genome.fa.s21.2.7.7.80.10.50.1000.4.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: Scaffold21
Parameters: 2 7 7 80 10 50 1000
Length:  2821038

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

This is table  4  of  15  ( 1753 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)
428231--428303	21	3.7	20	75	19	73	56	0	1	42	1.08
428232--428312	32	2.5	31	76	7	81	54	0	1	44	1.08
428314--428378	15	4.5	15	64	24	50	53	0	0	46	1.00
428291--428397	42	2.5	42	95	1	187	50	0	0	49	1.00
429906--429950	23	1.9	23	86	4	63	57	2	8	31	1.41
429918--429966	23	2.1	23	85	7	64	63	0	4	32	1.13
429919--429968	11	4.5	11	85	5	57	62	0	4	34	1.14
429955--430031	32	2.4	32	84	6	93	58	5	0	36	1.21
429980--430033	17	3.4	16	76	23	60	59	3	0	37	1.15
432112--432150	2	20.5	2	87	10	55	56	0	0	43	0.99
432109--432150	13	3.2	13	96	0	75	57	0	0	42	0.99
432112--432150	15	2.6	15	95	0	69	56	0	0	43	0.99
432387--432466	33	2.5	31	79	6	79	50	0	0	50	1.00
432407--432472	15	4.3	15	74	9	62	54	0	0	45	0.99
433248--433282	18	1.9	18	88	11	54	5	17	5	71	1.25
435652--435698	13	3.8	12	78	18	51	61	4	2	31	1.27
435653--435711	26	2.3	24	85	8	73	62	8	1	27	1.33
436451--436489	19	2.1	18	86	13	53	61	0	0	38	0.96
436652--436717	28	2.4	28	87	2	89	39	0	13	46	1.43
436698--436758	24	2.5	24	81	0	59	34	4	14	45	1.67
436718--436763	24	1.9	24	90	0	74	28	6	15	50	1.69
438598--438640	21	2.1	20	87	12	61	55	4	6	32	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
438598--438640	20	2.1	20	87	12	61	55	4	6	32	1.47
439564--439588	2	12.5	2	100	0	50	52	0	0	48	1.00
439671--439730	30	2.0	30	93	0	102	38	5	16	40	1.71
441434--441476	2	22.0	2	90	4	70	46	0	2	51	1.13
444560--444602	17	2.5	17	88	3	59	72	0	0	27	0.85
445121--445163	22	2.0	22	90	4	70	53	0	0	46	1.00
445533--445569	16	2.3	16	86	13	58	32	0	2	64	1.07
446980--447020	20	2.0	20	100	0	82	43	0	4	51	1.23
447452--447492	2	20.5	2	100	0	82	51	0	0	48	1.00
450542--450593	15	3.3	15	82	10	68	51	0	1	46	1.12
450541--450625	41	2.1	40	78	10	93	51	0	2	45	1.13
450607--450701	24	4.1	24	71	15	74	42	3	1	53	1.23
450627--450676	19	2.7	20	84	9	61	38	0	0	62	0.96
450647--450686	14	2.9	15	82	14	50	32	0	0	67	0.91
450634--450686	19	2.6	20	82	11	63	35	0	0	64	0.94
456081--456105	2	12.5	2	100	0	50	48	0	0	52	1.00
460686--460754	31	2.2	33	84	5	88	53	0	1	44	1.09
461142--461172	4	7.8	4	92	0	53	0	70	0	29	0.87
462764--462827	21	3.1	21	75	20	64	57	0	1	40	1.08
462754--462828	35	2.1	36	83	11	93	54	0	1	44	1.08
463328--463388	21	3.0	20	83	6	70	34	0	1	63	1.04
463345--463388	19	2.2	21	84	8	56	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
464092--464130	17	2.2	18	86	4	53	43	0	2	53	1.14
464925--464963	15	2.6	15	84	12	53	64	0	2	33	1.08
469674--469745	18	3.9	18	66	10	56	52	0	0	47	1.00
470395--470455	20	3.4	17	71	18	52	40	1	0	57	1.08
470597--470694	2	51.0	2	74	11	71	51	3	3	42	1.33
470887--470965	21	4.0	21	82	6	94	62	0	0	37	0.96
470901--471000	47	2.1	46	81	5	110	58	0	3	39	1.14
472854--472889	13	2.9	13	88	12	58	52	5	0	41	1.24
472855--472894	13	3.2	13	80	20	50	57	2	0	40	1.12
473675--473712	16	2.3	17	81	4	51	47	0	0	52	1.00
476085--476126	12	3.5	12	78	12	50	54	0	0	45	0.99
476073--476135	24	2.7	23	70	7	63	65	0	0	34	0.93
476590--476659	28	2.9	23	75	22	72	55	0	0	44	0.99
476601--476665	20	3.3	20	77	14	64	58	0	0	41	0.98
476613--476706	17	5.1	20	75	22	66	58	0	1	40	1.05
476637--476789	25	5.8	25	68	20	71	54	0	0	44	1.04
476629--476671	20	2.0	22	86	8	63	65	0	0	34	0.93
476622--476709	19	4.6	19	73	12	65	59	0	1	39	1.05
476605--476728	28	4.5	27	78	16	112	55	0	0	43	1.05
476704--476743	18	2.2	18	86	4	53	42	0	0	57	0.98
476716--476756	18	2.3	18	86	0	55	39	0	0	60	0.96
476738--476799	14	4.6	13	75	17	56	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
476744--476789	5	9.4	5	77	13	51	58	0	0	41	0.98
477447--477477	2	16.0	2	93	6	55	48	0	0	51	1.00
478638--478677	20	2.0	20	100	0	80	45	25	5	25	1.73
481984--482027	20	2.3	19	84	4	52	36	11	0	52	1.38
482052--482097	24	1.9	24	83	16	60	28	8	0	63	1.24
484669--484715	17	2.7	17	86	3	67	65	0	0	34	0.93
485670--485719	20	2.5	21	87	12	79	48	0	0	52	1.00
485670--485720	19	2.6	19	84	9	68	47	0	0	52	1.00
485690--485756	30	2.2	30	84	5	82	47	0	0	52	1.00
486001--486041	22	1.9	21	85	5	55	29	0	0	70	0.87
487334--487401	9	8.2	9	73	15	58	54	1	1	42	1.18
487334--487401	17	4.1	17	72	11	61	54	1	1	42	1.18
487336--487424	23	3.8	22	72	20	74	53	1	2	42	1.20
487319--487423	40	2.6	40	89	3	156	55	1	1	40	1.22
487359--487423	20	3.5	17	72	22	58	53	1	3	41	1.25
487656--487718	33	1.9	34	84	12	87	50	4	0	44	1.23
488621--488651	15	2.1	15	93	0	53	38	0	0	61	0.96
492452--492495	19	2.4	19	81	11	56	50	0	0	50	1.00
492455--492572	47	2.5	45	76	10	112	52	0	0	46	1.06
494580--494647	25	2.6	28	73	20	74	48	0	2	48	1.16
494626--494660	17	1.9	19	88	11	56	57	0	0	42	0.99
494619--494667	19	2.5	20	80	16	57	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)
496092--496156	30	2.1	30	85	8	85	23	4	4	67	1.28
499894--499967	31	2.6	29	80	18	75	43	2	0	54	1.14
500021--500050	2	15.0	2	100	0	60	50	0	0	50	1.00
504770--504804	13	2.5	14	90	9	54	51	0	0	48	1.00
506017--506124	57	1.9	57	82	0	135	17	20	17	44	1.87
506128--506210	42	2.0	42	95	0	148	14	27	21	36	1.93
506154--506210	21	2.8	20	73	7	60	14	28	19	38	1.90
506173--506292	51	2.3	54	87	7	167	15	20	22	41	1.89
507391--507441	24	2.1	24	85	0	66	1	31	5	60	1.31
508622--508705	40	2.1	40	93	0	141	44	23	7	25	1.79
510431--510460	1	30.0	1	93	0	51	0	3	96	0	0.21
512952--513010	21	2.6	23	78	13	68	44	0	6	49	1.29
513182--513251	26	2.6	26	82	8	79	45	0	1	52	1.09
515953--515977	2	12.5	2	100	0	50	52	48	0	0	1.00
515977--516001	2	12.5	2	100	0	50	52	0	0	48	1.00
517155--517179	7	3.6	7	100	0	50	88	0	0	12	0.53
518372--518413	23	2.0	22	86	13	61	52	2	7	38	1.42
519495--519520	4	6.5	4	100	0	52	76	0	0	23	0.78
520508--520547	12	3.3	12	86	10	55	57	0	0	42	0.98
520525--520583	26	2.4	25	80	11	68	50	0	0	49	1.00
520492--520578	44	2.0	43	82	6	104	52	0	0	47	1.00
521904--521954	23	2.2	23	86	6	68	56	0	1	41	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
522549--522607	21	3.1	19	74	11	57	32	1	0	66	1.02
523662--523718	25	2.4	24	85	8	82	50	0	0	49	1.00
524434--524471	2	19.0	2	100	0	76	50	0	0	50	1.00
535592--535647	24	2.3	24	78	0	58	41	0	3	55	1.17
535877--535904	2	14.0	2	100	0	56	50	0	0	50	1.00
536490--536558	30	2.3	30	92	0	111	43	20	2	33	1.67
570297--570346	25	2.0	25	100	0	100	36	16	28	20	1.93
574181--574228	4	12.0	4	86	0	60	45	4	4	45	1.41
574181--574228	6	8.0	6	83	0	60	45	4	4	45	1.41
574191--574229	16	2.4	16	100	0	78	43	0	7	48	1.31

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