genome.fa.s502.2.7.7.80.10.50.1000.3.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

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: Scaffold502
Parameters: 2 7 7 80 10 50 1000
Length:  762056

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 619 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)
376370--376451	16	4.9	16	69	16	51	42	1	0	56	1.07
378316--378361	24	1.9	24	86	0	65	45	2	0	52	1.13
378922--379002	23	3.4	23	76	8	81	55	0	2	41	1.13
379174--379224	26	2.1	25	85	10	70	50	0	0	49	1.00
379692--379724	15	2.2	15	100	0	66	39	27	33	0	1.57
380314--380364	21	2.4	22	81	15	63	54	1	0	43	1.11
383083--383139	29	2.0	29	100	0	114	21	19	28	31	1.97
384664--384689	3	8.7	3	100	0	52	69	0	0	30	0.89
385087--385129	16	2.6	16	85	3	59	39	2	0	58	1.11
389494--389544	15	3.4	16	84	13	63	43	1	0	54	1.11
389504--389550	15	3.1	16	78	6	53	44	0	0	55	0.99
389507--389550	22	2.0	22	82	8	54	45	0	0	54	0.99
389852--389877	2	13.0	2	100	0	52	50	0	50	0	1.00
390591--390649	14	4.1	15	78	8	59	59	0	0	40	0.97
390591--390737	25	6.0	25	71	18	105	57	1	0	40	1.07
392914--392979	31	2.1	31	91	0	105	40	16	9	33	1.80
396533--396574	21	2.1	21	91	8	70	35	4	0	59	1.19
396528--396593	19	3.0	20	77	20	62	39	3	0	57	1.14
396619--396662	23	2.0	21	86	8	61	56	0	0	43	0.99
397087--397122	18	2.0	17	89	10	54	44	2	0	52	1.15
397123--397166	18	2.7	16	77	16	54	59	0	0	40	0.98
397364--397402	20	2.0	20	85	10	53	48	2	2	46	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
397399--397437	11	3.5	11	82	6	51	64	0	0	35	0.94
400061--400113	15	3.6	14	75	7	52	64	0	3	32	1.12
400057--400117	29	2.1	29	93	0	104	67	0	3	29	1.07
400840--400905	29	2.3	29	87	10	91	45	1	1	51	1.19
400918--400966	17	2.9	18	82	11	59	55	0	0	44	0.99
400932--400972	22	1.9	21	85	5	55	56	0	0	43	0.99
401179--401220	21	2.1	19	86	13	57	59	0	0	40	0.97
401248--401279	16	2.1	15	94	5	55	56	0	0	43	0.99
401607--401660	23	2.4	22	78	9	63	50	0	3	46	1.19
407623--407654	12	2.7	12	95	0	55	18	37	25	18	1.94
407656--407701	12	3.6	12	78	16	56	43	4	13	39	1.63
414146--414181	2	18.0	2	100	0	72	50	0	0	50	1.00
419287--419347	26	2.3	26	78	13	63	54	3	9	32	1.50
419344--419425	31	2.8	27	76	20	76	53	1	2	42	1.21
420585--420721	68	2.0	68	83	4	170	32	8	7	52	1.58
421357--421403	25	1.9	24	82	4	58	46	2	2	48	1.25
423536--423590	16	3.4	16	74	16	51	49	0	1	49	1.11
424243--424292	21	2.4	21	81	15	59	38	0	2	60	1.09
424437--424487	16	3.2	16	75	10	59	50	0	0	49	1.00
424809--424850	3	14.0	3	100	0	84	66	0	0	33	0.92
429901--429943	2	21.5	2	95	0	77	46	0	0	53	1.00
431059--431137	39	2.0	39	100	0	158	21	43	0	35	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
433525--433554	2	15.0	2	100	0	60	50	0	0	50	1.00
435442--435479	14	2.8	14	88	4	51	36	5	5	52	1.47
436952--437003	15	3.4	14	75	19	50	38	0	3	57	1.17
437195--437245	20	2.6	21	76	14	56	41	1	0	56	1.10
438019--438070	22	2.3	22	80	3	59	57	0	0	42	0.98
438036--438077	22	1.9	22	85	0	57	47	0	2	50	1.14
438518--438673	16	9.7	16	72	8	111	37	0	5	57	1.23
438597--438635	19	2.0	20	90	5	62	35	0	2	61	1.10
438726--438802	39	2.0	38	84	2	100	38	1	9	50	1.42
438797--438825	14	2.0	15	93	6	51	41	0	3	55	1.17
440313--440374	32	1.9	32	83	0	79	33	1	1	62	1.14
441502--441532	13	2.4	13	94	0	53	6	32	3	58	1.40
441528--441563	3	12.3	3	88	5	56	2	33	0	63	1.08
441742--441778	3	12.7	3	94	5	67	32	0	0	67	0.91
441990--442066	26	3.0	26	77	9	70	38	3	3	53	1.38
443007--443067	27	2.2	27	88	8	88	62	0	1	36	1.05
443055--443113	14	3.9	14	75	16	55	49	1	1	47	1.21
443358--443453	8	11.5	8	70	25	58	57	2	1	39	1.17
443359--443434	26	3.0	25	73	24	70	56	2	0	40	1.13
443366--443460	16	6.2	16	69	27	64	55	2	1	41	1.18
443703--443740	18	2.1	18	85	9	51	60	0	2	36	1.11
444372--444412	21	1.9	21	85	14	57	70	2	0	26	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
444666--444769	22	4.7	22	68	17	65	39	0	1	58	1.09
444666--444735	20	3.4	20	70	18	54	44	0	2	52	1.15
445331--445364	17	2.0	18	88	11	54	61	0	0	38	0.96
445990--446105	16	7.4	16	75	10	78	50	10	10	28	1.69
445980--446046	32	2.1	32	94	0	116	46	14	13	25	1.82
447336--447370	16	2.2	16	90	5	54	51	0	0	48	1.00
447340--447428	37	2.3	38	81	14	112	52	5	1	40	1.32
448642--448683	19	2.2	20	82	4	50	50	0	4	45	1.23
452511--452545	2	17.5	2	100	0	70	51	0	0	48	1.00
452890--452922	2	16.5	2	93	0	57	48	0	3	48	1.17
454190--454242	11	5.0	11	79	6	56	41	0	1	56	1.10
455156--455180	10	2.5	10	100	0	50	92	0	8	0	0.40
455455--455527	25	3.1	23	77	22	64	49	0	2	47	1.15
455474--455536	25	2.5	26	76	23	71	47	0	3	49	1.17
455575--455669	28	3.5	28	64	17	65	47	0	2	50	1.13
455842--455885	2	22.0	2	100	0	88	50	0	0	50	1.00
456245--456299	10	5.5	10	75	0	56	43	3	1	50	1.30
456983--457020	3	12.7	3	100	0	76	68	0	0	31	0.90
460949--460973	7	3.6	7	100	0	50	76	0	0	24	0.80
461516--461557	12	3.1	14	74	19	52	50	0	0	50	1.00
461734--461764	5	6.2	5	96	0	53	58	0	0	41	0.98
462001--462083	41	2.1	38	86	6	112	34	1	1	62	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
461998--462083	38	2.2	37	83	12	100	36	1	1	61	1.11
462521--462548	2	14.0	2	100	0	56	50	0	0	50	1.00
465110--465148	2	19.5	2	100	0	78	48	0	0	51	1.00
466524--466621	33	2.8	34	75	14	101	54	2	0	43	1.12
466525--466623	35	2.9	32	75	19	85	53	2	0	44	1.12
466830--466874	23	2.0	23	87	8	67	60	0	0	40	0.97
467105--467162	17	3.5	17	74	11	66	44	1	0	53	1.10
467113--467168	15	3.6	15	72	13	51	44	1	0	53	1.11
467108--467181	32	2.3	32	95	4	132	48	1	0	50	1.09
467594--467636	20	2.1	20	83	12	52	53	0	0	46	1.00
467928--467996	22	2.9	23	78	10	68	57	1	0	40	1.07
468250--468332	30	2.6	31	79	20	93	55	0	0	44	0.99
468219--468392	8	21.0	8	66	21	56	56	1	1	40	1.17
469025--469055	16	1.9	16	93	0	53	32	6	6	54	1.51
469141--469205	5	13.2	5	84	12	66	58	0	0	41	0.98
469141--469205	6	11.0	6	77	19	50	58	0	0	41	0.98
469461--469485	8	3.1	8	100	0	50	88	0	0	12	0.53
469906--469947	11	3.9	11	81	3	50	45	2	2	50	1.27
470360--470387	2	14.0	2	100	0	56	0	50	0	50	1.00
479324--479372	15	3.1	15	80	11	53	61	0	0	38	0.96
479322--479372	17	3.2	16	78	8	50	60	0	0	39	0.97
489772--489819	17	2.8	17	78	12	62	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
489750--489893	29	5.1	28	67	17	77	54	0	1	43	1.08
489768--489971	34	6.0	34	76	13	143	55	0	0	43	1.10
489832--489917	15	5.3	15	69	24	50	56	0	0	43	0.99
489867--489976	38	3.0	37	81	11	129	56	0	0	42	1.05
490986--491044	26	2.5	22	79	15	73	35	1	0	62	1.05
490996--491044	25	1.9	26	91	4	82	34	2	0	63	1.06
492508--492557	20	2.5	20	81	9	59	46	0	0	54	1.00
492751--492792	18	2.5	17	88	7	59	47	2	0	50	1.14
492770--492794	13	1.9	13	100	0	50	48	0	0	52	1.00
492738--492792	18	3.3	16	78	14	58	45	1	0	52	1.11

Tables:   1   2   3   4   5   6