genome.fa.s363.2.7.7.80.10.50.1000.3.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: Scaffold363
Parameters: 2 7 7 80 10 50 1000
Length:  552799

Tables:   1   2   3   4   

This is table  3  of  4  ( 366 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)
415866--415913	15	3.3	15	83	13	64	56	0	0	43	0.99
415866--415913	14	3.3	14	82	8	60	56	0	0	43	0.99
416467--416502	18	1.9	19	88	5	56	58	0	0	41	0.98
423120--423167	17	2.9	16	75	9	51	50	0	2	47	1.12
425273--425298	2	13.0	2	100	0	52	50	0	0	50	1.00
427694--427724	2	15.5	2	100	0	62	51	0	0	48	1.00
427814--427873	26	2.2	25	83	16	68	53	0	0	46	1.00
427814--427881	25	2.7	25	81	9	66	52	1	0	45	1.09
430297--430343	18	2.5	20	89	6	71	38	0	0	61	0.96
430297--430333	17	2.1	18	90	5	58	40	0	0	59	0.97
430336--430372	16	2.2	17	90	4	58	48	0	0	51	1.00
431442--431488	13	4.0	11	84	13	51	40	4	0	55	1.19
431459--431494	17	2.2	16	90	5	54	47	0	0	52	1.00
431960--432005	2	23.5	2	95	4	85	50	0	0	50	1.00
432117--432178	16	3.9	15	78	14	70	56	0	0	43	0.99
432112--432178	33	2.0	35	91	5	111	58	0	0	41	0.98
432207--432270	31	2.1	30	83	11	78	37	1	1	59	1.16
432513--432569	20	3.0	20	80	14	59	50	0	0	49	1.00
432655--432698	15	2.8	16	83	10	56	45	4	0	50	1.22
433163--433192	2	15.0	2	100	0	60	0	50	0	50	1.00
434432--434493	12	5.4	12	70	24	53	58	0	1	40	1.08
434434--434493	20	2.6	24	72	22	65	58	0	1	40	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
434621--434659	19	2.1	19	85	0	51	38	0	0	61	0.96
435979--436093	5	22.8	5	70	18	62	57	0	0	42	0.98
435982--436100	17	6.3	19	71	25	67	57	0	0	42	0.98
439899--439949	19	2.8	18	88	8	77	50	1	0	47	1.12
439899--439953	9	6.0	10	80	16	66	49	1	0	49	1.11
440387--440421	11	3.2	11	100	0	70	62	8	0	28	1.24
441580--441634	21	2.7	19	78	21	58	38	0	0	61	0.96
441569--441631	30	2.1	30	88	5	92	34	0	0	65	0.93
441992--442031	2	20.0	2	84	0	53	47	0	0	52	1.00
442901--442947	14	3.3	14	85	8	51	46	0	0	53	1.00
442938--442981	23	1.9	23	81	9	54	56	0	0	43	0.99
444105--444174	26	2.6	26	78	15	63	42	1	0	55	1.08
444130--444172	14	2.9	15	75	10	52	46	0	0	53	1.00
444614--444669	15	3.3	19	67	27	52	48	0	1	50	1.11
444965--445025	24	2.7	23	73	14	63	44	1	1	52	1.20
444962--445033	24	3.1	22	68	14	56	40	1	2	55	1.23
445646--445677	16	1.9	17	93	6	57	59	0	0	40	0.97
445625--445675	25	2.1	25	82	10	61	54	1	1	41	1.22
457580--457606	2	13.5	2	100	0	54	51	0	0	48	1.00
461697--461734	2	19.0	2	100	0	76	50	0	0	50	1.00
464223--464294	23	3.1	23	81	15	69	43	0	0	56	0.99
464229--464302	24	3.1	24	83	12	75	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
464418--464459	22	1.9	22	90	9	68	35	0	0	64	0.94
465937--465992	21	2.7	21	73	15	53	42	1	0	55	1.10
469676--469722	2	23.5	2	95	0	85	48	0	2	48	1.13
470599--470647	26	2.0	25	88	8	73	55	0	2	42	1.11
471098--471167	37	1.9	37	85	8	99	47	0	0	52	1.00
471336--471373	2	19.5	2	89	5	60	50	0	0	50	1.00
471627--471663	2	18.5	2	100	0	74	48	0	0	51	1.00
471658--471697	17	2.3	18	86	4	55	45	0	2	52	1.14
471691--471734	7	6.0	7	79	10	52	68	0	0	31	0.90
471694--471723	16	1.9	15	93	6	51	66	0	0	33	0.92
471876--471935	25	2.3	27	83	13	74	51	0	0	48	1.00
471869--471916	19	2.5	19	86	3	60	45	0	0	54	0.99
472637--472677	19	2.1	20	90	4	66	53	0	0	46	1.00
472632--472724	19	4.5	23	69	24	57	50	0	1	48	1.07
472716--472769	26	2.1	26	96	0	99	50	7	9	33	1.62
472894--472936	11	4.2	11	80	17	56	34	0	0	65	0.93
473645--473685	12	3.6	12	77	9	50	46	0	0	53	1.00
473618--473757	45	3.2	45	71	16	134	50	0	0	49	1.00
473683--473757	24	3.0	24	80	16	73	52	0	0	48	1.00
473689--473726	19	2.0	19	94	0	67	50	0	0	50	1.00
474041--474101	17	3.3	18	73	24	56	54	1	0	44	1.10
475549--475594	2	23.0	2	100	0	92	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
476947--476986	2	20.0	2	100	0	80	0	50	0	50	1.00
477655--477689	2	17.5	2	100	0	70	51	0	0	48	1.00
488840--488875	18	1.9	19	88	5	56	63	8	8	19	1.47
494471--494509	2	19.5	2	100	0	78	51	0	48	0	1.00
500047--500097	25	2.0	26	88	11	79	49	0	0	50	1.00
500799--500841	17	2.6	16	88	7	59	55	2	0	41	1.12
501107--501155	15	3.2	14	74	20	53	57	16	8	18	1.63
502649--502723	22	3.4	22	71	15	57	42	0	0	57	0.98
506881--506976	49	1.9	50	85	2	131	41	0	11	46	1.40
507151--507197	13	3.8	13	83	11	71	65	0	0	34	0.93
507150--507200	24	2.1	25	96	3	95	62	0	0	37	0.95
507146--507211	29	2.3	29	81	5	80	65	0	0	34	0.93
507613--507645	6	5.5	6	96	0	57	54	0	0	45	0.99
507997--508040	21	2.2	20	84	12	54	34	0	0	65	0.93
507998--508040	20	2.0	22	86	8	63	32	0	0	67	0.91
508006--508083	25	3.3	23	75	18	72	33	0	0	66	0.92
508008--508048	20	2.0	21	85	4	57	29	0	0	70	0.87
508101--508136	2	18.0	2	94	0	63	47	0	2	50	1.15
508219--508272	22	2.4	22	78	3	72	38	0	0	61	0.96
508401--508439	19	2.1	19	85	9	53	53	0	0	46	1.00
508789--508878	24	3.7	24	69	20	62	46	1	0	52	1.07
508811--508859	20	2.6	19	81	9	57	44	2	0	53	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
508832--508885	28	1.9	28	81	7	65	50	0	0	50	1.00
509388--509479	32	2.9	31	82	12	91	51	1	0	47	1.07
509400--509479	32	2.5	32	82	12	92	51	1	0	47	1.08
509428--509498	32	2.2	31	80	9	81	52	2	0	45	1.15
510104--510137	17	2.0	17	94	0	59	44	0	11	44	1.40
510171--510204	17	1.9	18	94	5	61	64	0	0	35	0.94
512447--512479	16	2.0	17	88	5	50	36	12	0	51	1.39
512487--512547	31	2.0	29	84	9	77	52	0	1	45	1.10
512940--513004	24	2.6	26	73	9	64	49	0	0	50	1.00
516994--517025	2	16.0	2	100	0	64	50	50	0	0	1.00
518806--518835	2	15.0	2	100	0	60	50	0	0	50	1.00
520214--520253	20	2.0	20	85	5	53	47	0	0	52	1.00
520294--520329	17	2.2	16	90	5	54	50	0	2	47	1.15
526088--526150	32	2.1	29	85	8	81	36	0	0	63	0.95
526557--526620	27	2.4	28	77	15	80	53	0	0	46	1.00
528275--528320	16	2.9	16	80	6	58	54	0	0	45	0.99
528935--528996	30	2.2	27	86	11	81	38	0	1	59	1.07
528968--529024	18	3.0	19	80	10	55	45	0	0	54	0.99
528987--529057	25	2.8	25	79	12	67	45	0	1	53	1.09
529013--529064	24	2.2	24	86	6	70	44	0	1	53	1.11
529024--529135	33	3.3	32	70	17	84	41	0	0	56	1.11
529086--529126	15	2.8	15	88	3	57	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
531896--531970	12	6.0	12	72	9	51	49	1	1	48	1.18
535641--535685	12	3.8	11	82	11	54	62	2	0	35	1.08
535647--535703	24	2.5	22	78	18	62	56	5	1	36	1.32
536100--536139	21	1.9	21	85	10	55	35	5	0	60	1.19
536834--536889	22	2.5	22	77	11	62	57	5	3	33	1.39
538333--538382	16	3.1	17	75	18	61	52	0	0	48	1.00
538351--538411	20	3.0	20	78	7	70	55	1	0	42	1.09
549344--549399	28	1.9	30	85	7	80	46	0	0	53	1.00
549516--549552	18	2.1	18	90	10	58	56	0	0	43	0.99
549808--549857	21	2.4	22	86	6	68	48	2	0	50	1.12

Tables:   1   2   3   4