oyster.v9_M.fa.s6.2.7.7.80.10.50.500.2.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: scaffold419
Parameters: 2 7 7 80 10 50 500
Length:  1725835

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 535 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)
418096--418215	42	2.9	42	91	0	177	28	13	17	40	1.87
418311--418367	21	2.7	21	86	0	78	42	19	17	21	1.90
424088--424125	12	3.2	12	92	3	60	0	31	23	44	1.54
424083--424132	8	6.4	8	81	4	57	0	32	24	44	1.54
425244--426694	165	8.5	165	76	9	1319	33	15	24	26	1.95
425954--426683	333	2.2	333	87	3	1042	33	15	25	26	1.95
429224--429263	15	2.6	16	80	11	57	52	17	5	25	1.64
429468--429512	15	2.7	18	76	16	51	68	0	6	24	1.13
429765--429795	10	3.1	10	90	0	53	61	25	0	12	1.32
432642--432671	2	15.0	2	100	0	60	0	50	0	50	1.00
432698--432729	2	16.0	2	100	0	64	0	50	0	50	1.00
433391--433552	61	2.8	57	81	10	193	37	6	30	26	1.81
433391--433557	19	8.6	19	79	7	174	36	5	30	26	1.81
438627--438660	2	17.0	2	100	0	68	50	0	50	0	1.00
439093--439144	2	26.0	2	100	0	104	50	0	50	0	1.00
441143--441172	13	2.3	13	94	0	51	40	13	3	43	1.60
447085--447117	12	2.8	12	100	0	66	0	42	0	57	0.98
450385--450444	28	2.2	27	79	5	66	41	5	16	36	1.70
450543--450608	27	2.4	27	82	5	87	34	13	18	33	1.90
450587--450659	28	2.6	29	84	2	78	42	9	13	34	1.77
450680--450843	28	5.9	28	84	2	222	40	16	15	26	1.89
450661--450843	56	3.2	57	83	4	235	40	16	15	27	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
450686--450843	84	1.9	84	89	5	248	40	16	15	27	1.89
451640--451880	78	3.1	78	68	16	244	25	14	27	31	1.95
451677--451920	79	3.1	79	68	16	243	25	14	27	33	1.94
451718--451959	79	3.1	78	67	18	212	23	12	29	34	1.92
451599--452006	157	2.6	157	95	0	710	24	14	27	32	1.95
456813--457104	48	6.0	48	90	1	440	43	19	17	19	1.88
458350--458509	4	39.8	4	84	1	203	54	3	41	0	1.18
459734--459958	19	11.8	19	95	1	398	35	16	10	37	1.83
460107--460396	19	15.5	19	85	8	328	33	17	6	42	1.75
460112--460396	37	7.6	38	83	9	327	33	17	6	42	1.75
460131--460386	125	2.0	127	87	3	372	34	17	6	41	1.75
471152--471185	16	2.2	15	89	5	50	44	5	0	50	1.26
473779--473803	12	2.1	12	100	0	50	16	0	16	68	1.22
477513--477557	24	1.9	23	90	4	72	55	20	6	17	1.64
478425--478483	2	29.5	2	100	0	118	50	0	49	0	1.00
485701--485731	2	15.5	2	100	0	62	51	0	48	0	1.00
487957--488050	2	48.0	2	93	4	165	52	0	47	0	1.00
488504--488570	2	33.5	2	100	0	134	49	0	50	0	1.00
490905--490951	24	1.9	25	86	4	69	31	12	4	51	1.59
491376--491483	12	9.0	12	82	0	108	25	34	17	23	1.96
491376--491483	24	4.5	24	84	0	126	25	34	17	23	1.96
491376--491483	36	3.0	36	86	0	144	25	34	17	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
491500--491563	18	3.6	18	81	8	69	25	32	18	23	1.97
493295--493338	2	22.0	2	100	0	88	50	0	50	0	1.00
496144--496251	54	2.0	54	100	0	216	20	12	20	46	1.83
501424--501464	11	3.7	11	90	0	64	29	12	34	24	1.91
501474--501503	11	2.7	11	89	0	51	26	30	10	33	1.89
501534--501583	11	4.7	10	82	7	55	28	24	10	38	1.87
501533--501584	22	2.4	22	87	12	81	26	23	9	40	1.85
502225--502447	112	2.0	112	96	0	410	31	19	18	29	1.96
503465--503529	11	5.9	11	94	0	94	33	9	29	27	1.88
503464--503530	33	2.0	33	91	0	107	35	8	28	26	1.87
503595--503637	11	3.9	11	81	0	50	27	23	9	39	1.85
503644--503675	11	2.9	11	95	0	55	34	9	28	28	1.88
503680--503719	21	1.9	21	94	0	71	27	20	10	42	1.83
503680--503719	11	3.7	11	86	6	64	27	20	10	42	1.83
509952--510085	4	33.0	4	89	5	198	51	0	23	24	1.53
512521--512561	11	3.7	11	86	0	64	26	9	36	26	1.88
514144--514208	11	5.9	11	94	0	94	33	9	29	27	1.88
514143--514209	33	2.0	33	91	0	107	35	8	28	26	1.87
514274--514316	11	3.9	11	81	0	50	27	23	9	39	1.85
514323--514354	11	2.9	11	95	0	55	34	9	28	28	1.88
514359--514398	21	1.9	21	94	0	71	27	20	10	42	1.83
514359--514398	11	3.7	11	86	6	64	27	20	10	42	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
514976--515029	11	4.9	11	95	0	99	29	9	33	27	1.88
515061--515089	11	2.6	11	100	0	58	31	10	31	27	1.90
515181--515218	11	3.5	11	78	7	51	28	18	13	39	1.88
516945--516974	2	15.0	2	100	0	60	50	0	0	50	1.00
518195--518234	1	40.0	1	84	0	53	0	2	92	2	0.37
518196--518232	19	1.9	19	94	0	65	0	2	91	2	0.39
519387--519648	21	12.6	20	76	14	139	40	7	7	45	1.59
519387--519648	42	6.3	42	75	12	170	40	7	7	45	1.59
519383--519647	63	4.2	63	76	8	231	40	7	7	45	1.59
531923--531968	2	23.0	2	90	0	74	45	0	50	4	1.21
532093--532177	28	3.0	28	100	0	170	45	7	22	24	1.77
533168--533199	1	32.0	1	100	0	64	100	0	0	0	0.00
537543--537821	50	5.6	50	90	0	434	41	22	13	22	1.88
537989--538102	31	3.8	31	69	17	96	41	15	15	27	1.88
538129--538294	31	5.4	31	91	2	262	46	16	11	25	1.80
539142--539216	21	3.6	21	81	0	96	29	12	17	41	1.85
539329--539407	21	3.8	21	73	6	70	46	16	10	26	1.78
539329--539469	48	3.1	45	78	9	144	43	14	10	30	1.80
539519--539597	21	3.7	21	72	9	79	25	13	21	39	1.90
539694--539745	21	2.4	22	93	3	88	40	19	13	26	1.88
561290--561328	19	2.1	19	85	0	51	23	10	7	58	1.56
564033--564203	34	5.0	34	80	5	193	33	12	21	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
564179--564224	21	2.2	21	92	0	74	30	10	26	32	1.90
564033--564203	68	2.5	68	86	1	236	33	12	21	33	1.90
564145--564255	55	2.0	55	91	0	177	29	9	26	34	1.89
564106--564289	89	2.1	89	87	0	269	31	10	25	33	1.89
564200--564464	34	7.9	34	85	5	331	31	10	24	32	1.90
564095--564459	123	2.9	123	81	8	362	32	10	24	32	1.90
564043--564344	157	1.9	157	84	0	406	31	10	23	33	1.90
566945--567453	103	4.9	103	91	3	753	34	23	21	20	1.97
567417--567469	20	2.6	20	100	0	106	56	18	11	13	1.66
567570--567608	20	1.9	20	94	0	69	48	25	10	15	1.76
567583--567637	28	1.9	29	92	3	94	47	23	7	21	1.76
567825--567885	2	31.5	2	93	6	108	0	50	0	49	1.00
570082--570351	80	3.4	80	80	5	289	33	12	15	37	1.86
570525--571104	24	24.2	24	88	1	770	24	11	35	28	1.90
571107--571208	24	4.2	24	76	7	91	22	11	33	32	1.90
573892--573916	12	2.1	12	100	0	50	16	0	0	84	0.63
575110--575167	18	3.2	18	87	0	80	20	22	20	36	1.95
579330--579402	35	2.1	35	84	0	92	26	23	12	38	1.90
581870--581951	2	41.5	2	90	2	103	42	1	56	0	1.07
588831--588900	2	35.0	2	100	0	140	50	0	50	0	1.00
591495--591652	56	3.0	56	87	11	237	22	29	34	14	1.93
591559--591650	46	2.0	46	100	0	184	21	26	36	15	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
600221--600322	2	51.0	2	96	0	186	0	48	0	50	1.07
603831--603881	23	2.2	24	80	10	63	58	3	1	35	1.28
605246--605299	2	27.0	2	100	0	108	0	50	0	50	1.00
605537--605725	4	46.8	4	79	7	186	24	4	3	67	1.24
608219--608259	2	20.5	2	100	0	82	48	0	51	0	1.00
615994--616054	2	30.5	2	100	0	122	50	0	49	0	1.00
616081--616137	2	28.5	2	100	0	114	50	0	49	0	1.00
620984--621226	62	3.9	62	87	5	339	39	9	11	39	1.73
626221--626277	2	28.5	2	96	0	105	49	0	49	1	1.11
634969--635120	2	76.0	2	88	5	209	3	46	1	47	1.30

Tables:   1   2   3   4   5