oyster.v9_M.fa.s55.2.7.7.80.10.50.500.2.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: scaffold1267
Parameters: 2 7 7 80 10 50 500
Length:  1050379

Tables:   1   2   3   4   

This is table  2  of  4  ( 449 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)
438793--438872	8	9.0	10	85	11	81	86	13	0	0	0.58
438794--438874	1	81.0	1	77	0	72	87	12	0	0	0.54
438893--438926	1	34.0	1	100	0	68	100	0	0	0	0.00
447954--448029	24	3.2	23	75	7	62	34	13	10	42	1.78
447954--448029	12	6.3	12	67	0	53	34	13	10	42	1.78
448698--448734	11	3.4	11	84	0	56	27	18	0	54	1.44
449272--449338	32	2.1	32	88	5	100	47	5	10	35	1.62
451573--451612	11	3.7	11	86	3	55	35	10	30	25	1.88
451682--451732	11	4.7	11	92	2	77	27	27	9	35	1.88
451725--451782	22	2.6	22	76	10	64	17	25	15	41	1.89
452116--452161	2	23.0	2	95	0	83	2	47	0	50	1.13
452376--452598	112	2.0	112	94	0	392	33	18	18	29	1.95
453622--453673	11	4.7	11	90	0	86	28	9	34	26	1.88
453777--453808	11	2.9	11	95	0	55	34	9	28	28	1.88
453814--453852	11	3.6	11	82	6	53	30	23	7	38	1.83
464053--465304	440	2.8	441	92	0	2062	36	16	14	33	1.88
470737--470771	13	2.8	12	83	8	52	0	0	40	60	0.97
470878--470930	2	26.5	2	100	0	106	50	0	49	0	1.00
474425--474500	30	2.5	30	89	0	116	27	25	23	23	2.00
480848--480878	16	1.9	16	93	0	53	35	25	38	0	1.56
482231--482265	2	17.5	2	100	0	70	0	51	0	48	1.00
484096--484204	34	3.4	32	77	12	107	42	20	11	25	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
484096--484204	31	3.4	31	75	12	103	42	20	11	25	1.86
488116--489108	437	2.3	436	83	4	1072	32	17	14	36	1.90
489492--489604	56	2.0	56	94	0	199	45	17	22	15	1.85
489857--489976	62	1.9	62	93	3	206	47	14	20	18	1.82
490207--491238	357	2.9	354	91	3	1719	33	21	13	31	1.93
499523--499555	12	2.6	13	90	4	50	51	6	18	24	1.68
508695--508840	21	7.0	21	75	1	114	26	15	19	37	1.92
522149--522174	2	13.0	2	100	0	52	50	0	0	50	1.00
522402--522493	21	4.4	21	84	5	123	27	16	11	44	1.82
522412--522491	42	1.9	42	94	0	142	28	13	11	46	1.78
526404--526571	79	2.2	74	82	10	191	44	9	6	39	1.63
530681--530830	44	3.4	44	99	0	291	38	12	15	34	1.84
530700--530813	22	5.2	22	64	16	74	34	11	15	38	1.84
530720--530834	22	5.2	22	64	15	76	37	10	16	35	1.83
532127--532362	65	3.6	65	93	2	402	47	21	17	13	1.83
532318--532405	43	2.0	43	93	0	149	47	18	20	13	1.82
532253--532470	108	2.0	108	88	1	321	47	18	19	14	1.83
532361--532633	65	4.2	65	85	0	357	48	20	16	14	1.81
532192--532536	173	2.0	173	89	1	530	48	19	18	13	1.81
532127--532600	238	2.0	237	88	1	707	47	20	17	13	1.82
538065--538093	1	29.0	1	100	0	58	100	0	0	0	0.00
538542--538618	12	6.6	12	85	11	58	33	25	7	32	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
538438--538732	76	4.0	77	77	16	356	33	24	11	30	1.90
538614--538663	7	7.7	7	74	17	54	42	26	12	20	1.86
538609--538663	19	2.9	19	100	0	110	41	25	10	21	1.86
538685--538856	12	14.6	12	70	21	66	34	25	10	30	1.89
538594--538887	107	2.7	108	93	5	484	36	24	10	28	1.89
538838--538935	7	15.4	7	70	19	81	41	20	10	27	1.84
538806--538933	19	6.9	19	94	3	183	39	21	10	28	1.86
538802--538936	12	11.1	12	72	19	70	39	21	9	29	1.85
539243--539284	12	3.5	12	96	0	75	54	7	7	30	1.54
539420--539466	16	2.9	16	90	0	76	29	8	29	31	1.87
539444--539485	16	2.6	16	88	0	57	30	19	23	26	1.98
543181--543490	34	9.1	34	98	0	575	38	9	22	29	1.86
544111--544151	18	2.3	18	100	0	82	14	34	19	31	1.92
544725--545403	78	8.7	78	93	0	1061	30	22	15	31	1.95
545620--545646	7	3.9	7	100	0	54	11	0	0	88	0.50
545616--545648	16	2.1	16	88	11	50	12	0	0	87	0.53
545680--545867	31	6.1	31	98	0	367	34	19	6	39	1.78
545685--545859	10	16.9	10	67	21	53	35	18	6	39	1.76
546589--546649	2	30.5	2	100	0	122	0	49	0	50	1.00
546647--546688	3	14.0	3	100	0	84	0	33	0	66	0.92
548461--548510	2	25.0	2	100	0	100	0	50	0	50	1.00
548626--548685	30	1.9	31	90	6	95	36	3	10	50	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
549847--549877	16	1.9	16	93	0	53	22	22	12	41	1.88
550146--550196	17	3.1	16	80	11	59	31	17	7	43	1.78
550993--551030	15	2.7	14	88	8	51	63	7	5	23	1.42
552032--553387	70	20.1	70	84	9	1796	29	25	18	26	1.98
552032--553387	140	10.0	140	91	5	2117	29	25	18	26	1.98
552032--553387	210	6.7	209	89	7	2118	29	25	18	26	1.98
552930--553044	56	2.1	55	96	1	212	26	26	20	26	1.99
552732--553377	125	5.0	126	85	10	880	28	25	18	27	1.98
553055--553169	56	2.1	55	96	1	212	26	27	19	26	1.99
553111--553387	69	4.0	70	98	0	513	28	25	18	27	1.98
559378--559613	21	10.9	22	73	11	141	13	18	8	60	1.57
559400--559596	87	2.3	87	97	1	371	12	17	7	62	1.51
559376--559614	43	5.5	43	73	5	205	13	18	7	60	1.57
559726--559863	32	4.1	32	77	17	154	35	32	3	28	1.75
559795--559916	51	2.4	51	92	0	199	34	31	4	30	1.76
559744--559884	70	2.0	70	98	0	273	36	33	4	26	1.76
559779--559884	19	5.9	19	78	20	129	35	33	4	26	1.77
559865--559926	32	1.9	32	93	0	106	30	30	3	35	1.74
560175--560741	32	17.6	32	88	1	819	29	33	3	33	1.74
572948--572973	12	2.2	12	100	0	52	53	7	0	38	1.30
583045--583111	7	9.6	7	80	0	80	28	22	13	35	1.92
583045--583111	21	3.2	21	84	0	89	28	22	13	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
583554--583684	22	6.0	22	97	0	244	27	13	19	39	1.89
586009--586075	29	2.4	28	87	7	109	13	17	7	61	1.55
587150--587729	116	5.0	116	93	2	968	44	23	13	17	1.84
587150--587729	235	2.5	232	93	2	986	44	23	13	17	1.84
587650--587796	72	2.0	72	89	2	224	42	22	14	20	1.89
587990--588072	13	6.4	13	73	5	60	48	16	10	24	1.78
588178--588202	13	1.9	13	100	0	50	48	20	8	24	1.76
588334--589412	59	18.3	59	95	0	1865	25	27	18	27	1.98
589623--590846	32	38.3	31	89	4	150	32	10	23	33	1.89
589623--589773	63	2.4	64	82	5	164	34	15	17	32	1.91
589639--589904	95	2.8	94	77	11	249	31	14	19	33	1.92
589842--590857	32	31.8	32	95	0	1775	32	10	24	33	1.88
594887--594965	21	3.8	21	81	0	86	41	15	10	32	1.80
594887--595034	21	6.8	21	73	10	82	41	12	12	34	1.80
594943--595066	48	2.6	47	79	14	128	39	9	12	37	1.77
594982--595063	27	3.3	27	66	22	70	41	9	12	36	1.76
595008--595252	82	2.9	82	92	3	391	40	15	11	32	1.83
595172--595292	27	4.7	24	71	23	95	38	14	12	34	1.84
595193--595303	51	2.2	51	95	0	195	38	15	12	33	1.85
595096--595387	138	2.2	133	91	3	467	39	16	11	32	1.84
595220--595308	24	3.6	24	72	19	83	39	17	11	31	1.85
594974--595467	220	2.3	216	88	3	710	40	15	11	32	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
595234--595582	82	4.3	82	88	1	511	41	16	10	31	1.82
595367--595584	31	7.7	31	65	24	99	42	16	9	32	1.80
595096--595420	138	2.4	132	88	4	389	40	16	10	32	1.83
595470--595551	24	3.3	24	70	14	76	41	15	10	31	1.82
596391--596964	51	11.3	50	88	6	755	38	18	16	25	1.92
596430--596964	102	5.2	102	94	1	878	39	18	16	25	1.91
596434--596964	203	2.6	204	92	2	870	38	18	16	25	1.91
596802--596936	27	5.2	27	60	22	74	38	17	16	28	1.91
596430--596966	152	3.5	147	92	2	664	39	18	16	26	1.91
597804--597835	10	3.2	10	90	0	55	46	0	12	40	1.42

Tables:   1   2   3   4