226	82	5.7	81	89	2	619	27	18	16	37	1.92
379756--380226	123	3.8	122	88	1	665	27	18	16	37	1.92
380304--380391	41	2.1	41	95	0	158	28	17	21	32	1.96
394511--394551	20	2.0	20	95	0	73	17	31	29	21	1.96
395315--395345	3	10.3	3	100	0	62	32	35	0	32	1.58
397666--397741	36	2.1	36	97	0	143	28	7	28	34	1.85
398624--398969	173	2.0	172	99	0	683	27	21	21	28	1.99
401387--401429	4	10.8	4	79	0	50	67	2	4	25	1.22
406933--406992	2	30.0	2	100	0	120	0	50	0	50	1.00
407607--407690	29	2.9	29	89	0	132	21	13	22	42	1.87
407605--407698	29	3.2	29	86	0	125	22	14	22	40	1.90
413983--414046	30	2.1	30	91	0	101	14	6	21	57	1.58
420440--420507	2	34.0	2	100	0	136	50	0	50	0	1.00
422020--422052	15	2.2	15	94	0	57	33	15	36	15	1.88
422285--422394	2	54.5	2	98	1	211	0	50	0	49	1.00
427440--427502	32	2.0	32	90	0	99	36	14	15	33	1.88
432820--432853	2	17.0	2	100	0	68	50	0	0	50	1.00
435192--435241	24	2.0	24	88	3	73	2	2	78	18	0.95
448923--449000	32	2.5	32	81	6	88	28	16	26	28	1.97
448931--448996	32	2.1	32	88	0	96	25	16	30	27	1.97
456860--456915	18	3.1	18	79	7	69	39	23	21	16	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
469559--469687	69	1.9	68	96	1	240	25	21	17	34	1.96
471106--471143	2	19.0	2	100	0	76	0	50	0	50	1.00
472210--472264	2	27.5	2	100	0	110	0	49	0	50	1.00
472586--472619	1	34.0	1	100	0	68	100	0	0	0	0.00
473255--473280	12	2.2	12	100	0	52	46	0	15	38	1.46
480808--480833	1	26.0	1	100	0	52	0	0	100	0	0.00
482498--482532	11	2.9	12	87	12	54	8	17	25	48	1.75
482540--482581	11	3.8	11	81	12	50	38	30	16	14	1.89
482746--482803	22	2.6	22	97	0	107	44	31	15	8	1.76
482748--482845	11	8.8	11	73	4	81	47	27	12	12	1.76
492042--492089	4	12.0	4	95	0	51	0	35	25	39	1.56
492047--492096	12	4.2	12	84	0	73	0	38	26	36	1.57
492051--492096	4	11.5	4	95	0	56	0	39	26	34	1.57
492120--493110	167	6.0	167	90	1	1486	29	17	14	38	1.89
494199--494228	4	7.5	4	100	0	60	23	26	0	50	1.50
496202--496254	2	26.5	2	100	0	106	49	50	0	0	1.00
498502--498542	20	2.0	20	86	9	57	17	7	12	63	1.50
500579--500608	1	30.0	1	93	0	51	0	96	0	3	0.21
503747--503783	11	3.4	11	88	0	56	21	29	8	40	1.82
522794--522832	12	3.2	12	96	0	69	51	38	0	10	1.36
522793--522828	16	2.2	16	95	0	63	50	41	0	8	1.33
522802--522847	16	2.9	16	90	6	67	50	34	2	13	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
522796--522848	12	4.0	13	80	17	56	49	35	3	11	1.57
528136--528385	131	1.9	130	84	5	335	37	20	11	30	1.88
529182--529217	1	36.0	1	88	0	54	2	94	0	2	0.37
529182--529217	15	2.4	15	95	0	63	2	94	0	2	0.37
530355--530387	12	2.8	12	95	4	59	0	36	27	36	1.57
530557--531116	166	3.3	166	88	5	777	33	16	24	25	1.96
552783--552823	2	20.5	2	100	0	82	51	0	48	0	1.00
561366--561407	2	21.0	2	100	0	84	0	50	0	50	1.00
561664--561720	4	14.2	4	100	0	114	24	26	0	49	1.51
587420--588191	166	4.6	165	87	3	1061	33	15	24	26	1.95
589076--589980	165	5.5	164	87	5	1294	33	16	24	26	1.95
589076--589980	328	2.8	328	94	1	1530	33	16	24	26	1.95
599536--599608	21	3.5	21	75	7	76	17	19	21	41	1.91
599524--599629	42	2.5	42	87	0	149	16	21	19	41	1.90
615468--616630	166	7.1	165	80	5	1144	33	14	22	29	1.94
615476--616630	329	3.5	325	79	8	1192	32	14	22	29	1.94
616650--616842	99	2.0	98	97	0	359	31	15	27	25	1.95
618998--619149	30	5.1	30	81	8	91	32	15	16	35	1.90
619018--619152	30	4.5	30	82	7	150	31	16	16	35	1.91
630739--630773	18	1.9	18	88	0	52	45	34	14	5	1.68
634181--634209	12	2.3	13	94	5	51	0	0	17	82	0.66
635849--636256	165	2.5	165	80	5	441	36	15	18	29	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
642592--642633	2	21.0	2	100	0	84	50	0	50	0	1.00
648076--648153	20	3.9	20	98	0	147	15	21	21	41	1.90
651990--652054	2	32.0	2	93	3	112	0	47	0	50	1.01
654119--654281	29	5.9	28	77	17	153	42	38	0	19	1.56
654176--654223	17	3.1	17	65	22	50	47	35	0	16	1.47
654120--654296	54	3.2	55	89	3	268	43	37	0	18	1.55
654117--654296	25	6.6	29	79	15	179	43	36	0	18	1.55
656348--656384	18	2.0	19	94	5	67	27	21	16	35	1.94
662903--662953	2	25.5	2	100	0	102	0	49	0	50	1.00
664386--664429	2	22.0	2	100	0	88	0	50	0	50	1.00
665351--665411	2	30.5	2	89	0	95	0	45	0	54	1.00
668919--668944	2	13.0	2	100	0	52	0	50	0	50	1.00
671958--672000	2	21.5	2	100	0	86	0	51	0	48	1.00
673429--673483	2	27.5	2	100	0	110	0	49	0	50	1.00
673951--674001	2	25.5	2	100	0	102	0	50	0	49	1.00
675103--675207	17	6.4	17	77	14	112	19	30	23	26	1.98
675137--675207	35	2.0	35	91	5	117	22	29	22	25	1.99
675371--675475	18	6.4	17	76	12	103	28	24	30	16	1.96
675649--675682	2	17.0	2	100	0	68	50	0	50	0	1.00
678332--678367	2	18.0	2	100	0	72	50	0	50	0	1.00
679162--679200	2	19.5	2	100	0	78	0	51	0	48	1.00
682138--682181	23	2.0	23	95	4	81	36	9	13	40	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
693167--693191	1	25.0	1	100	0	50	0	100	0	0	0.00
693309--693349	3	14.0	3	84	5	57	31	68	0	0	0.90
694650--694674	7	3.6	7	100	0	50	32	0	0	68	0.90
697519--697585	2	33.5	2	100	0	134	49	0	50	0	1.00
697810--697876	27	2.4	28	85	9	93	41	8	7	41	1.64
698936--698972	19	1.9	19	100	0	74	43	21	18	16	1.88
699199--699246	2	24.0	2	100	0	96	0	50	0	50	1.00
717731--717973	45	5.4	45	90	2	387	38	17	14	29	1.89
717731--717973	92	2.7	90	94	1	414	38	17	14	29	1.89
717731--717986	137	1.9	135	90	3	406	39	18	13	28	1.89
717957--718033	38	2.0	39	90	7	122	44	20	7	27	1.79
721080--721135	2	28.0	2	100	0	112	50	0	50	0	1.00
731087--731112	12	2.2	12	100	0	52	34	11	23	30	1.90
733722--733779	3	19.3	3	85	0	80	32	0	31	36	1.58
754999--755030	16	2.0	16	100	0	64	43	25	25	6	1.77
755535--755567	16	2.0	17	94	5	59	6	24	18	51	1.68
756179--756203	13	1.9	13	100	0	50	32	16	8	44	1.76
771228--771260	16	2.0	17	94	5	59	18	15	18	48	1.81
784129--784174	2	23.0	2	90	0	74	4	47	0	47	1.21
797832--798251	184	2.3	183	82	4	488	34	15	15	35	1.89
803155--803201	2	23.5	2	95	0	85	0	53	0	46	1.00
809598--809627	15	2.0	15	100	0	60	60	20	6	13	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
819070--819490	179	2.4	179	93	0	700	23	24	23	28	2.00
821262--821311	24	2.1	24	100	0	100	30	12	16	42	1.84
822999--823940	471	2.0	470	99	0	1875	29	21	15	33	1.94
824173--824218	20	2.3	20	88	0	74	0	39	21	39	1.54
826458--826671	82	2.6	82	84	2	252	28	22	18	30	1.97
837747--837870	42	3.0	42	85	2	151	43	12	8	35	1.73
837761--837870	41	2.6	42	85	2	141	44	13	8	33	1.74
838845--838874	2	15.0	2	100	0	60	50	0	50	0	1.00
841575--841601	12	2.2	12	100	0	54	37	7	7	48	1.59
861357--861435	2	39.5	2	100	0	158	49	0	50	0	1.00

Tables:   1   2   3