oyster.v9_M.fa.s14.2.7.7.80.10.50.500.2.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: scaffold962
Parameters: 2 7 7 80 10 50 500
Length:  1469792

Tables:   1   2   3   4   

This is table  2  of  4  ( 424 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)
371411--371472	2	31.0	2	100	0	124	50	0	50	0	1.00
372563--372608	2	23.0	2	100	0	92	50	0	50	0	1.00
389983--390016	17	2.0	17	100	0	68	23	23	17	35	1.95
393796--393888	39	2.4	40	87	1	125	33	16	11	38	1.85
394556--394647	20	4.6	20	73	15	66	41	10	15	32	1.82
394572--394647	40	1.9	39	84	7	100	40	10	17	31	1.83
398552--398593	19	2.2	19	100	0	84	35	33	4	26	1.77
405148--405181	13	2.6	13	85	0	50	35	5	11	47	1.65
411937--412000	30	2.1	31	97	2	121	43	12	10	32	1.77
417921--417959	19	2.1	19	95	0	69	35	33	5	25	1.78
418182--418220	14	2.8	14	84	0	51	35	38	23	2	1.68
419136--419187	23	2.3	23	82	0	59	51	3	9	34	1.53
424038--424073	17	2.1	18	94	5	65	44	16	11	27	1.82
424979--425045	7	9.6	7	77	6	73	35	14	20	28	1.93
426123--426189	7	9.6	7	80	0	80	26	20	14	37	1.92
426123--426189	21	3.2	21	84	0	89	26	20	14	37	1.92
432400--432424	13	1.9	13	100	0	50	16	4	8	72	1.24
432619--432644	12	2.2	12	100	0	52	23	19	23	34	1.96
441798--441900	26	4.0	26	90	0	152	41	6	12	38	1.70
445045--445110	32	2.1	32	97	0	123	39	18	7	34	1.79
452458--452492	15	2.3	15	90	0	52	37	11	37	14	1.82
454256--454294	2	19.5	2	100	0	78	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
456241--456374	30	4.5	30	84	3	153	23	21	26	28	1.99
456239--456374	60	2.3	60	86	0	182	23	21	26	28	1.99
458496--458588	15	5.8	15	72	22	82	50	18	16	15	1.78
458515--458572	18	3.4	17	73	22	59	51	17	13	17	1.76
458477--458604	33	3.8	33	92	1	202	51	17	15	15	1.77
464200--464226	14	1.9	14	100	0	54	14	37	0	48	1.45
472579--472616	7	5.4	7	93	0	67	0	26	42	31	1.56
472821--473743	168	5.5	168	91	1	1429	30	18	18	31	1.96
484686--484727	4	10.8	4	84	5	50	0	40	26	33	1.56
484686--484730	12	3.8	12	85	2	56	0	37	26	35	1.57
484685--484727	16	2.8	16	92	3	70	0	39	25	34	1.56
486843--486899	2	28.5	2	100	0	114	50	49	0	0	1.00
486899--486952	2	27.0	2	92	0	90	48	3	0	48	1.19
494392--494509	2	59.0	2	98	0	227	49	0	50	0	1.00
501659--501694	18	1.9	19	94	5	65	66	0	0	33	0.92
511931--511955	12	2.1	12	100	0	50	32	0	8	60	1.26
512867--512901	8	4.4	8	85	0	52	0	37	25	37	1.57
512867--512906	16	2.5	16	87	0	53	0	37	25	37	1.56
512866--512906	20	2.0	20	95	0	73	0	39	24	36	1.56
519455--519496	1	42.0	1	100	0	84	0	0	0	100	0.00
521218--521257	2	20.0	2	100	0	80	50	0	50	0	1.00
525299--525335	17	2.2	18	90	9	60	16	0	5	78	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
526523--526594	22	3.3	22	98	0	126	29	15	8	47	1.74
533087--533151	20	3.3	20	82	4	78	43	13	21	21	1.87
548175--548248	36	2.1	36	100	0	148	29	10	21	37	1.88
548416--548450	12	2.9	12	91	0	61	37	25	37	0	1.57
548416--548457	8	5.4	8	82	5	59	38	26	35	0	1.57
550982--551016	16	2.2	16	89	0	52	40	17	14	28	1.88
552718--552757	19	2.2	19	86	4	55	12	17	5	65	1.44
555016--555066	17	3.3	15	79	15	50	62	0	11	25	1.29
556208--556256	18	2.7	18	90	3	71	28	22	22	26	1.99
562493--562549	4	14.2	4	96	0	87	19	24	0	56	1.42
563527--563559	4	8.2	4	100	0	66	75	0	0	24	0.80
575107--575144	13	2.9	13	88	7	51	10	5	0	84	0.77
576524--576548	11	2.3	11	100	0	50	28	12	32	28	1.92
578575--578607	17	1.9	17	100	0	66	30	24	21	24	1.99
580433--580516	27	2.9	29	82	10	109	32	26	15	26	1.96
581739--581769	15	2.1	15	93	0	53	45	12	0	41	1.42
583363--583404	21	1.9	21	85	9	57	35	9	26	28	1.88
584144--584184	17	2.4	18	84	12	59	34	0	9	56	1.32
586986--587034	2	24.5	2	100	0	98	0	51	0	48	1.00
590377--590402	12	2.2	12	100	0	52	46	7	7	38	1.61
600679--600729	5	10.2	5	95	0	93	39	0	0	60	0.97
601818--601851	12	2.9	12	86	4	52	29	8	2	58	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
607468--607653	41	4.5	41	84	4	205	42	27	5	23	1.77
618562--618642	40	2.0	40	97	0	153	25	16	16	41	1.88
620055--620087	15	2.1	17	88	11	52	42	0	3	54	1.15
621802--622290	167	2.9	166	92	1	827	25	24	15	33	1.95
624044--624083	18	2.3	17	95	4	71	47	0	0	52	1.00
628146--628187	22	1.9	22	90	0	66	26	11	16	45	1.82
629681--629706	9	2.9	9	100	0	52	0	0	53	46	1.00
631862--631906	12	3.6	13	80	14	51	62	4	8	24	1.43
632301--632352	2	26.0	2	100	0	104	0	50	0	50	1.00
634040--634077	15	2.5	15	91	8	60	55	2	5	36	1.37
645772--645801	1	30.0	1	100	0	60	0	0	100	0	0.00
647582--647629	3	16.0	3	95	0	87	31	0	35	33	1.58
652372--652439	31	2.2	31	100	0	136	42	8	32	16	1.79
659770--659825	2	28.0	2	100	0	112	0	50	0	50	1.00
665029--665115	42	2.1	42	93	0	147	31	16	13	39	1.87
670237--670344	40	2.5	42	82	7	121	37	12	18	32	1.88
671789--671913	59	2.1	58	95	1	223	31	9	15	44	1.78
672177--672207	13	2.4	13	100	0	62	0	0	41	58	0.98
676155--676244	45	2.0	46	95	4	166	35	6	8	48	1.61
677295--677361	33	2.0	33	91	5	109	29	16	19	34	1.94
679161--679219	2	29.5	2	96	0	109	52	0	47	0	1.00
681463--681627	21	7.9	21	85	1	215	31	30	20	16	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
687280--687629	161	2.2	158	84	8	451	38	13	17	30	1.89
687680--687972	134	2.2	135	81	6	328	28	19	23	28	1.98
712027--712056	2	15.0	2	100	0	60	0	50	0	50	1.00
714506--714728	115	1.9	116	93	2	387	31	13	25	30	1.93
723202--723244	23	1.9	23	85	4	61	0	2	20	76	0.89
723358--723408	2	25.5	2	100	0	102	50	0	49	0	1.00
724710--724745	17	2.1	17	100	0	72	25	27	19	27	1.99
727167--727216	25	2.0	25	92	0	82	28	12	4	56	1.54
747933--747958	13	2.0	13	100	0	52	46	15	0	38	1.46
753523--753643	22	5.6	22	97	2	228	42	13	12	32	1.81
759789--759847	20	3.0	20	73	11	68	47	15	10	27	1.77
760067--760105	20	1.9	21	84	5	53	25	15	17	41	1.89
769299--769350	2	26.0	2	100	0	104	50	0	50	0	1.00
770384--770436	26	2.0	26	100	0	106	28	22	3	45	1.70
778887--778916	12	2.6	12	94	5	53	60	16	6	16	1.56
795390--796179	207	3.8	205	89	3	1119	17	21	17	43	1.88
800069--800102	17	2.0	17	88	0	50	26	14	44	14	1.84
806534--806574	21	2.0	21	85	0	55	82	7	9	0	0.83
806532--806579	16	2.9	17	75	6	53	79	12	8	0	0.94
807046--807128	4	20.8	4	94	0	112	0	42	7	50	1.30
807165--807204	21	1.9	20	85	5	53	37	12	2	47	1.55
811587--811615	14	2.1	14	93	6	51	27	3	6	62	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
813242--813266	13	1.9	13	100	0	50	44	8	16	32	1.76
814169--814204	16	2.2	16	90	9	56	0	0	13	86	0.58
817732--818120	195	2.0	194	99	0	769	36	15	14	32	1.88
841379--841490	53	2.1	53	98	0	215	16	5	20	58	1.57
844333--844473	21	6.7	21	74	3	122	39	17	24	18	1.91
844349--844453	42	2.5	42	92	0	174	39	20	22	18	1.93
866676--866700	12	2.1	12	100	0	50	44	0	40	16	1.47
872681--872727	2	23.5	2	100	0	94	0	48	0	51	1.00
880985--881139	2	77.5	2	84	7	199	45	6	47	0	1.28
885507--885997	61	7.7	61	86	8	685	34	27	6	31	1.82

Tables:   1   2   3   4