genome.fa.s372.2.7.7.80.10.50.1000.3.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: Scaffold372
Parameters: 2 7 7 80 10 50 1000
Length:  1060101

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 1049 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)
364064--364106	21	2.0	21	82	8	52	41	2	4	51	1.35
364753--364849	15	6.1	16	69	23	62	41	0	1	57	1.05
364754--364846	18	5.5	17	65	23	52	39	0	1	59	1.05
365003--365053	22	2.5	21	79	17	54	49	0	0	50	1.00
365017--365087	27	2.6	27	78	10	72	42	0	0	57	0.98
365058--365106	14	3.6	14	74	20	50	46	4	0	48	1.20
365618--365655	18	2.1	18	90	5	58	65	0	2	31	1.06
365592--365662	23	3.1	23	79	15	76	66	0	1	32	1.01
365598--365660	28	2.2	29	86	8	85	65	0	1	33	1.03
365872--365901	2	15.0	2	100	0	60	50	0	0	50	1.00
366063--366103	22	2.0	20	90	9	64	60	0	0	39	0.96
372341--372400	30	2.0	30	87	6	86	56	1	3	38	1.26
372376--372462	9	9.3	9	68	12	50	39	1	3	56	1.24
372547--372601	22	2.5	23	82	5	69	52	12	0	34	1.40
372559--372604	23	2.0	23	91	0	74	52	13	0	34	1.40
372562--372612	23	2.2	23	85	0	66	54	9	0	35	1.33
372599--372670	27	2.8	26	87	10	103	75	4	0	20	0.97
372591--372693	44	2.3	44	80	6	111	71	3	0	24	1.02
372609--372670	16	3.7	16	76	23	65	77	3	0	19	0.90
372594--372701	24	4.3	25	77	12	80	72	3	0	24	1.01
372610--372693	9	9.6	8	78	16	71	76	3	0	20	0.94
372726--372804	31	2.8	27	78	14	86	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
372735--372795	31	2.0	30	90	3	95	50	0	0	49	1.00
378367--378402	2	18.0	2	100	0	72	50	0	0	50	1.00
379668--379745	25	3.3	23	82	12	95	61	2	1	34	1.18
379674--379770	11	8.9	11	65	18	51	58	2	1	38	1.16
380329--380457	9	15.1	8	65	24	52	56	0	1	41	1.08
380368--380453	20	4.3	20	70	12	61	55	0	2	41	1.12
380329--380410	20	4.0	21	72	26	68	57	0	0	42	0.98
380915--380978	36	1.9	33	82	17	80	32	4	3	59	1.34
382332--382372	21	2.0	20	86	13	57	60	0	0	39	0.96
382430--382454	13	1.9	13	100	0	50	72	0	0	28	0.86
384921--384959	15	2.6	15	79	0	51	41	0	0	58	0.98
385872--385905	13	2.6	13	90	0	50	41	2	0	55	1.15
387687--387716	15	2.1	14	93	6	51	30	0	6	63	1.20
387917--387941	11	2.3	11	100	0	50	24	0	0	76	0.80
390799--390867	13	5.6	13	77	8	65	44	0	1	53	1.09
390800--390868	19	3.7	19	82	7	88	44	0	1	53	1.09
390793--390871	36	2.2	37	82	8	101	46	0	1	51	1.08
390800--390867	6	11.2	6	75	9	57	44	0	1	54	1.09
393149--393205	21	2.7	21	76	15	64	52	0	0	47	1.00
396607--396693	24	3.6	24	69	17	65	65	2	4	27	1.24
396734--396763	13	2.3	13	94	0	51	76	3	0	20	0.92
396824--396882	27	2.1	28	81	9	66	32	3	3	61	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
396913--396951	20	2.0	20	89	0	60	0	33	0	66	0.92
396914--396964	26	2.0	26	84	0	66	0	31	0	68	0.90
397136--397168	2	16.5	2	93	0	57	45	0	0	54	0.99
397138--397179	8	5.4	8	88	5	50	38	0	0	61	0.96
397173--398991	310	5.9	304	88	5	2455	32	9	10	48	1.69
397141--398991	615	3.0	610	86	8	2534	32	8	10	48	1.68
398392--398420	2	14.5	2	100	0	58	51	0	0	48	1.00
397137--398991	930	2.0	930	88	5	2748	32	8	10	48	1.68
403177--403202	2	13.0	2	100	0	52	50	0	0	50	1.00
404088--404132	2	22.5	2	100	0	90	51	0	0	48	1.00
405208--405250	2	21.5	2	100	0	86	51	0	0	48	1.00
405628--405659	2	16.0	2	100	0	64	50	0	0	50	1.00
406375--406413	2	19.5	2	100	0	78	51	0	48	0	1.00
406991--407026	6	6.0	6	93	0	63	47	16	2	33	1.61
410180--410214	3	11.7	3	100	0	70	34	0	0	65	0.93
410900--410937	20	1.9	20	94	0	67	42	2	28	26	1.69
414307--414334	2	14.0	2	100	0	56	50	0	0	50	1.00
417189--417277	7	13.0	7	69	20	55	41	1	0	57	1.06
417217--417284	16	4.2	17	76	23	67	42	0	0	57	0.98
417221--417302	32	3.0	26	75	21	78	45	0	1	53	1.08
417189--417277	22	4.6	20	66	25	57	41	1	0	57	1.06
417227--417290	32	2.0	33	90	3	103	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
417240--417296	14	3.8	14	74	17	51	47	0	0	52	1.00
417240--417293	16	3.4	16	72	10	56	50	0	0	50	1.00
417556--417593	7	5.4	7	84	9	51	44	0	0	55	0.99
417556--417593	13	2.7	14	84	8	51	44	0	0	55	0.99
417599--417628	15	2.0	15	93	0	51	53	10	6	30	1.60
417883--417939	20	2.8	20	82	10	62	50	0	0	49	1.00
419887--419949	28	2.5	24	77	12	63	44	0	1	53	1.10
419998--420035	14	2.7	14	87	0	58	57	0	0	42	0.98
420231--420269	16	2.5	16	87	4	53	61	2	0	35	1.10
421390--421420	16	1.9	16	100	0	62	22	6	12	58	1.58
424196--424278	42	2.0	41	81	6	96	48	1	0	50	1.08
424348--424409	33	1.9	32	86	3	88	48	0	0	51	1.00
424361--424452	21	4.3	23	69	21	76	53	0	0	46	1.00
424374--424457	42	2.0	42	84	9	109	54	1	0	44	1.07
424567--424600	11	2.8	13	82	17	54	38	0	0	61	0.96
424567--424612	24	1.9	24	82	8	58	36	2	0	60	1.09
424581--424647	17	3.9	17	76	5	55	40	1	0	58	1.07
424597--424659	18	3.6	18	81	12	69	39	1	1	57	1.18
426015--426058	22	2.0	22	95	0	79	43	18	13	25	1.86
426488--426523	16	2.2	17	90	5	56	33	8	0	58	1.28
430331--430388	2	30.5	2	84	10	59	50	3	1	44	1.29
431489--431522	17	2.0	17	94	0	59	32	5	2	58	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
431490--431529	17	2.4	17	86	0	53	32	7	5	55	1.50
433866--433914	3	16.7	3	95	4	91	30	0	0	69	0.89
434676--434722	16	3.0	15	72	22	51	40	2	6	51	1.39
437999--438088	2	47.0	2	76	8	89	45	1	1	52	1.15
438007--438078	21	3.5	21	92	3	121	45	0	1	52	1.09
438006--438088	19	4.3	19	84	6	112	44	1	1	53	1.16
439859--439893	15	2.4	15	90	4	54	34	0	0	65	0.93
440640--440696	16	3.2	16	79	16	60	43	0	0	56	0.99
440663--440703	20	2.0	20	86	9	57	46	0	0	53	1.00
441260--441286	4	6.8	4	100	0	54	22	25	0	51	1.48
450381--450406	13	2.0	13	100	0	52	30	0	23	46	1.53
454820--454860	6	6.8	6	94	0	64	0	4	65	29	1.13
455598--455645	23	2.1	23	100	0	96	37	22	27	12	1.90
460656--460723	25	2.8	25	73	20	63	55	2	0	41	1.15
460654--460716	27	2.2	28	83	10	76	53	3	0	42	1.16
460660--460727	22	2.8	24	80	17	77	57	2	0	39	1.14
460646--460718	36	2.0	36	81	0	83	52	4	0	43	1.20
461237--461302	31	2.0	33	85	8	91	63	1	0	34	1.04
461402--461450	17	2.8	17	75	6	53	51	0	0	48	1.00
461398--461456	27	2.2	26	84	6	73	54	0	0	45	0.99
461697--461746	23	2.1	24	88	3	75	68	0	0	32	0.90
461703--461774	18	4.2	16	73	18	56	59	1	0	38	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
461729--461773	17	2.9	15	81	15	56	55	2	0	42	1.12
462417--462458	15	2.5	16	85	14	50	21	0	2	76	0.90
462413--462458	20	2.4	19	82	13	58	21	0	2	76	0.90
462570--462604	3	11.7	3	100	0	70	34	0	0	65	0.93
463032--463101	24	2.9	24	72	18	65	37	1	0	61	1.05
463533--463562	11	2.7	11	100	0	60	20	6	6	66	1.38
463221--463730	266	2.0	255	92	5	844	39	6	4	49	1.49
464660--464694	13	2.6	13	90	4	52	68	0	0	31	0.90
465059--465134	31	2.5	31	91	4	129	38	2	3	55	1.33
465080--465239	16	9.8	16	66	12	74	39	3	1	55	1.26

Tables:   1   2   3   4   5   6   7   8   9