genome.fa.s407.2.7.7.80.10.50.1000.3.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: Scaffold407
Parameters: 2 7 7 80 10 50 1000
Length:  4418299

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   

This is table  3  of  28  ( 3302 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)
411957--412023	28	2.4	28	82	7	84	28	26	19	25	1.99
412194--412323	32	4.0	32	75	3	127	30	26	19	23	1.98
412411--412529	52	2.4	51	78	5	127	25	21	18	34	1.96
412459--412757	52	5.6	51	67	12	143	23	23	17	35	1.95
413983--414008	13	2.0	13	100	0	52	30	15	15	38	1.88
414068--414140	20	3.6	20	77	3	92	31	20	13	34	1.92
414047--414140	41	2.3	41	94	0	161	30	19	12	37	1.89
414047--414122	21	3.7	21	76	3	82	30	18	11	39	1.87
414775--414816	21	2.0	21	100	0	84	52	19	4	23	1.65
416604--416641	13	2.9	13	96	0	67	31	15	18	34	1.92
416630--416706	20	3.6	20	77	16	73	42	15	15	25	1.86
418715--418745	15	2.1	15	93	0	53	12	22	16	48	1.80
422806--422831	13	2.0	13	100	0	52	30	15	15	38	1.88
422891--422963	20	3.6	20	77	3	92	31	20	13	34	1.92
422870--422963	41	2.3	41	94	0	161	30	19	12	37	1.89
422870--422945	21	3.7	21	76	3	82	30	18	11	39	1.87
423293--423341	20	2.4	21	86	10	66	40	12	16	30	1.85
428323--428792	159	3.0	157	81	6	540	27	24	12	35	1.92
428342--428802	238	1.9	236	82	5	572	26	24	13	35	1.92
428321--428802	79	6.1	80	77	7	405	26	24	12	36	1.92
437915--438034	49	2.4	49	77	6	116	33	14	21	30	1.93
440110--440192	34	2.4	34	79	13	91	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
440696--440752	17	3.5	16	74	25	57	52	1	0	45	1.11
440865--440909	22	2.0	23	86	8	65	2	17	0	80	0.82
442885--442911	2	13.5	2	100	0	54	51	0	0	48	1.00
443043--443074	16	1.9	17	93	6	57	43	3	3	50	1.33
443376--443413	19	2.0	20	89	5	60	44	2	0	52	1.14
443460--443519	24	2.6	22	85	12	77	33	13	15	38	1.86
443473--443525	24	2.2	24	90	6	81	33	9	18	37	1.83
445038--445066	9	3.2	9	100	0	58	13	13	20	51	1.75
447866--448016	20	6.5	20	65	27	68	41	11	17	29	1.86
447930--448026	50	1.9	50	87	4	142	41	12	17	28	1.86
447866--448016	70	2.1	71	91	1	241	41	11	17	29	1.86
448856--448977	64	1.9	63	83	5	156	26	16	27	30	1.97
448974--449177	56	3.7	55	84	3	223	25	18	28	27	1.98
448955--449177	111	2.0	113	80	6	258	26	18	28	26	1.98
448991--449187	28	7.1	28	78	5	184	26	19	26	27	1.99
449028--449187	83	1.9	83	83	2	205	25	18	28	28	1.98
454387--454455	27	2.6	27	93	2	113	15	18	40	24	1.90
456712--456827	51	2.3	50	92	1	187	42	12	18	26	1.86
458851--458900	23	2.2	23	100	0	100	24	8	22	46	1.78
458859--458913	23	2.4	23	87	3	76	25	10	23	40	1.87
462308--462344	18	2.0	20	84	10	51	56	0	2	40	1.13
462325--462367	13	3.2	13	83	16	52	46	0	2	51	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
463835--463902	22	3.0	22	74	18	66	48	0	0	51	1.00
463823--463879	20	2.9	19	76	19	55	38	0	0	61	0.96
464911--464937	13	2.1	13	100	0	54	40	14	14	29	1.86
465305--465412	49	2.3	47	80	9	130	53	0	0	46	1.00
467062--467094	3	11.0	3	100	0	66	0	33	0	66	0.92
467522--467555	14	2.5	14	85	4	52	32	5	2	58	1.37
467822--467874	26	2.0	26	100	0	106	43	7	0	49	1.31
468257--468299	3	14.7	3	95	4	79	30	0	0	69	0.88
470576--470744	16	10.6	16	73	2	142	39	28	15	15	1.89
470566--470744	48	3.7	47	79	5	180	40	28	15	15	1.88
470576--470741	32	5.2	32	82	2	163	39	28	15	16	1.89
471791--471892	16	6.4	16	72	4	89	38	30	16	14	1.89
473288--473349	28	2.2	28	82	2	72	58	4	0	37	1.20
473565--473610	10	4.6	10	77	20	51	71	0	0	28	0.86
473565--473615	16	3.0	16	86	11	66	72	0	0	27	0.85
473619--473662	19	2.3	20	84	11	65	63	0	0	36	0.95
473618--473696	33	2.4	32	82	4	86	59	0	0	40	0.97
473569--473700	18	7.7	17	72	17	96	62	0	0	36	1.00
475257--475297	3	13.7	3	100	0	82	34	0	0	65	0.93
476307--476382	29	2.5	32	78	6	86	55	0	3	40	1.18
478741--478803	26	2.5	26	82	10	76	69	6	1	22	1.19
479264--479341	16	4.8	16	81	6	86	33	5	6	55	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
479265--479331	33	2.0	33	88	0	98	32	4	7	55	1.48
479423--479469	21	2.2	22	85	11	62	34	12	2	51	1.52
479539--479581	19	2.3	19	84	8	52	25	4	2	67	1.22
480066--480108	21	2.0	21	86	0	59	55	0	0	44	0.99
482973--482998	13	2.0	13	100	0	52	38	15	15	30	1.88
485224--485268	21	2.1	21	84	8	56	53	4	20	22	1.63
487072--487102	15	2.1	15	93	0	53	48	16	22	12	1.80
489174--489199	13	2.0	13	100	0	52	30	15	15	38	1.88
491746--491771	13	2.0	13	100	0	52	38	15	15	30	1.88
493068--493110	18	2.3	19	84	8	61	58	2	0	39	1.11
493875--493921	23	2.0	23	88	8	69	61	0	0	38	0.96
497726--497780	20	2.7	20	85	2	74	30	16	10	41	1.83
498855--498892	20	1.9	20	89	10	60	42	0	2	55	1.14
499774--499809	2	18.0	2	94	0	63	50	2	0	47	1.15
500152--500203	25	2.1	25	85	7	70	42	3	0	53	1.19
501716--501794	19	4.2	19	71	19	67	58	2	0	39	1.12
501693--501763	22	3.3	22	71	15	58	53	0	0	46	1.00
504003--504068	33	2.0	33	82	5	80	39	3	10	46	1.54
505249--505289	2	20.5	2	100	0	82	51	0	0	48	1.00
505438--505473	17	2.2	16	90	9	56	63	0	0	36	0.94
508228--508266	14	2.6	15	88	8	53	41	0	0	58	0.98
508746--508812	33	2.0	33	88	0	98	34	11	13	40	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
508766--508790	13	1.9	13	100	0	50	36	16	16	32	1.90
508853--508877	13	1.9	13	100	0	50	32	16	16	36	1.90
508886--509009	52	2.4	52	93	4	207	34	18	17	29	1.94
512484--512524	21	2.0	20	85	4	55	56	2	7	34	1.40
513698--513791	20	4.6	20	80	6	107	40	8	14	36	1.77
513849--513904	20	2.8	20	83	2	67	30	14	14	41	1.85
525837--525952	51	2.3	51	84	3	153	31	23	11	33	1.90
525936--525991	28	2.0	28	96	0	103	21	30	17	30	1.96
525938--526012	28	2.7	27	87	8	98	24	30	20	25	1.98
525964--526222	79	3.3	78	76	9	249	26	24	15	33	1.95
531101--531131	10	3.1	10	90	0	53	41	6	29	22	1.78
531155--531291	53	2.6	53	94	1	238	26	17	18	37	1.93
531279--531333	21	2.7	20	80	5	65	30	14	16	38	1.89
538439--538492	20	2.7	20	85	0	72	29	11	14	44	1.80
538535--538559	13	1.9	13	100	0	50	32	16	16	36	1.90
538548--538748	52	3.9	52	90	3	298	32	19	17	30	1.95
548954--548998	21	2.1	21	84	8	56	53	4	20	22	1.63
550802--550832	15	2.1	15	93	0	53	48	16	22	12	1.80
552907--552945	13	3.0	13	100	0	78	30	15	15	38	1.88
555473--555497	13	1.9	13	100	0	50	36	16	16	32	1.90
562410--562538	1	129.0	1	76	0	123	88	10	0	0	0.56
562408--562538	11	12.0	11	81	8	144	87	11	0	0	0.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
562410--562538	18	7.4	18	86	6	162	88	10	0	0	0.56
562412--562538	13	9.7	13	84	9	152	88	11	0	0	0.57
563911--564354	30	15.1	29	70	13	194	27	28	16	27	1.97
564122--564492	58	6.2	57	69	16	209	29	28	16	25	1.96
563916--564345	88	4.9	86	71	9	307	27	29	16	26	1.97
564330--564421	35	2.7	36	78	8	102	20	28	13	38	1.90
563908--564468	263	2.1	263	93	3	951	27	28	15	27	1.96
564395--564492	28	3.4	28	87	2	124	36	28	16	18	1.92
564395--564518	28	4.3	28	82	7	117	37	29	15	17	1.91
564635--564723	43	2.1	43	93	0	151	26	23	17	31	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28