genome.fa.s498.2.7.7.80.10.50.1000.5.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: Scaffold498
Parameters: 2 7 7 80 10 50 1000
Length:  1804022

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  5  of  17  ( 1953 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)
412035--412082	20	2.3	21	75	13	55	56	0	0	43	0.99
412272--412424	18	8.3	18	67	18	77	51	1	0	47	1.09
412273--412360	39	2.3	39	76	7	92	53	2	0	44	1.13
412634--412741	48	2.3	47	91	1	171	70	5	10	13	1.32
413012--413071	5	11.4	5	80	16	59	41	0	1	56	1.09
413012--413071	11	5.7	10	74	18	59	41	0	1	56	1.09
413012--413076	16	4.0	16	80	9	78	43	0	1	55	1.09
413015--413089	32	2.3	33	93	2	125	46	0	1	52	1.09
413058--413101	22	2.0	22	86	0	61	52	0	0	47	1.00
413734--413772	2	19.5	2	94	0	69	53	0	0	46	1.00
414189--414218	2	15.0	2	100	0	60	50	0	0	50	1.00
414328--414373	2	23.5	2	95	4	85	50	0	0	50	1.00
417671--417695	2	12.5	2	100	0	50	48	0	52	0	1.00
417641--417859	111	2.0	107	88	5	323	38	11	31	18	1.86
420777--420855	32	2.5	31	78	10	81	37	0	5	56	1.21
420806--420853	16	3.0	15	76	11	51	35	0	4	60	1.16
420804--420853	17	3.1	16	77	13	57	36	0	4	60	1.16
420798--420897	24	4.2	24	69	14	66	40	1	2	57	1.17
420939--420964	11	2.4	11	100	0	52	38	11	15	34	1.83
421430--421479	19	2.8	18	81	18	61	32	0	0	68	0.90
424181--424262	29	2.9	28	77	12	85	35	1	1	62	1.11
424231--424270	17	2.4	16	83	4	53	30	0	0	70	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
424182--424257	19	4.0	19	68	22	52	34	1	1	63	1.11
425948--426049	48	2.1	49	88	1	152	49	0	0	50	1.07
425967--426080	48	2.4	47	82	10	133	49	1	0	48	1.17
426525--426574	13	3.5	15	77	20	54	46	0	0	54	1.00
426525--426577	14	3.9	14	77	22	51	45	0	0	54	0.99
426553--426597	23	2.0	22	86	4	63	51	0	0	48	1.00
426783--426855	35	2.1	35	82	5	87	47	1	0	50	1.09
427642--427711	26	2.7	25	86	6	95	51	5	2	40	1.40
427705--427734	14	2.1	14	93	0	51	46	0	0	53	1.00
427934--428071	27	4.9	28	71	22	94	57	0	0	42	0.98
427949--428101	25	6.0	25	67	24	63	56	0	0	43	0.99
427988--428050	16	3.8	16	72	14	56	53	0	0	46	1.00
427996--428095	37	2.8	37	79	13	118	55	0	0	45	0.99
427992--428115	32	3.9	31	74	16	110	53	0	0	46	1.00
428365--428428	23	2.7	23	77	15	69	51	0	0	48	1.00
428380--428426	22	2.1	22	88	7	69	53	0	0	46	1.00
428360--428449	26	3.6	25	74	21	73	52	0	0	47	1.00
428360--428454	47	2.0	49	81	8	115	52	0	0	47	1.00
428734--428765	13	2.5	13	95	5	57	40	0	0	59	0.97
428730--428775	19	2.4	19	82	7	58	45	0	0	54	0.99
429741--429765	13	1.9	13	100	0	50	32	16	16	36	1.90
429774--429898	52	2.4	52	94	0	214	36	17	17	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
434621--434756	64	2.1	65	80	9	145	42	1	0	55	1.08
434796--434847	19	2.6	20	76	14	54	55	1	0	42	1.10
435029--435088	25	2.4	24	81	15	61	46	1	0	51	1.10
435079--435138	32	1.9	31	90	10	95	63	0	0	36	0.95
435083--435130	20	2.3	20	75	3	51	68	0	0	31	0.90
435790--435831	16	2.6	16	84	3	57	42	0	4	52	1.22
435790--435840	16	3.1	17	81	16	54	43	0	5	50	1.26
436586--436675	16	5.2	16	70	27	60	48	0	2	48	1.13
436590--436626	15	2.3	17	90	9	60	51	0	2	45	1.15
436586--436662	28	3.0	25	73	14	75	48	0	2	49	1.15
436740--436796	7	8.0	7	78	18	64	70	0	3	26	1.03
436740--436795	22	2.6	22	91	8	89	69	0	3	26	1.04
439436--439530	47	2.0	47	93	0	163	27	18	12	41	1.87
442311--442345	17	2.1	17	88	0	52	34	2	17	45	1.63
442966--443000	18	1.9	18	94	0	61	34	5	17	42	1.73
443250--443288	17	2.4	17	86	4	53	43	0	0	56	0.99
443956--443985	9	3.2	9	95	4	51	66	0	0	33	0.92
447197--447261	25	2.5	26	80	7	71	61	6	4	27	1.40
451147--451176	9	3.3	9	100	0	60	70	0	0	30	0.88
452303--452336	11	3.0	11	91	4	50	67	0	0	32	0.91
452298--452448	39	4.1	38	69	16	111	57	0	1	41	1.07
452317--452394	32	2.5	31	76	19	81	56	0	2	41	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
452838--452882	23	2.0	21	83	8	54	42	0	4	53	1.21
452887--452928	22	2.0	21	86	13	59	42	0	0	57	0.99
452926--452963	17	2.2	17	86	9	51	52	0	0	47	1.00
453109--453136	14	2.0	14	100	0	56	28	0	0	71	0.86
453701--453813	36	3.1	36	74	12	88	45	0	1	53	1.11
455167--455223	19	2.8	20	75	20	64	63	5	0	31	1.17
455168--455217	10	5.0	10	74	16	50	68	4	0	28	1.08
455352--455402	18	2.8	19	72	22	56	50	0	0	49	1.00
455721--455770	26	1.9	26	91	0	82	48	2	0	50	1.12
455989--456034	17	2.8	16	78	21	51	43	2	2	52	1.25
456390--456460	14	5.1	14	67	26	53	53	0	0	46	1.00
457022--457075	29	2.0	29	82	13	71	51	1	7	38	1.41
457031--457082	27	1.9	26	81	14	61	53	0	7	38	1.30
457406--457466	11	5.7	11	75	14	65	45	0	0	54	1.00
457424--457467	20	2.1	21	87	4	63	50	0	0	50	1.00
457419--457470	25	2.1	25	82	7	61	50	0	0	50	1.00
465359--465390	10	3.3	10	91	8	57	68	0	0	31	0.90
465373--465436	22	3.0	21	74	17	60	48	1	0	50	1.10
465519--465565	23	2.0	23	83	0	58	34	14	14	36	1.88
465862--465909	17	3.1	16	80	11	55	41	0	0	58	0.98
465859--465948	38	2.5	36	80	8	112	43	0	0	56	0.99
468922--468950	14	2.0	15	93	6	51	68	3	0	27	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
469736--469794	29	2.0	29	100	0	118	32	3	27	37	1.73
473666--473706	21	2.0	21	90	9	66	58	0	0	41	0.98
473723--473764	16	2.6	17	88	7	61	66	0	0	33	0.92
474601--475238	229	2.8	227	83	7	721	29	15	16	38	1.89
477194--477239	22	2.2	20	84	7	56	65	6	0	28	1.17
478648--478703	21	2.7	20	81	8	67	62	0	0	37	0.95
479844--479869	13	2.0	13	100	0	52	61	15	15	7	1.55
479942--479980	15	2.6	15	87	0	60	17	5	25	51	1.66
479999--480058	16	3.8	16	81	0	75	11	18	30	40	1.86
480021--480070	16	3.2	16	91	2	66	10	18	36	36	1.84
480960--481016	21	2.7	22	81	13	75	42	0	0	57	0.98
481095--481150	16	3.5	16	85	0	67	41	5	5	48	1.49
481080--481145	32	2.1	32	88	0	96	37	7	6	48	1.56
483748--483801	27	2.0	28	88	3	83	46	1	0	51	1.11
483734--483805	27	2.4	30	77	17	78	45	4	0	50	1.21
483821--483884	30	2.1	31	82	8	78	48	3	0	48	1.17
483813--483884	30	2.4	30	77	9	76	50	2	0	47	1.15
484323--484376	28	2.0	27	85	3	72	64	1	0	33	1.04
484717--484758	20	2.2	20	91	4	68	57	11	2	28	1.47
485029--485097	28	2.5	28	79	11	70	31	4	0	63	1.14
485452--485525	36	2.1	34	80	11	80	52	0	1	45	1.09
490907--490965	31	1.9	29	83	10	73	28	1	0	69	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
490932--490999	11	5.9	11	71	25	52	27	0	1	70	0.96
490938--491001	12	5.3	13	72	12	57	26	0	1	71	0.94
490934--491009	25	3.1	25	77	14	86	26	0	2	71	1.00
490935--491008	23	3.1	24	80	11	80	27	0	2	70	1.01
491022--491071	20	2.5	20	76	0	55	40	2	4	54	1.31
491075--491126	11	4.8	11	79	11	54	26	0	3	69	1.06
491082--491123	22	1.9	22	90	9	68	28	0	0	71	0.86
491082--491160	37	2.1	37	83	4	97	25	2	5	67	1.24
491430--491501	17	4.3	17	77	8	67	77	0	22	0	0.76
491418--491492	33	2.3	32	80	8	89	77	0	22	0	0.77

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17