genome.fa.s80.2.7.7.80.10.50.1000.3.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: Scaffold80
Parameters: 2 7 7 80 10 50 1000
Length:  1499392

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 882 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)
329801--329827	13	2.1	13	100	0	54	40	14	14	29	1.86
330369--330441	22	3.5	21	69	17	55	28	32	2	35	1.72
331798--331826	13	2.2	13	100	0	58	41	17	13	27	1.87
336353--336382	3	10.0	3	92	0	51	33	36	0	30	1.58
338061--338133	20	3.7	19	87	3	83	36	17	16	28	1.92
345874--346113	96	2.5	97	84	4	315	32	15	25	26	1.95
348056--348187	42	3.1	42	70	17	110	45	15	23	15	1.84
347969--348277	84	3.6	85	78	5	275	44	12	23	19	1.85
348059--348306	84	2.9	84	80	4	257	45	13	21	18	1.84
348409--348551	46	3.1	46	76	4	119	44	16	18	20	1.86
348583--348704	47	2.6	45	70	7	109	39	16	19	24	1.92
349296--349362	37	1.9	35	88	11	102	29	25	11	32	1.92
349841--349866	13	2.0	13	100	0	52	30	23	15	30	1.95
350022--350092	20	3.5	20	77	11	74	29	12	16	40	1.86
350132--350172	21	2.0	21	85	9	57	39	9	12	39	1.76
355391--355433	22	1.9	23	85	4	61	16	48	2	32	1.58
356269--356349	27	3.0	27	90	0	117	33	1	44	20	1.60
356341--356380	22	1.9	21	85	10	55	50	2	22	25	1.62
357084--357137	20	2.7	20	88	0	72	37	12	16	33	1.87
364921--365341	85	5.0	85	77	6	397	47	11	21	19	1.81
364921--365341	170	2.5	169	80	6	469	47	11	21	19	1.81
365185--365305	43	2.9	42	76	2	127	51	9	19	19	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
365407--365769	47	7.9	47	76	6	244	40	16	22	21	1.91
365406--365769	139	2.6	139	80	5	380	40	16	21	21	1.91
365546--365786	94	2.6	93	81	9	269	39	17	23	19	1.92
367327--367363	7	5.3	7	93	0	65	16	32	0	51	1.45
369191--369216	13	2.0	13	100	0	52	30	15	15	38	1.88
369202--369258	20	2.8	21	91	2	89	36	10	15	36	1.82
369651--369737	35	2.7	32	81	13	106	31	10	24	34	1.89
369653--369749	31	3.0	30	82	10	104	32	10	24	31	1.89
372886--372953	23	3.0	22	76	19	70	38	10	27	23	1.87
372901--372953	10	5.0	10	77	18	54	37	11	28	22	1.89
372979--373113	53	2.5	53	95	1	243	27	17	17	37	1.93
373083--373153	20	3.5	20	77	11	74	29	12	16	40	1.86
376184--376209	13	2.0	13	100	0	52	30	15	15	38	1.88
376691--376785	34	2.9	33	86	11	126	33	9	24	32	1.87
379570--379647	5	15.8	5	73	21	67	61	0	2	35	1.10
379570--379640	15	4.4	15	80	16	88	61	0	2	35	1.10
379604--379657	24	2.4	23	78	9	58	62	1	3	31	1.23
380536--380621	12	7.2	12	66	15	52	59	22	15	3	1.51
380661--380700	21	1.9	21	85	10	55	55	40	2	2	1.27
385912--385941	13	2.3	13	94	0	51	80	3	16	0	0.85
387441--387638	87	2.3	87	78	5	195	23	17	13	45	1.83
388268--388342	20	3.8	20	87	3	107	26	16	13	44	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
390690--390763	28	2.6	28	89	8	107	25	31	17	25	1.97
390682--391000	108	3.0	107	87	2	460	25	25	16	32	1.96
390910--390980	28	2.5	28	81	4	81	21	30	23	23	1.99
390644--391000	108	3.3	107	85	2	457	26	25	16	32	1.96
390967--391085	51	2.3	50	80	9	150	29	25	11	33	1.91
390939--391181	130	1.9	130	84	5	330	27	24	13	34	1.93
392320--392571	90	2.8	89	83	5	278	30	23	15	30	1.96
393406--393788	79	4.9	79	82	1	439	13	24	18	44	1.84
393314--394259	38	23.7	39	68	10	385	13	24	17	44	1.84
393309--393534	117	1.9	115	85	3	310	13	23	16	46	1.82
393406--393788	156	2.4	156	82	3	439	13	24	18	44	1.84
393309--393694	194	2.0	192	79	6	420	12	22	17	47	1.82
393798--394344	79	6.9	78	84	1	581	13	24	18	43	1.86
393798--394344	237	2.3	236	82	3	659	13	24	18	43	1.86
394769--394846	17	4.9	16	78	10	88	62	1	1	34	1.11
394762--394851	32	2.9	30	80	13	101	62	1	1	35	1.10
394761--394851	5	18.6	5	70	20	68	61	1	1	36	1.10
394761--394852	27	3.6	26	76	18	104	61	1	1	35	1.10
394761--394851	15	5.8	16	75	19	77	61	1	1	36	1.10
394802--394859	27	2.1	27	84	6	73	63	1	1	32	1.14
395772--395826	12	4.8	12	70	17	53	56	20	14	9	1.65
395736--395839	34	3.1	34	83	2	129	57	23	10	8	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
395859--395920	13	4.7	13	72	16	56	54	19	16	9	1.68
396116--396153	19	2.0	20	89	5	60	15	15	13	55	1.70
396943--396968	13	2.0	13	100	0	52	30	15	15	38	1.88
397029--397101	20	3.6	20	81	3	101	31	19	13	35	1.91
397007--397101	41	2.3	42	96	1	174	29	17	12	40	1.87
399555--399593	13	3.0	13	96	0	69	35	15	17	30	1.91
399579--399617	20	2.0	20	94	0	69	51	10	15	23	1.73
401670--401700	15	2.1	15	93	0	53	12	22	16	48	1.80
405761--405786	13	2.0	13	100	0	52	30	15	15	38	1.88
405847--405919	20	3.6	20	81	3	101	31	19	13	35	1.91
405825--405919	41	2.3	42	96	1	174	29	17	12	40	1.87
407250--407418	79	2.1	79	91	0	266	32	14	26	26	1.95
407353--407469	51	2.3	51	82	5	130	31	12	26	29	1.93
407452--407525	28	2.6	28	86	0	112	27	22	28	21	1.99
407482--407637	79	2.0	79	82	3	188	35	14	23	26	1.94
407401--407593	107	1.8	107	88	2	298	33	15	24	26	1.95
412668--420608	486	16.4	486	86	1	10619	30	10	19	39	1.85
421341--421389	13	4.2	13	70	24	54	34	18	14	32	1.91
421341--421410	33	2.1	34	89	7	108	32	20	14	32	1.92
421439--421494	19	2.9	19	89	2	76	33	16	17	32	1.92
428027--428085	13	5.0	13	73	23	58	35	18	11	33	1.88
428040--428102	20	3.5	20	72	28	77	31	20	12	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
428004--428102	33	3.0	33	92	4	155	32	20	12	35	1.89
428135--428190	19	2.9	19	89	2	76	33	19	16	30	1.94
428175--428199	13	1.9	13	100	0	50	36	16	16	32	1.90
428548--428573	13	2.0	13	100	0	52	38	15	15	30	1.88
433114--433141	3	9.3	3	100	0	56	32	35	0	32	1.58
434262--434316	20	2.7	21	88	11	87	32	21	10	34	1.89
434345--434417	20	3.7	19	82	14	78	38	17	15	28	1.90
434706--436001	486	2.7	484	89	1	1877	30	10	19	39	1.85
436020--453611	486	36.2	485	83	5	19526	30	9	19	40	1.84
441132--453611	971	12.8	971	83	4	14735	30	9	19	40	1.84
450770--450951	91	2.0	91	100	0	364	31	8	21	37	1.85
455615--455664	21	2.4	21	83	9	59	48	0	20	32	1.50
455622--455664	21	2.0	22	86	4	61	51	0	20	27	1.48
462807--462894	30	3.0	29	65	14	72	15	14	17	52	1.75
462757--463004	60	4.1	60	80	6	236	17	14	19	49	1.80
462757--463003	120	2.1	120	83	4	302	17	14	19	48	1.80
462899--463113	109	2.0	110	80	4	247	19	13	20	46	1.83
463231--463590	76	4.7	76	72	7	244	28	16	11	43	1.83
463231--463590	155	2.3	153	81	3	400	28	16	11	43	1.83
464153--464261	41	2.7	41	81	2	112	18	27	13	40	1.88
464724--465021	81	3.7	81	79	6	296	20	28	12	37	1.90
464790--464999	41	5.2	40	73	11	142	20	27	11	40	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
465327--465381	21	2.6	21	88	0	83	38	12	14	34	1.84
465469--465605	51	2.7	51	87	0	193	27	16	13	42	1.86
467358--467563	79	2.6	78	81	6	227	28	24	13	33	1.93
470652--470683	16	2.0	16	100	0	64	37	0	31	31	1.58
472219--472272	25	2.2	25	83	6	65	75	9	11	3	1.15
473940--473965	13	2.0	13	100	0	52	30	15	15	38	1.88
474664--474707	21	2.1	21	83	8	54	27	31	2	38	1.69
476326--476372	21	2.3	21	76	23	55	42	4	19	34	1.70
476493--476531	13	3.0	13	96	0	69	35	15	17	30	1.91
476517--476595	20	3.7	20	78	15	77	44	15	15	25	1.85

Tables:   1   2   3   4   5   6   7   8