genome.fa.s629.2.7.7.80.10.50.1000.4.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: Scaffold629
Parameters: 2 7 7 80 10 50 1000
Length:  578285

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 488 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)
419683--419926	44	5.6	43	77	10	235	40	14	22	21	1.90
419654--419925	88	3.1	88	83	3	368	40	14	23	20	1.90
419944--420196	48	5.3	47	80	6	267	41	16	20	20	1.90
421761--421832	28	2.6	28	86	0	90	25	19	33	22	1.97
421820--422157	52	6.4	50	70	15	166	31	12	26	29	1.93
421975--422047	27	2.7	27	84	2	83	24	20	31	23	1.98
421769--422159	212	1.8	212	89	3	617	31	13	26	28	1.94
422036--422154	51	2.3	53	85	7	154	33	11	22	31	1.90
424472--424497	13	2.0	13	100	0	52	38	15	15	30	1.88
424451--424517	33	2.0	33	88	0	98	43	16	14	25	1.86
424537--424604	19	3.9	18	76	23	83	38	14	11	35	1.83
424559--424583	13	1.9	13	100	0	50	32	16	16	36	1.90
424540--424602	32	2.0	32	96	0	117	36	15	12	34	1.86
424660--424716	21	2.7	21	97	0	105	36	19	10	33	1.86
428344--428446	43	2.4	43	96	0	197	28	18	24	29	1.98
428431--428487	20	2.9	19	87	10	80	35	15	15	33	1.90
429527--429629	19	5.7	19	85	14	146	33	11	18	36	1.87
429586--429610	13	1.9	13	100	0	50	36	16	16	32	1.90
429528--429634	32	3.1	32	89	9	142	33	11	18	36	1.87
429672--429696	13	1.9	13	100	0	50	32	16	16	36	1.90
429705--429833	52	2.5	52	96	0	240	35	18	17	27	1.94
440776--440800	13	1.9	13	100	0	50	32	16	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
440756--440818	33	1.9	33	87	12	94	30	17	15	36	1.91
440878--440936	28	2.1	28	100	0	118	47	13	18	20	1.82
443294--443820	156	3.4	156	75	7	405	39	20	16	23	1.92
444093--444509	167	2.5	164	85	4	525	40	12	11	35	1.79
446988--447016	10	2.7	11	94	5	51	51	0	13	34	1.42
448773--448860	45	2.0	45	97	0	167	35	15	22	26	1.94
448986--449544	28	19.6	28	84	5	600	22	17	30	29	1.97
450793--450846	13	4.3	12	84	11	56	1	3	7	87	0.74
450804--450846	20	2.2	20	87	8	61	2	4	4	88	0.70
450806--450848	11	4.1	10	82	17	52	2	4	6	86	0.79
454229--454254	13	2.0	13	100	0	52	30	15	15	38	1.88
454315--454387	20	3.6	20	81	3	101	31	19	13	35	1.91
454293--454387	41	2.3	42	96	1	174	29	17	12	40	1.87
454994--455039	16	2.8	16	93	6	74	30	39	2	28	1.69
456845--456883	13	3.0	13	96	0	69	35	15	17	30	1.91
456869--456947	20	3.7	20	70	20	70	45	16	12	25	1.82
458965--459002	15	2.5	15	91	0	58	13	21	15	50	1.78
463064--463089	13	2.0	13	100	0	52	30	15	15	38	1.88
463150--463222	20	3.6	20	81	3	101	31	19	13	35	1.91
463128--463222	41	2.3	42	96	1	174	29	17	12	40	1.87
474084--474264	52	3.5	52	97	0	335	27	18	18	35	1.94
474340--474437	19	5.8	18	69	28	81	37	17	12	32	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
474335--474435	32	3.1	32	94	1	175	36	17	11	33	1.87
474359--474415	13	3.9	13	72	24	51	35	17	14	33	1.90
475043--475380	48	6.9	48	78	4	336	32	18	25	23	1.97
475400--475551	28	5.3	28	85	5	182	18	15	28	36	1.92
475426--475770	30	11.6	30	80	6	235	24	15	29	29	1.96
475400--475556	84	1.8	84	82	10	203	20	15	28	35	1.93
475542--475616	35	2.2	35	87	2	116	34	10	33	21	1.88
475601--475772	86	2.0	87	89	1	265	22	17	31	27	1.96
486943--486997	20	2.8	20	88	5	76	29	12	16	41	1.85
487591--487634	21	2.1	21	83	8	54	25	31	4	38	1.76
489428--489466	13	3.0	13	96	0	69	43	15	10	30	1.80
493380--493424	21	2.1	21	88	8	65	22	17	4	55	1.60
500143--500190	21	2.3	20	82	6	60	43	16	16	22	1.87
501029--501230	104	1.9	104	91	2	334	28	16	18	35	1.93
501029--501209	52	3.5	52	97	0	335	27	17	18	36	1.93
501272--501369	19	5.8	18	71	28	90	36	17	12	33	1.87
501267--501367	32	3.1	32	97	1	184	35	17	11	34	1.87
501291--501347	13	3.9	13	76	24	60	33	17	14	35	1.90
501405--501446	21	2.0	21	90	0	66	35	14	14	35	1.86
503755--503783	10	2.7	11	94	5	51	51	0	13	34	1.42
505474--505620	20	6.8	20	69	15	78	42	13	12	31	1.81
506600--507207	165	3.7	162	81	6	670	51	8	9	30	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
506605--507205	327	1.8	327	83	4	793	51	7	9	30	1.63
506606--507280	165	4.1	162	78	11	629	51	8	9	30	1.64
513387--513440	20	2.7	20	82	2	63	40	11	12	35	1.79
513406--513455	20	2.4	21	83	9	59	36	12	18	34	1.87
518834--518876	14	2.9	15	83	16	54	53	4	0	41	1.21
521136--521195	21	2.9	21	87	5	68	15	20	15	50	1.79
521143--521195	21	2.5	21	90	3	79	13	18	16	50	1.77
522067--522133	37	1.9	35	88	11	102	29	25	11	32	1.92
522612--522637	13	2.0	13	100	0	52	30	23	15	30	1.95
522720--522775	21	2.6	22	94	5	105	37	10	25	26	1.88
522763--522793	10	3.1	10	90	0	53	41	6	29	22	1.78
522870--522940	20	3.5	20	77	11	74	29	12	16	40	1.86
522980--523020	21	2.0	21	85	9	57	39	9	12	39	1.76
525246--525273	2	14.0	2	100	0	56	50	0	0	50	1.00
527090--527137	17	2.7	18	78	12	55	39	2	8	50	1.44
528146--528194	2	24.5	2	100	0	98	48	0	0	51	1.00
529918--529944	13	2.1	13	100	0	54	44	0	0	55	0.99
530663--530700	11	3.5	11	79	13	51	50	5	5	39	1.48
532937--532961	13	1.9	13	100	0	50	40	0	12	48	1.40
533031--533076	22	2.2	22	84	7	60	41	6	2	50	1.40
537379--537405	13	2.1	13	100	0	54	29	14	14	40	1.86
537451--537482	13	2.5	13	94	0	55	34	15	12	37	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
540420--540537	51	2.3	51	85	5	166	31	11	27	29	1.92
540524--540594	28	2.6	27	82	15	83	25	18	28	28	1.98
540578--540695	51	2.3	51	76	7	139	29	12	27	30	1.93
540664--540850	79	2.4	76	88	4	259	33	13	24	28	1.93
540793--540965	51	3.4	49	78	6	161	35	12	24	27	1.92
543276--543338	33	1.9	32	84	12	83	46	14	11	28	1.78
543252--543338	20	4.8	18	72	23	67	44	12	12	29	1.79
543377--543444	20	3.8	20	74	25	87	38	11	14	35	1.83
543396--543422	13	2.1	13	100	0	54	40	14	14	29	1.86
543377--543442	33	2.0	33	100	0	132	39	12	15	33	1.84
544157--544257	42	2.5	40	81	10	114	44	10	26	17	1.82
544273--544371	42	2.4	41	81	10	103	42	13	24	20	1.87
544471--544936	55	8.3	55	81	7	485	24	19	26	29	1.99
544349--544936	171	3.4	163	81	9	622	25	19	26	28	1.99
544349--544910	226	2.4	225	83	5	673	25	20	26	27	1.99
546012--546083	1	72.0	1	71	0	54	1	2	9	86	0.74
546012--546088	26	2.9	25	76	14	75	1	3	10	84	0.81
546009--546088	19	4.4	18	79	16	76	1	5	10	83	0.84
546012--546087	31	2.5	31	79	14	93	1	3	9	85	0.78
558685--558890	106	2.0	104	83	3	261	33	15	25	26	1.95
558795--558938	78	1.8	78	83	2	191	34	15	24	26	1.95
565703--565795	41	2.3	40	86	3	132	38	1	32	27	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
565703--565776	22	3.5	22	72	10	82	39	0	33	27	1.57
566408--566471	33	1.9	32	87	12	94	37	10	18	32	1.86
567750--567777	11	2.5	11	100	0	56	67	0	0	32	0.91
568522--568592	20	3.6	19	77	7	70	40	16	12	29	1.86
568562--568698	53	2.6	53	96	1	247	37	18	17	27	1.93
568722--568752	10	3.1	10	90	0	53	22	29	6	41	1.78
568731--568809	23	3.5	22	77	18	65	26	26	8	37	1.86
569347--569413	37	1.9	35	88	11	102	32	11	25	29	1.92
571306--571344	13	3.0	13	84	0	60	38	17	12	30	1.88
571423--571453	10	3.1	10	90	0	53	41	6	29	22	1.78

Tables:   1   2   3   4   5