oyster.v9_M.fa.s31.2.7.7.80.10.50.500.2.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: scaffold145
Parameters: 2 7 7 80 10 50 500
Length:  1177157

Tables:   1   2   3   

This is table  2  of  3  ( 335 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)
378072--378160	39	2.2	40	90	2	135	32	16	12	38	1.86
378933--379009	20	3.9	20	70	13	68	41	10	15	32	1.81
379600--379661	21	3.0	20	77	11	63	37	16	16	30	1.90
379541--379655	39	2.9	41	82	12	116	36	12	18	33	1.88
381186--381215	14	2.1	15	93	6	53	10	0	33	56	1.32
387526--387691	89	1.9	86	87	6	246	40	9	14	36	1.78
393106--393133	10	2.8	10	100	0	56	85	14	0	0	0.59
393667--393704	19	2.0	19	100	0	76	15	15	26	42	1.87
397673--397841	21	8.0	21	91	0	257	34	17	22	25	1.96
403954--404442	161	3.0	160	90	1	753	30	13	19	35	1.91
416725--416772	14	3.4	14	86	11	71	29	16	43	10	1.81
420307--420502	49	4.1	49	92	4	326	47	10	26	15	1.77
420307--420502	95	2.0	97	92	2	324	47	10	26	15	1.77
420564--421077	49	10.5	49	94	0	866	47	9	24	17	1.78
428527--428556	10	3.0	10	95	0	51	23	20	16	40	1.91
437294--437338	2	22.5	2	100	0	90	0	0	48	51	1.00
441171--441230	2	30.5	2	96	3	113	48	0	51	0	1.00
452251--452318	2	34.0	2	95	0	118	51	0	47	1	1.09
453156--453216	2	30.5	2	100	0	122	50	0	49	0	1.00
454722--454770	3	16.0	3	78	4	53	32	8	0	59	1.27
460018--460044	10	2.7	10	100	0	54	37	11	11	40	1.76
461860--461894	15	2.5	13	90	9	52	22	0	2	74	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
461856--461895	19	2.2	18	90	4	62	25	0	2	72	0.97
464448--464502	4	13.8	4	100	0	110	23	25	0	50	1.49
467367--467498	64	2.1	64	98	0	255	18	17	16	46	1.84
476621--476671	12	4.2	12	87	0	66	35	15	25	23	1.94
484315--484364	22	2.3	22	79	6	57	10	38	16	36	1.82
485761--485792	11	2.9	11	95	0	55	28	28	9	34	1.88
485801--485853	22	2.4	22	83	0	70	39	11	28	20	1.87
485858--485886	11	2.6	11	100	0	58	27	31	10	31	1.90
485918--485971	11	4.9	11	95	0	99	27	33	9	29	1.88
486990--487213	112	2.0	112	97	0	421	30	18	18	32	1.95
487427--487466	2	20.0	2	94	0	71	52	0	47	0	1.00
487800--487860	22	2.8	22	78	9	61	44	13	24	18	1.85
487961--487990	11	2.7	11	94	0	51	26	30	10	33	1.89
490430--490596	53	3.2	53	85	1	183	38	13	11	35	1.82
491475--491509	17	2.1	17	94	0	61	25	5	14	54	1.62
497160--497517	168	2.2	166	84	5	456	32	17	18	32	1.94
498235--498280	2	23.0	2	95	0	74	45	0	54	0	0.99
504172--504200	13	2.2	13	100	0	58	55	17	6	20	1.65
505161--505203	2	21.5	2	100	0	86	48	0	51	0	1.00
512666--512710	14	3.4	13	81	12	56	22	15	2	60	1.46
521635--521679	4	11.2	4	90	0	63	0	31	22	46	1.52
526738--526801	21	3.0	21	86	0	83	34	10	18	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
534110--534177	29	2.4	29	87	2	93	17	11	25	45	1.82
538270--538364	43	2.2	43	81	10	122	35	14	14	34	1.87
538300--538434	21	6.3	21	69	5	83	31	14	16	37	1.89
538355--538443	43	2.1	43	82	4	108	33	16	14	34	1.90
538238--538443	107	1.9	106	82	8	258	33	15	14	37	1.87
539283--539340	21	2.8	21	78	5	64	24	10	25	39	1.87
539312--539378	21	3.2	21	77	8	73	16	10	34	38	1.83
539261--539355	11	9.2	10	72	18	70	22	8	30	38	1.83
545764--545949	10	18.2	10	76	16	152	83	12	1	2	0.82
545767--545903	15	8.9	15	82	15	149	87	11	0	0	0.58
545764--545903	1	140.0	1	75	0	127	87	11	0	0	0.57
545763--545903	24	6.0	22	79	15	158	87	12	0	0	0.59
546578--546648	8	9.4	8	86	7	78	90	9	0	0	0.46
546586--546648	23	2.8	23	92	2	110	92	7	0	0	0.40
546590--546659	20	3.6	19	81	7	79	88	8	0	2	0.61
546594--546648	1	55.0	1	88	0	83	94	5	0	0	0.31
560433--560777	3	114.0	3	76	7	268	32	30	2	34	1.71
565284--565324	21	2.0	21	85	0	55	9	12	29	48	1.72
568806--568875	22	3.2	22	66	18	65	15	18	15	50	1.79
568829--568896	19	3.4	19	70	28	59	17	13	14	54	1.71
568766--568895	43	3.1	42	92	3	208	16	16	16	49	1.80
578423--578470	21	2.3	21	85	0	60	39	22	16	20	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
578675--578705	10	3.1	10	90	0	53	41	25	12	19	1.87
578729--578808	21	3.8	21	85	4	108	42	21	8	27	1.82
578732--578813	26	3.4	25	77	12	66	43	20	9	25	1.82
583142--583194	27	2.0	27	96	0	97	33	24	0	41	1.55
583345--583386	14	3.0	14	100	0	84	57	14	7	21	1.61
586301--586328	14	2.0	14	100	0	56	28	35	7	28	1.84
599997--600047	20	2.5	21	81	6	61	21	11	13	52	1.72
600104--600128	10	2.5	10	100	0	50	28	12	12	48	1.76
602270--602442	4	44.0	4	87	3	253	49	0	23	26	1.54
602906--602942	14	2.6	14	86	0	56	78	8	13	0	0.96
605814--605861	12	3.9	12	75	5	51	8	0	6	85	0.74
624506--624530	1	25.0	1	100	0	50	0	100	0	0	0.00
631341--631407	7	9.6	7	80	6	82	28	20	14	35	1.93
631341--631407	21	3.2	21	85	6	91	28	20	14	35	1.93
631412--631448	16	2.3	16	90	0	56	5	32	16	45	1.70
633766--633813	2	23.5	2	87	4	69	47	6	0	45	1.27
635051--635104	8	6.8	8	86	0	72	0	25	42	31	1.55
635055--635101	24	2.0	24	95	0	85	0	23	44	31	1.54
638203--638276	21	3.5	21	83	0	94	41	14	18	24	1.89
638193--638276	42	2.0	42	88	0	123	40	14	16	28	1.88
639166--639225	21	2.9	21	87	0	84	26	15	13	45	1.83
647833--648284	167	2.6	176	80	6	440	30	19	18	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
648875--649406	266	2.0	266	98	0	1028	35	25	19	18	1.95
661850--661884	12	2.9	12	86	0	52	5	28	8	57	1.52
669458--669496	19	2.1	19	100	0	78	43	5	10	41	1.61
670778--670824	4	11.8	4	90	0	67	51	0	27	21	1.48
687613--688574	482	2.0	479	98	0	1879	30	20	21	26	1.98
688715--688865	76	2.0	75	100	0	293	18	22	22	35	1.95
688939--689066	56	2.4	55	85	5	163	24	10	30	34	1.90
689594--689760	52	3.2	52	84	5	203	27	10	28	33	1.89
689639--689777	53	2.6	53	88	1	199	31	10	25	32	1.89
698204--698257	2	27.0	2	96	0	99	0	51	0	48	1.00
699188--699231	2	22.0	2	100	0	88	50	0	50	0	1.00
700865--700911	2	23.5	2	100	0	94	0	51	0	48	1.00
707979--708042	26	2.4	26	81	2	74	53	3	3	40	1.33
714968--715004	9	4.0	9	93	6	65	54	0	10	35	1.36
720092--720121	14	2.2	14	94	5	53	0	6	23	70	1.11
720149--720306	27	5.9	27	96	0	289	15	3	31	49	1.63
720582--720672	24	3.8	24	94	0	155	30	7	19	41	1.80
720580--720666	11	7.2	12	70	27	69	31	9	18	41	1.82
720582--720668	13	7.2	13	70	19	80	32	8	18	41	1.79
721225--721858	60	10.6	60	94	0	1124	30	9	24	35	1.88
723230--723263	15	2.3	15	100	0	68	32	0	17	50	1.47
724702--724809	53	2.0	53	100	0	216	38	23	16	21	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
726701--726735	2	17.5	2	100	0	70	0	51	0	48	1.00
729728--729773	20	2.4	20	88	3	76	50	8	6	34	1.59
731206--731236	14	2.2	14	94	0	53	25	6	6	61	1.45
738596--738646	25	2.0	25	100	0	102	43	21	3	31	1.71
745465--745494	15	2.0	15	100	0	60	53	13	0	33	1.40
746970--747092	41	3.0	41	92	0	201	37	17	12	33	1.86
747404--747448	2	22.5	2	100	0	90	51	0	48	0	1.00
749827--749904	4	19.5	4	87	0	66	0	37	11	51	1.38
749827--749904	14	5.6	14	79	0	84	0	37	11	51	1.38
749840--749902	18	3.5	18	84	0	90	0	34	12	52	1.40

Tables:   1   2   3