genome.fa.s8.2.7.7.80.10.50.1000.4.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: Scaffold8
Parameters: 2 7 7 80 10 50 1000
Length:  6381039

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   29   30   31   32   
          33   

This is table  4  of  33  ( 3942 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)
389970--390047	27	3.0	26	83	7	95	55	1	1	42	1.16
390938--390999	30	2.2	28	75	13	65	38	0	0	61	0.96
391119--391166	16	2.9	16	78	3	51	43	8	8	39	1.65
391592--391629	3	13.0	3	94	5	69	31	0	0	68	0.90
394403--394481	32	2.5	31	95	4	142	44	22	3	29	1.70
396570--396604	2	17.5	2	100	0	70	51	0	0	48	1.00
400137--400172	9	4.0	9	88	0	54	58	2	8	30	1.42
401528--401558	2	15.5	2	100	0	62	48	0	0	51	1.00
403538--403566	2	14.5	2	100	0	58	48	0	0	51	1.00
404238--404271	18	1.9	18	94	5	61	47	0	0	52	1.00
408499--408529	16	2.0	15	93	6	53	45	0	12	41	1.42
408618--408665	25	1.9	25	82	0	60	50	0	0	50	1.00
409165--409228	25	2.6	25	78	14	69	18	4	12	64	1.45
410891--410973	29	2.8	30	80	8	100	46	0	3	49	1.19
410861--410959	45	2.2	42	78	15	101	46	0	4	49	1.20
412990--413053	31	2.0	33	87	6	96	53	23	7	15	1.68
413112--413145	6	5.8	6	96	3	61	32	0	14	52	1.42
417825--417850	3	8.7	3	100	0	52	69	30	0	0	0.89
418959--419003	24	1.9	23	82	13	56	51	0	2	46	1.13
419029--419069	12	3.3	12	83	6	55	46	0	0	53	1.00
426236--426277	21	2.0	21	86	13	61	40	0	0	59	0.97
433740--433785	23	2.0	23	91	0	74	56	4	4	34	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
435143--435216	32	2.4	31	81	6	87	56	5	4	33	1.41
435846--435959	28	4.1	28	69	12	85	44	2	0	52	1.14
435846--435919	29	2.6	27	81	14	78	43	0	0	56	0.99
435846--435919	28	2.6	29	82	6	89	43	0	0	56	0.99
435962--436026	24	2.7	23	76	7	58	36	1	3	58	1.23
437241--437281	18	2.3	19	87	8	59	68	0	0	31	0.90
437340--437414	29	2.6	30	78	14	86	50	0	0	49	1.00
437580--437616	2	18.5	2	100	0	74	48	0	0	51	1.00
437616--437652	2	18.5	2	100	0	74	0	0	48	51	1.00
438161--438209	20	2.5	19	77	9	53	44	2	0	53	1.12
439433--439464	2	16.0	2	100	0	64	50	0	0	50	1.00
439687--439731	23	2.0	23	95	0	81	15	15	4	64	1.44
441683--441740	24	2.4	23	83	11	64	62	0	1	36	1.06
441709--441744	17	2.2	16	90	5	54	61	0	0	38	0.96
441679--441732	22	2.4	23	76	14	67	61	0	1	37	1.07
442707--442778	25	2.7	26	80	10	74	55	0	0	44	0.99
447479--447565	18	4.4	19	73	15	70	35	1	0	63	1.02
447509--447572	23	3.0	23	76	19	59	29	3	0	67	1.06
448860--448923	22	2.6	24	73	11	60	45	0	0	54	0.99
448945--448999	10	5.5	10	87	8	58	56	0	0	43	0.99
448972--449002	10	3.1	10	100	0	62	70	0	0	29	0.87
454557--454605	2	24.5	2	100	0	98	0	48	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
456925--456953	6	4.8	6	100	0	58	13	51	17	17	1.76
458709--458755	18	2.8	18	79	20	57	46	0	0	53	1.00
459891--459925	2	17.5	2	100	0	70	48	0	0	51	1.00
460980--461011	2	16.0	2	100	0	64	0	50	0	50	1.00
462765--462835	22	3.0	22	78	15	70	45	0	1	53	1.09
462758--462812	11	4.8	11	78	14	58	41	0	1	56	1.10
463373--463449	39	2.0	39	82	10	95	46	1	0	51	1.09
463535--463692	81	2.0	81	80	7	178	42	7	5	44	1.56
464124--464209	23	4.0	22	73	17	72	62	2	1	33	1.15
466049--466110	31	2.0	30	84	9	81	70	4	19	4	1.23
466129--466167	20	2.0	19	85	5	51	43	0	0	56	0.99
468222--468298	27	3.1	24	77	12	75	53	1	1	44	1.17
468216--468275	27	2.2	28	90	3	95	53	0	0	46	1.00
468253--468298	23	2.0	24	82	4	58	47	2	2	47	1.26
468766--468803	16	2.6	15	88	12	53	42	0	0	57	0.98
474644--474676	2	16.5	2	100	0	66	48	0	0	51	1.00
475221--475269	11	4.4	11	78	2	53	75	0	2	22	0.90
478138--478166	2	14.5	2	100	0	58	0	0	48	51	1.00
478733--478806	25	3.0	24	72	18	62	41	0	1	56	1.07
478760--478843	29	2.9	30	84	10	104	45	0	0	54	0.99
478743--478843	28	3.7	28	77	15	97	43	0	0	56	0.99
478833--478877	23	1.9	24	86	4	65	26	2	2	68	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
479279--479316	16	2.3	17	86	4	51	42	0	5	52	1.24
479601--479638	20	1.9	20	84	10	51	47	0	0	52	1.00
479829--479855	2	13.5	2	100	0	54	51	0	0	48	1.00
480092--480129	2	19.0	2	100	0	76	50	0	0	50	1.00
480266--480344	22	3.3	22	70	24	61	53	20	7	18	1.69
480469--480502	15	2.3	15	94	0	59	38	5	23	32	1.79
480540--480621	39	2.1	40	97	2	157	25	4	24	45	1.73
480658--480710	27	2.0	26	85	3	70	35	0	0	64	0.94
481414--481454	16	2.6	16	80	11	57	29	0	4	65	1.13
482155--482204	17	2.9	18	77	11	52	64	2	0	34	1.05
483566--483783	118	1.8	118	86	5	316	41	5	5	47	1.50
483867--483918	12	4.2	12	80	2	59	38	1	0	59	1.08
487320--487397	24	3.5	22	77	8	79	58	0	0	41	0.98
487363--487395	7	4.9	7	92	7	59	60	0	0	39	0.97
487363--487395	13	2.4	14	95	5	59	60	0	0	39	0.97
490905--490950	2	23.0	2	100	0	92	0	50	0	50	1.00
492716--492778	28	2.2	28	83	5	83	71	0	1	26	0.95
493991--494045	27	2.0	27	96	0	101	43	3	14	38	1.63
494102--494128	6	4.5	6	100	0	54	48	37	0	14	1.45
496019--496072	15	3.4	17	66	23	53	44	0	0	55	0.99
496076--496142	30	2.2	31	82	15	79	34	7	0	58	1.26
496510--496552	16	2.6	17	82	14	54	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
496518--496555	16	2.4	16	91	4	60	55	0	0	44	0.99
497456--497481	2	13.0	2	100	0	52	50	0	0	50	1.00
498040--498154	57	2.0	56	91	1	185	20	22	1	54	1.53
499155--499220	33	2.0	33	100	0	132	39	12	6	42	1.67
508733--508807	31	2.7	29	78	12	77	60	0	1	38	1.06
508776--508836	18	3.6	16	78	17	61	54	0	0	45	1.00
508780--508826	17	2.9	16	81	12	60	53	0	0	46	1.00
512582--512607	2	13.0	2	100	0	52	50	0	0	50	1.00
513131--513164	17	2.0	17	94	0	59	44	0	2	52	1.16
518761--518789	12	2.4	12	100	0	58	48	0	6	44	1.29
519753--519801	19	2.5	19	80	9	55	55	0	2	42	1.11
520957--521008	12	4.2	12	80	11	52	59	0	0	40	0.97
521018--521065	13	3.5	13	73	15	51	54	2	0	43	1.12
520964--521042	24	3.2	24	68	26	58	60	2	1	35	1.18
522241--522325	25	3.3	24	75	14	64	44	0	1	54	1.07
522241--522310	25	2.9	25	73	12	65	45	0	1	52	1.09
522272--522344	30	2.5	29	82	13	87	46	0	0	53	1.00
522793--522830	18	2.1	19	85	5	51	36	0	5	57	1.21
522904--522929	2	13.0	2	100	0	52	50	50	0	0	1.00
523082--523119	20	1.9	20	84	10	51	47	0	0	52	1.00
524111--524162	27	2.0	27	85	7	72	36	0	0	63	0.95
524427--524458	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
524893--524948	20	3.2	17	75	17	53	30	0	12	57	1.36
527033--527251	119	1.8	118	87	4	325	41	5	5	47	1.49
527335--527386	12	4.2	12	80	2	59	38	1	0	59	1.08
530785--530862	24	3.5	22	77	8	79	58	0	0	41	0.98
530828--530860	7	4.9	7	92	7	59	60	0	0	39	0.97
530828--530860	13	2.4	14	95	5	59	60	0	0	39	0.97
534375--534418	2	22.0	2	100	0	88	0	50	0	50	1.00
536177--536240	27	2.3	27	84	10	85	70	0	1	28	0.97
536178--536242	28	2.3	28	84	5	87	70	0	1	27	0.96
537443--537497	27	2.0	27	96	0	101	43	3	14	38	1.63

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   29   30   31   32   
          33