oyster.v9_M.fa.s22.2.7.7.80.10.50.500.2.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: scaffold433
Parameters: 2 7 7 80 10 50 500
Length:  1285081

Tables:   1   2   3   4   

This is table  2  of  4  ( 437 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)
358847--358890	23	1.9	23	90	9	72	18	15	40	25	1.90
362489--362516	2	14.0	2	100	0	56	50	0	50	0	1.00
365338--365387	4	12.8	4	87	4	66	48	26	22	4	1.68
377566--377608	11	3.9	11	90	0	68	30	9	30	30	1.88
381538--381630	47	2.0	47	100	0	186	43	19	11	25	1.85
390536--390572	17	2.2	17	95	0	65	16	37	21	24	1.93
392302--392338	2	18.5	2	100	0	74	51	0	48	0	1.00
395517--395564	6	8.7	6	76	23	52	0	18	31	50	1.48
395517--395561	15	2.9	15	93	6	72	0	20	31	48	1.49
401029--401072	8	5.5	8	83	0	52	25	15	27	31	1.96
401013--401072	20	3.0	20	85	0	66	28	11	25	35	1.91
407426--407471	12	3.8	12	80	11	58	47	6	2	43	1.41
411137--411645	181	2.8	184	87	5	674	39	13	13	33	1.84
417755--417815	31	2.0	31	86	0	86	32	24	14	27	1.95
420821--420882	12	5.5	11	77	22	67	0	0	17	82	0.67
420822--420885	23	2.9	22	90	9	103	0	0	15	84	0.63
420828--420885	15	3.8	16	77	11	68	0	0	15	84	0.62
420822--420885	21	2.9	22	93	6	103	0	0	15	84	0.63
424282--424322	18	2.3	18	86	0	55	36	17	9	36	1.82
431446--431532	21	4.2	21	75	4	79	42	13	18	25	1.87
431617--431720	21	5.0	21	81	6	122	31	16	14	37	1.89
431629--431735	21	5.2	20	82	8	117	30	16	15	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
431723--431798	21	3.6	21	76	0	89	31	11	22	34	1.90
431629--431805	42	4.2	41	83	7	178	32	14	17	35	1.90
431619--431802	63	2.9	62	78	7	165	32	15	17	34	1.91
431804--432169	105	3.5	105	94	0	642	37	13	16	32	1.88
431804--432184	21	18.1	21	81	1	377	37	13	16	32	1.88
432258--432342	21	4.0	21	69	4	64	25	17	15	41	1.89
442274--442324	21	2.4	21	87	6	68	31	39	17	11	1.86
443427--443465	2	19.5	2	100	0	78	48	0	51	0	1.00
443512--443563	2	26.0	2	100	0	104	50	0	50	0	1.00
443969--444049	24	3.4	24	98	0	153	17	28	29	24	1.97
443990--444078	24	3.7	24	87	0	79	19	26	29	24	1.98
443969--444072	48	2.2	48	87	0	145	18	26	30	24	1.98
444077--444136	24	2.5	24	88	0	93	20	31	30	18	1.96
447095--447149	2	27.5	2	100	0	110	0	50	0	49	1.00
447227--447275	17	2.9	17	84	0	71	28	16	12	42	1.84
448728--448758	2	15.5	2	100	0	62	0	51	0	48	1.00
448836--448884	17	2.9	18	76	11	59	28	16	14	40	1.87
449448--449480	2	16.5	2	100	0	66	0	0	48	51	1.00
450037--450078	22	1.9	22	85	0	57	42	7	9	40	1.65
452845--452879	2	17.5	2	100	0	70	51	0	48	0	1.00
458573--458633	31	2.0	31	100	0	122	34	3	16	45	1.63
460153--460244	22	4.2	22	97	0	175	26	23	21	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
460734--460794	28	2.2	28	93	0	104	39	9	19	31	1.84
463416--464051	29	21.5	29	81	7	629	27	15	30	26	1.96
463416--464033	117	5.2	116	82	6	679	27	15	30	26	1.96
470031--470069	2	19.5	2	100	0	78	0	48	0	51	1.00
470069--470107	2	19.5	2	100	0	78	0	0	48	51	1.00
471188--471254	8	8.9	8	76	15	54	31	14	43	10	1.80
471190--471255	22	3.0	21	82	8	78	31	15	43	9	1.77
471188--471269	30	2.7	30	83	10	89	30	15	43	9	1.79
471220--471269	14	3.4	14	76	10	55	30	18	46	6	1.73
471250--471312	21	3.0	21	79	4	63	26	19	42	11	1.84
472194--472240	2	23.5	2	100	0	94	48	0	51	0	1.00
472462--472496	18	1.9	18	94	0	61	57	11	20	11	1.64
472503--472550	2	24.0	2	100	0	96	0	50	0	50	1.00
478042--478080	17	2.3	17	86	0	51	41	15	17	25	1.89
487472--488233	64	11.9	64	96	0	1362	33	18	23	24	1.96
488825--488866	18	2.3	18	87	0	57	38	11	14	35	1.83
489743--490276	64	8.3	64	93	0	915	33	16	24	25	1.96
491949--492110	53	3.1	53	89	1	182	30	25	27	16	1.97
497471--497516	14	3.3	14	84	0	56	28	8	10	52	1.66
498431--498464	2	17.0	2	100	0	68	50	0	50	0	1.00
503904--504451	148	3.7	148	94	1	944	22	30	26	20	1.98
504294--504694	200	2.0	200	100	0	802	22	32	27	17	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
504644--505184	145	3.7	145	93	1	897	23	31	25	19	1.98
504494--505184	289	2.4	279	91	3	1107	23	31	26	19	1.98
508125--508190	22	3.0	21	80	8	69	30	15	45	9	1.77
508125--508204	30	2.7	30	86	11	94	30	16	45	8	1.77
508177--508246	22	3.2	22	81	4	88	28	18	44	8	1.79
508262--508323	22	2.8	22	97	0	115	11	46	17	24	1.81
515502--515530	14	2.1	14	100	0	58	55	20	6	17	1.65
516677--516953	155	1.8	152	85	2	392	27	15	23	33	1.95
517215--517614	200	2.0	200	100	0	800	34	13	25	27	1.93
523000--523035	12	3.0	12	83	0	54	44	19	36	0	1.51
524923--524962	12	3.5	12	86	6	57	0	37	17	45	1.49
526470--526504	17	2.1	17	94	0	61	25	5	17	51	1.67
526531--526597	30	2.2	30	100	0	134	38	2	16	41	1.64
526487--526640	83	1.9	82	83	1	200	37	12	12	37	1.83
527866--527897	4	8.0	4	100	0	64	75	0	25	0	0.81
533450--533499	12	4.0	13	80	14	52	0	0	22	78	0.76
533446--533505	23	2.8	21	76	16	61	0	0	23	76	0.78
533451--533501	20	2.6	19	87	9	75	0	0	19	80	0.71
533451--533505	17	3.6	16	80	14	62	0	0	20	80	0.72
546160--546193	2	17.0	2	100	0	68	0	50	0	50	1.00
550656--550744	46	1.9	46	100	0	178	44	16	8	29	1.78
551207--551252	2	23.5	2	95	4	85	47	0	52	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
556038--556258	108	2.0	108	98	0	424	37	20	11	31	1.88
560005--560048	2	22.0	2	100	0	88	0	50	0	50	1.00
562556--562611	26	2.2	26	100	0	112	26	23	19	30	1.98
564065--564095	16	1.9	16	100	0	62	0	32	25	41	1.56
569752--570117	182	2.0	180	98	1	714	32	18	17	30	1.94
574189--574220	1	32.0	1	100	0	64	100	0	0	0	0.00
585453--585914	166	2.8	165	87	3	640	29	17	14	39	1.89
587271--587355	31	2.6	31	83	5	89	37	7	37	17	1.77
598902--598959	21	2.8	21	89	2	91	50	5	8	36	1.56
598886--598912	2	13.5	2	100	0	54	51	0	0	48	1.00
598879--598959	41	2.0	41	85	0	108	53	3	6	37	1.44
603184--603330	79	1.9	80	80	7	174	23	19	17	40	1.91
606326--606364	20	1.9	20	94	0	69	43	0	12	43	1.42
606334--606378	20	2.3	20	84	3	56	51	2	8	37	1.46
606930--606960	15	2.1	15	93	0	53	16	3	25	54	1.56
611153--611376	57	3.9	57	94	0	376	27	16	14	41	1.87
611153--611415	114	2.3	113	87	6	336	26	16	15	40	1.89
611758--611899	28	5.1	28	91	0	230	45	18	11	25	1.82
614900--616084	38	30.7	38	96	0	2028	37	18	22	21	1.94
618776--618806	12	2.6	12	94	0	53	3	22	29	45	1.68
619500--619543	20	2.2	20	87	0	61	31	20	18	29	1.96
626397--628878	27	92.6	27	92	1	3875	37	11	11	39	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
626397--628878	107	23.1	107	91	1	3658	37	11	11	39	1.77
626397--628878	134	18.5	134	92	1	3732	37	11	11	39	1.77
629286--629315	1	30.0	1	93	0	51	96	0	3	0	0.21
664886--664911	12	2.2	12	100	0	52	46	7	38	7	1.61
671763--671881	39	3.1	39	100	0	238	27	22	13	36	1.92
673209--673234	9	2.9	9	100	0	52	46	19	11	23	1.82
673534--673587	28	2.0	27	96	3	99	50	22	3	24	1.65
678236--678394	76	2.1	76	94	2	275	36	8	13	40	1.76
679221--679260	19	2.1	19	95	0	71	15	30	10	45	1.78
681889--682676	27	27.3	27	84	8	625	35	9	24	29	1.88

Tables:   1   2   3   4