genome.fa.s495.2.7.7.80.10.50.1000.4.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: Scaffold495
Parameters: 2 7 7 80 10 50 1000
Length:  586005

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 495 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)
446043--446126	42	2.0	41	81	9	98	41	9	1	47	1.44
446225--446265	15	2.7	15	73	26	50	51	0	0	48	1.00
446326--446388	23	2.8	22	75	20	58	34	0	0	65	0.93
446222--446392	24	6.8	24	66	17	80	40	0	1	57	1.09
446331--446392	19	3.5	18	75	14	58	35	0	0	64	0.94
446733--446795	8	7.8	8	75	20	60	73	0	1	25	0.93
446733--446774	9	4.8	9	79	2	50	71	0	0	28	0.86
446726--446777	26	2.0	25	85	10	70	69	0	1	28	0.99
446726--446796	17	4.2	17	72	24	62	69	0	2	28	1.03
447312--447347	16	2.2	16	90	0	54	75	0	2	22	0.94
447389--447432	20	2.2	21	88	8	65	50	0	0	50	1.00
448543--448594	14	3.6	14	76	5	59	13	5	1	78	1.01
448965--449004	19	2.0	21	85	9	57	67	0	0	32	0.91
450265--450303	19	2.1	19	90	4	62	61	2	2	33	1.23
450664--450718	21	2.6	21	75	13	60	50	0	5	43	1.25
451036--451072	16	2.3	17	86	9	51	51	0	0	48	1.00
451626--451764	40	3.1	45	70	19	112	41	0	6	51	1.33
451660--451807	67	2.2	66	81	12	178	43	0	5	50	1.30
451642--451788	20	7.1	19	69	24	84	40	0	5	53	1.29
451660--451827	67	2.5	64	75	13	160	43	1	5	49	1.35
452463--452501	7	5.4	7	81	6	51	61	0	0	38	0.96
452464--452508	14	3.1	14	81	6	54	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
452662--452719	27	2.1	28	87	6	82	55	1	1	41	1.20
454242--454303	32	1.9	32	83	6	81	45	0	0	54	0.99
454258--454334	24	3.2	24	80	20	83	42	1	0	55	1.07
454303--454354	22	2.2	23	80	16	54	42	1	0	55	1.10
454320--454361	22	1.9	22	85	9	59	45	2	0	52	1.13
454486--454543	23	2.5	24	83	5	66	50	0	1	48	1.11
454494--454532	18	2.2	17	86	4	51	46	0	2	51	1.14
458641--458757	52	2.2	52	86	0	171	47	12	10	29	1.75
462026--462071	20	2.3	20	88	0	65	34	4	50	10	1.57
462153--462218	27	2.4	27	90	7	98	46	22	7	22	1.77
466688--466738	25	2.0	25	81	7	59	47	15	7	29	1.74
466728--466793	27	2.4	27	90	7	98	46	22	7	22	1.77
467063--467109	22	2.2	22	81	11	53	42	2	2	53	1.25
467489--467533	12	3.8	12	80	11	56	64	0	2	33	1.06
468350--468382	15	2.1	16	94	5	59	72	0	0	27	0.85
468674--468774	9	10.4	9	72	17	51	64	0	2	31	1.15
468727--468777	18	2.7	18	75	6	57	66	1	0	31	1.03
469780--469839	28	2.1	28	84	3	75	36	10	11	41	1.75
469795--469844	14	3.5	14	75	22	50	38	12	12	38	1.80
475110--475202	14	6.5	14	75	14	64	34	11	17	36	1.86
475110--475219	14	7.7	13	71	18	51	35	11	16	36	1.85
475110--475277	72	2.3	72	79	2	167	35	10	15	38	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
476783--476859	35	2.2	36	81	11	88	48	6	0	45	1.28
480029--480058	2	15.0	2	100	0	60	50	0	0	50	1.00
480162--480221	27	2.2	27	85	5	77	40	0	0	60	0.97
480190--480240	21	2.5	20	84	6	75	41	0	0	58	0.98
480230--480286	30	1.9	29	85	3	78	36	7	0	56	1.27
480305--480354	26	2.0	26	84	11	68	36	2	0	62	1.07
480693--480755	23	2.6	25	80	17	78	61	1	0	36	1.05
480702--480791	42	2.3	38	79	9	101	60	2	0	37	1.09
480713--480785	29	2.4	30	80	17	80	63	0	0	36	0.95
480727--480783	19	2.9	19	72	12	62	63	0	0	36	0.95
483914--483942	2	14.5	2	100	0	58	48	0	0	51	1.00
485281--485341	30	2.0	31	93	3	106	22	14	19	42	1.88
490081--490189	31	3.5	30	74	13	112	33	11	10	44	1.75
490056--490231	63	2.8	63	87	2	255	32	13	10	43	1.78
490081--490255	32	5.5	32	73	11	117	35	14	9	41	1.77
491192--491225	7	4.9	7	100	0	68	29	14	0	55	1.40
494584--494687	51	2.0	51	94	0	181	24	20	9	46	1.80
495025--495059	2	17.5	2	100	0	70	51	0	0	48	1.00
495831--495857	2	13.5	2	100	0	54	48	0	0	51	1.00
497291--497349	5	12.2	5	77	10	52	71	0	0	28	0.87
497291--497349	16	3.7	16	86	8	84	71	0	0	28	0.87
497271--497349	26	3.0	27	81	7	83	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
497762--497807	5	9.4	5	81	9	51	67	0	0	32	0.91
497759--497810	24	2.0	26	82	14	72	65	0	0	34	0.93
498637--498669	15	2.1	16	94	5	59	72	0	0	27	0.85
499028--499081	18	3.0	18	75	5	56	57	0	5	37	1.22
500009--500058	25	1.9	27	92	8	86	48	0	4	48	1.20
500016--500091	25	3.1	25	80	14	79	40	0	1	57	1.07
500046--500091	23	1.9	24	91	8	76	34	0	0	65	0.93
500107--500144	17	2.2	17	90	0	58	55	2	0	42	1.14
500187--500211	11	2.3	11	100	0	50	72	0	0	28	0.86
500192--500250	26	2.2	26	91	8	93	61	0	0	38	0.96
500192--500256	32	2.1	29	86	13	87	60	0	0	40	0.97
500203--500250	13	3.4	16	68	31	54	58	0	0	41	0.98
502695--502903	50	4.2	50	95	0	364	29	21	20	29	1.98
507296--507605	50	6.2	50	92	0	512	28	21	19	30	1.98
508706--508745	19	2.0	20	85	4	55	35	2	0	62	1.09
518132--518206	20	3.8	20	78	0	78	34	12	12	41	1.79
519121--519174	22	2.5	22	96	3	101	18	11	9	61	1.55
523681--523710	15	2.0	15	100	0	60	46	13	6	33	1.69
533354--533415	20	2.8	22	73	14	65	40	0	1	58	1.08
533390--533434	12	3.5	14	77	17	53	40	0	0	60	0.97
533372--533440	23	2.9	23	82	8	77	40	0	0	59	0.97
533374--533459	14	6.1	14	69	21	56	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
533427--533461	18	1.9	18	88	0	52	42	0	0	57	0.99
533759--533812	19	3.0	18	82	15	67	38	1	0	59	1.08
535286--535320	2	17.5	2	100	0	70	51	0	0	48	1.00
535613--535668	3	18.7	3	100	0	112	32	0	0	67	0.91
536640--536682	20	2.1	21	86	4	61	53	0	0	46	1.00
537590--537641	20	2.7	20	80	14	63	42	0	1	55	1.10
541494--541526	2	16.5	2	100	0	66	51	0	0	48	1.00
541697--541729	2	16.5	2	93	0	57	48	0	3	48	1.17
544040--544064	6	4.2	6	100	0	50	16	0	0	84	0.63
548533--548619	25	3.3	25	69	20	77	22	17	1	58	1.45
548533--548623	31	3.2	29	66	25	77	23	16	2	58	1.49
548513--548623	55	2.0	55	94	0	195	25	16	1	56	1.50
549669--549695	14	1.9	14	100	0	54	22	0	0	77	0.76
552116--552150	2	17.5	2	100	0	70	51	0	0	48	1.00
556195--556226	2	16.0	2	100	0	64	50	0	0	50	1.00
556206--556288	31	2.7	29	72	15	69	40	1	2	55	1.21
556209--556292	32	2.5	35	74	20	88	41	1	2	54	1.21
556207--556302	33	2.8	35	72	23	87	41	1	2	55	1.18
556736--556783	13	3.4	14	75	8	53	43	0	0	56	0.99
557689--557719	16	1.9	16	93	0	53	64	0	0	35	0.94
557684--557722	20	2.0	20	85	14	55	64	0	0	35	0.94
559716--559839	55	2.3	55	95	0	221	43	16	11	28	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
561378--561457	32	2.5	32	85	6	99	52	2	1	43	1.22
561608--561675	25	2.7	26	81	2	75	52	0	0	47	1.00
562321--562382	32	1.9	33	84	15	85	37	0	3	59	1.13
562411--562454	13	3.6	12	82	14	54	63	2	0	34	1.07
564626--564671	3	15.3	3	100	0	92	67	0	0	32	0.91
566701--566730	5	6.0	5	92	0	51	56	0	0	43	0.99
567092--567163	27	2.6	28	82	4	92	43	1	0	55	1.08
567185--567369	30	6.2	30	80	6	178	54	1	5	38	1.32
567212--567280	31	2.7	23	70	29	66	55	1	7	36	1.37
567219--567273	16	3.5	16	71	14	60	50	1	9	38	1.45

Tables:   1   2   3   4   5