genome.fa.s260.2.7.7.80.10.50.1000.3.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: Scaffold260
Parameters: 2 7 7 80 10 50 1000
Length:  1006324

Tables:   1   2   3   4   5   6   7   

This is table  3  of  7  ( 769 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)
350193--350277	30	2.9	29	86	6	118	40	7	22	30	1.80
351584--351640	16	3.8	16	75	11	59	52	0	0	47	1.00
351631--351682	22	2.4	22	87	3	70	67	0	0	32	0.91
351637--351678	18	2.4	18	77	18	52	69	0	0	30	0.89
351740--351780	12	3.2	13	83	16	59	68	0	0	31	0.90
352079--352117	19	2.1	19	85	9	53	61	0	0	38	0.96
353573--353624	26	2.0	26	85	7	70	36	3	0	59	1.16
353573--353624	25	2.0	26	82	10	63	36	3	0	59	1.16
353727--353764	2	19.0	2	100	0	76	50	0	0	50	1.00
361964--362351	187	2.1	187	94	0	677	34	14	14	36	1.87
362881--362940	9	7.2	9	83	16	85	38	0	0	61	0.96
362886--362940	16	3.4	16	97	2	101	38	0	0	61	0.96
362881--362945	25	2.7	24	86	11	80	40	0	0	60	0.97
362885--362949	8	8.1	9	71	21	56	41	0	0	58	0.98
363481--363525	16	2.8	16	83	6	56	42	4	0	53	1.21
364822--364886	22	3.1	21	74	10	53	44	1	0	53	1.09
364890--364924	17	2.1	17	89	10	54	71	0	2	25	1.00
365779--365836	29	2.0	28	83	3	71	37	0	3	58	1.15
367378--367430	24	2.3	22	83	6	70	52	0	0	47	1.00
367740--367781	18	2.2	20	91	8	70	40	0	2	57	1.12
367882--367928	23	2.1	22	84	11	60	38	2	0	59	1.09
367883--367938	26	2.2	25	81	9	60	37	1	0	60	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
368657--368701	23	2.0	22	86	4	63	44	0	0	55	0.99
368688--368778	20	4.6	19	70	26	66	49	4	0	46	1.22
368672--368757	37	2.4	33	76	16	82	47	4	0	47	1.22
369233--369298	25	2.7	24	80	13	80	65	3	0	31	1.08
369314--369348	2	17.5	2	100	0	70	48	0	0	51	1.00
369355--369451	48	2.0	48	100	0	194	27	30	20	20	1.98
378314--378370	20	2.8	21	81	2	71	42	14	15	28	1.86
378316--378390	20	3.7	20	78	3	69	40	16	12	32	1.84
379474--379515	22	2.0	22	90	4	68	40	7	11	40	1.69
380222--380355	34	3.9	34	81	2	153	35	13	23	26	1.92
380222--380380	68	2.3	69	81	7	189	33	13	23	28	1.93
381579--381617	3	13.0	3	91	0	60	28	0	2	69	1.02
390594--390619	13	2.0	13	100	0	52	30	15	15	38	1.88
390658--390733	21	3.7	21	80	3	100	28	17	11	42	1.84
390679--390751	20	3.6	20	81	3	101	31	19	13	35	1.91
390658--390751	41	2.3	41	98	0	179	29	18	12	39	1.88
391373--391433	31	2.0	31	100	0	122	44	26	3	26	1.69
393226--393263	13	2.9	13	96	0	67	31	15	18	34	1.92
395342--395372	15	2.1	15	93	0	53	12	22	16	48	1.80
399434--399459	13	2.0	13	100	0	52	30	15	15	38	1.88
399498--399573	21	3.7	21	80	3	100	28	17	11	42	1.84
399519--399591	20	3.6	20	81	3	101	31	19	13	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
399498--399591	41	2.3	41	98	0	179	29	18	12	39	1.88
401464--401537	20	3.7	20	83	1	94	41	10	14	32	1.81
402350--402414	32	2.0	32	87	6	94	27	9	15	47	1.76
404944--404981	13	2.9	13	96	0	67	31	15	18	34	1.92
406437--406512	21	3.7	21	89	7	111	35	13	15	35	1.87
406548--406615	19	3.9	19	78	21	85	35	11	14	38	1.83
406550--406612	32	2.0	32	96	0	117	34	12	15	36	1.86
406569--406593	13	1.9	13	100	0	50	36	16	16	32	1.90
406828--406880	1	53.0	1	82	0	61	90	5	3	0	0.54
406828--406880	23	2.3	23	90	0	79	90	5	3	0	0.54
407873--408935	55	19.3	55	92	3	1591	28	29	20	21	1.98
408661--408804	29	5.2	29	65	21	110	28	33	19	18	1.96
409498--409522	1	25.0	1	100	0	50	100	0	0	0	0.00
409528--409603	21	3.7	21	89	7	111	35	13	15	35	1.87
409639--409706	19	3.9	19	78	21	85	35	11	14	38	1.83
409641--409703	32	2.0	32	96	0	117	34	12	15	36	1.86
409660--409684	13	1.9	13	100	0	50	36	16	16	32	1.90
409746--409771	13	2.0	13	100	0	52	30	15	15	38	1.88
412241--412313	27	2.7	27	87	6	94	23	34	21	20	1.97
412296--412466	51	3.3	51	79	4	198	29	26	11	32	1.92
412449--412530	28	2.9	28	80	7	87	25	31	15	26	1.96
424921--424969	1	49.0	1	81	0	53	89	6	4	0	0.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
424921--424974	19	2.8	20	85	5	74	87	7	5	0	0.68
425962--427024	55	19.3	55	92	3	1591	28	29	20	21	1.98
426750--426893	29	5.2	29	65	21	110	28	33	19	18	1.96
427616--427691	21	3.7	21	89	7	111	35	13	15	35	1.87
427727--427794	19	3.9	19	78	21	85	35	11	14	38	1.83
427729--427791	32	2.0	32	96	0	117	34	12	15	36	1.86
427748--427772	13	1.9	13	100	0	50	36	16	16	32	1.90
427835--427860	13	2.0	13	100	0	52	30	15	15	38	1.88
430387--430557	51	3.3	51	78	4	189	29	25	11	33	1.91
430540--430621	28	2.9	28	80	7	87	25	31	15	26	1.96
432401--432431	15	2.1	15	93	0	53	12	22	16	48	1.80
436457--436521	32	2.0	33	90	6	105	27	10	15	46	1.79
436457--436521	19	3.6	19	69	26	61	27	10	15	46	1.79
437015--437291	79	3.5	77	81	9	308	35	11	23	29	1.90
439604--439644	12	3.5	12	86	3	57	39	14	24	21	1.91
442087--442159	27	2.6	28	86	2	94	23	32	21	21	1.98
442142--442363	52	4.3	51	82	2	246	30	26	12	31	1.92
442346--442422	28	2.8	28	85	0	100	23	32	19	24	1.97
441973--442473	263	1.9	263	89	2	774	28	26	12	31	1.93
442376--442578	79	2.6	78	82	3	228	24	28	16	30	1.97
454969--455003	13	2.8	12	87	12	52	88	8	2	0	0.61
456011--456498	55	8.9	54	84	8	537	27	28	21	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
456069--456474	212	1.9	213	85	6	570	28	28	21	21	1.99
456544--456809	117	2.3	117	97	1	498	19	26	13	40	1.89
457352--457407	21	2.7	21	97	0	103	33	10	19	35	1.87
457539--457564	13	2.0	13	100	0	52	30	15	15	38	1.88
460475--460624	79	1.9	79	87	2	221	32	14	26	26	1.95
460580--460651	28	2.6	27	89	8	101	27	19	30	22	1.98
460509--460760	107	2.3	107	84	7	305	32	12	26	28	1.93
463031--463085	20	2.8	20	88	0	74	47	10	12	29	1.76
463712--464473	61	12.4	61	85	3	933	30	18	25	25	1.98
463712--464473	123	6.2	123	86	3	941	30	18	25	25	1.98
463713--464470	306	2.5	304	87	3	1040	30	18	25	25	1.98
467896--467959	33	1.9	33	84	6	85	40	10	15	32	1.82
467993--468063	19	3.6	19	90	3	97	30	18	15	35	1.92
468810--469234	101	4.4	97	76	9	352	32	17	25	25	1.97
468906--469234	48	6.9	49	71	11	243	30	17	25	26	1.97
469251--469346	30	3.3	30	76	7	108	15	15	31	37	1.89
469327--469936	33	19.6	33	72	15	393	34	13	31	20	1.91
469367--469682	27	10.7	27	70	20	145	31	13	33	20	1.91
469380--469849	61	7.6	59	72	17	236	34	13	32	19	1.90
469955--470031	28	2.6	30	80	16	88	36	14	29	19	1.91
478251--478308	13	4.0	13	74	23	53	32	15	15	36	1.89
478265--478327	19	3.7	18	76	24	73	34	17	12	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
478252--478327	32	2.4	32	95	0	134	34	17	14	34	1.90
479268--479319	1	52.0	1	80	0	59	0	1	7	90	0.53
479266--479318	10	5.1	11	88	8	67	0	3	7	88	0.61
479254--479318	14	4.6	14	83	7	69	0	7	6	86	0.72
479254--479318	28	2.3	28	84	5	78	0	7	6	86	0.72
479268--479319	18	2.9	18	88	8	72	0	1	7	90	0.53
479271--479319	21	2.3	22	89	3	73	0	2	8	89	0.55
479270--479319	11	4.5	11	87	12	68	0	2	8	90	0.54
491678--491933	79	3.2	79	80	3	273	34	14	23	26	1.94
494275--494791	61	8.4	61	83	2	597	29	18	25	26	1.98

Tables:   1   2   3   4   5   6   7