genome.fa.s392.2.7.7.80.10.50.1000.5.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: Scaffold392
Parameters: 2 7 7 80 10 50 1000
Length:  803515

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 687 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)
478975--479013	17	2.3	16	83	12	51	35	0	0	64	0.94
478976--479024	21	2.5	19	80	9	55	38	0	0	61	0.96
479374--479443	25	2.8	24	77	12	70	57	2	1	38	1.23
480004--480078	32	2.4	32	86	6	100	54	0	1	44	1.08
480041--480121	8	9.3	9	71	14	55	59	0	0	40	0.98
480044--480128	43	2.0	42	84	9	109	57	0	0	42	0.98
480053--480121	27	2.6	25	80	13	75	60	0	0	39	0.97
480214--480301	34	2.6	32	79	15	90	42	0	0	57	0.98
480248--480332	44	2.0	43	86	11	120	36	0	0	63	0.95
480842--480900	21	2.8	21	77	12	66	57	0	0	42	0.98
481091--481158	28	2.3	29	85	5	93	63	2	0	33	1.10
481077--481158	19	4.4	18	75	17	62	65	2	0	31	1.05
481087--481195	28	3.9	27	73	13	78	63	2	0	33	1.09
481116--481158	19	2.3	20	88	11	65	67	2	0	30	1.03
482171--482245	22	3.2	22	76	16	62	29	0	2	68	1.04
482178--482238	27	2.2	27	85	8	79	29	0	3	67	1.07
482225--482296	23	3.2	22	78	9	65	37	0	9	52	1.34
482236--482296	22	2.7	23	80	5	72	36	0	11	52	1.38
482272--482338	32	2.0	33	85	8	91	43	0	2	53	1.16
482310--482363	22	2.5	22	84	3	74	40	0	0	59	0.98
482385--482419	18	1.9	18	94	0	61	40	2	0	57	1.14
482747--482809	22	2.8	23	77	15	78	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
482747--482823	22	3.4	23	79	15	72	42	0	0	57	0.99
482775--482823	23	2.1	22	88	11	71	44	0	0	55	0.99
482949--482982	18	1.9	17	88	5	50	35	0	2	61	1.11
482935--482996	20	2.8	22	72	20	58	38	0	1	59	1.07
484568--484599	2	16.0	2	100	0	64	50	0	0	50	1.00
495085--495117	11	2.9	12	91	8	52	60	0	0	39	0.97
495058--495137	29	2.6	31	78	7	92	48	1	0	50	1.08
495420--495470	19	2.6	20	84	3	68	64	0	0	35	0.94
495415--495462	25	2.0	25	91	4	80	62	0	0	37	0.95
496078--496118	11	3.3	12	87	12	57	51	0	0	48	1.00
496090--496123	17	2.0	17	88	0	50	52	0	0	47	1.00
496765--496799	17	2.2	17	90	10	56	48	0	0	51	1.00
496742--496814	24	3.0	24	84	8	76	43	0	2	53	1.15
496921--496978	25	2.4	24	85	2	71	48	0	0	51	1.00
499328--499499	86	2.0	86	100	0	344	26	18	12	41	1.87
500633--500720	18	5.1	18	71	15	69	39	0	0	60	0.97
500675--500723	11	4.7	11	77	10	50	32	0	0	67	0.91
505527--505552	13	2.0	13	100	0	52	23	23	30	23	1.99
508714--508794	13	6.1	13	70	16	58	60	1	0	38	1.05
508735--508786	19	2.8	18	80	11	61	59	0	0	40	0.97
508717--508785	28	2.6	26	77	11	68	60	0	0	39	0.97
510035--510101	22	3.0	22	81	12	75	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)
512204--512240	19	1.9	19	88	0	56	54	0	0	45	1.00
512161--512272	54	2.0	59	80	15	130	48	0	2	49	1.15
512204--512314	35	3.2	34	78	14	120	48	0	0	51	1.00
512213--512250	18	2.1	19	90	5	60	50	0	0	50	1.00
512256--512312	16	3.4	16	78	9	60	47	0	0	52	1.00
522002--522059	18	3.3	18	80	20	61	53	0	0	46	1.00
521995--522048	17	3.3	17	72	25	53	55	0	0	44	0.99
523036--523073	17	2.2	17	86	9	51	47	5	5	42	1.48
524364--524403	2	20.0	2	94	0	62	50	5	0	45	1.23
525931--525955	3	8.3	3	100	0	50	36	32	0	32	1.58
529120--529144	13	1.9	13	100	0	50	76	0	8	16	1.02
529628--529657	2	15.0	2	100	0	60	50	0	0	50	1.00
530252--530289	20	1.9	20	94	0	67	34	5	2	57	1.35
532448--532520	14	5.5	14	65	23	50	60	0	1	38	1.06
532509--532580	21	3.5	22	75	22	77	54	0	0	45	0.99
532510--532580	20	3.5	20	77	19	76	53	0	0	46	1.00
532507--532580	30	2.5	30	82	10	98	55	0	0	44	0.99
532515--532572	11	5.5	11	76	17	61	53	0	0	46	1.00
537464--537492	12	2.3	13	94	5	51	0	24	0	75	0.80
538776--538830	21	2.7	21	83	13	62	69	3	1	25	1.15
546609--546692	41	2.2	38	85	12	109	36	9	2	51	1.48
547705--547759	21	2.7	20	82	5	65	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
547725--547769	14	3.0	16	75	15	51	55	0	0	44	0.99
547723--547762	14	2.8	14	80	3	53	57	0	0	42	0.98
548051--548095	11	3.5	13	82	17	58	66	0	0	33	0.92
548221--548269	23	2.1	23	85	7	64	51	0	0	48	1.00
548565--548627	25	2.5	24	85	10	74	46	1	1	50	1.20
548570--548618	22	2.2	23	88	3	73	48	2	0	48	1.12
549008--549039	9	3.4	9	91	8	55	90	0	9	0	0.45
549008--549039	10	3.3	10	95	4	57	90	0	9	0	0.45
549736--549762	3	9.0	3	100	0	54	66	0	0	33	0.92
550188--550266	27	3.0	24	72	20	59	46	0	1	51	1.08
550198--550266	28	2.5	28	80	15	90	46	0	1	52	1.09
554244--554636	207	1.9	207	100	0	786	43	13	14	28	1.84
556059--556085	2	13.5	2	100	0	54	51	0	48	0	1.00
560272--560384	56	2.0	56	100	0	226	64	7	5	23	1.39
562970--562999	15	1.9	16	93	6	53	46	0	6	46	1.29
562974--563042	24	2.9	24	73	23	65	42	1	2	53	1.24
563345--563380	2	18.0	2	100	0	72	50	0	50	0	1.00
566710--566760	23	2.3	22	83	10	59	35	3	0	60	1.15
567613--567663	19	2.5	20	87	6	77	58	0	0	41	0.98
567738--567796	23	2.7	23	77	15	54	40	0	1	57	1.09
570656--570704	2	25.0	2	79	4	55	46	6	2	44	1.39
572595--572648	16	3.5	15	75	7	54	40	0	1	57	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
572595--572669	31	2.4	31	93	4	125	42	0	1	56	1.08
572609--572664	16	3.6	16	75	4	69	39	0	1	58	1.08
572971--573016	16	3.0	16	78	21	62	50	0	0	50	1.00
573579--573630	23	2.3	23	83	6	70	53	0	0	46	1.00
574008--574074	33	2.0	33	82	5	82	28	10	0	61	1.29
575120--575155	2	18.5	2	94	5	65	50	0	0	50	1.00
575325--575370	24	1.9	24	95	0	83	50	0	0	50	1.00
577840--577961	61	2.0	61	96	0	226	39	21	18	21	1.93
580279--580363	26	3.7	21	74	20	55	45	0	0	54	1.00
580309--580346	18	2.1	18	85	9	51	52	0	0	47	1.00
582552--582604	11	5.5	10	75	20	51	71	7	0	20	1.10
584715--584756	22	1.9	22	85	9	59	38	2	0	59	1.10
585331--585382	20	2.6	20	78	6	61	50	1	3	44	1.31
585918--585985	36	1.9	35	85	8	93	50	0	2	47	1.16
585975--586008	13	2.4	15	80	19	54	50	0	0	50	1.00
585979--586008	13	2.3	13	100	0	60	46	0	0	53	1.00
586406--586443	20	1.9	20	94	0	67	44	0	0	55	0.99
586395--586443	20	2.5	19	87	9	64	44	0	0	55	0.99
586448--586486	5	7.8	5	83	11	53	17	2	0	79	0.84
586438--586512	25	3.0	25	74	5	62	29	1	0	69	0.97
586447--586487	20	2.1	19	90	4	64	17	2	0	80	0.82
599952--599993	21	2.0	21	90	0	66	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
605671--605719	21	2.4	21	86	3	64	10	6	4	79	1.03
616275--616306	2	16.0	2	93	0	55	53	0	0	46	1.00
616465--616505	3	13.7	3	100	0	82	68	0	0	31	0.90
616868--616909	22	2.0	22	90	9	70	64	4	0	30	1.14
616879--616929	27	1.9	27	88	4	77	62	5	0	31	1.19
617772--617809	20	1.9	20	88	0	58	42	0	0	57	0.98
622736--622770	2	18.0	2	88	5	54	48	2	0	48	1.16
623302--623339	3	12.7	3	100	0	76	68	0	0	31	0.90
625366--625401	2	18.0	2	100	0	72	50	0	0	50	1.00
625605--625630	2	13.0	2	100	0	52	50	0	0	50	1.00

Tables:   1   2   3   4   5   6