genome.fa.s221.2.7.7.80.10.50.1000.4.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: Scaffold221
Parameters: 2 7 7 80 10 50 1000
Length:  2539808

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  4  of  19  ( 2279 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)
488788--488822	17	2.0	18	88	5	54	62	11	0	25	1.28
493981--494022	20	2.0	20	86	9	57	57	0	0	42	0.99
493963--494037	21	3.2	26	75	21	76	60	0	0	40	0.97
494437--494494	20	2.8	20	76	21	66	44	3	1	50	1.29
494948--494992	21	2.1	21	84	8	56	35	2	0	62	1.08
495025--495057	15	2.3	15	89	5	50	39	0	0	60	0.97
495018--495065	25	1.9	25	87	8	71	43	0	0	56	0.99
495043--495096	21	2.7	20	80	5	63	46	1	0	51	1.11
495194--495242	25	2.0	25	88	8	73	69	0	0	30	0.89
495204--495287	8	10.6	8	71	16	50	58	0	0	41	0.98
495199--495357	25	6.2	25	70	16	85	58	1	1	38	1.14
495266--495326	11	5.8	11	73	26	53	55	0	0	44	0.99
495274--495333	29	2.1	29	81	6	68	58	0	0	41	0.98
495911--495950	19	2.3	17	80	19	55	45	0	0	55	0.99
495947--495984	20	1.9	20	89	10	60	63	0	0	36	0.95
496475--496550	27	2.8	27	70	9	73	47	3	1	47	1.29
496536--496626	24	3.9	24	73	15	75	35	4	0	60	1.17
496536--496590	19	2.9	19	82	10	60	32	3	0	63	1.12
496559--496612	18	3.0	18	75	5	56	33	1	0	64	1.04
497022--497053	11	2.6	13	85	14	50	56	0	0	43	0.99
497062--497123	25	2.6	24	80	9	74	35	0	0	64	0.94
497075--497133	15	3.9	14	76	12	55	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
497058--497235	54	3.5	49	76	16	139	41	0	0	58	0.98
497174--497227	22	2.5	22	84	6	74	35	0	0	64	0.94
497181--497228	14	3.4	14	82	8	62	33	0	0	66	0.92
497513--497563	8	6.1	8	80	17	59	60	0	0	39	0.97
497515--497550	15	2.3	16	90	4	56	58	0	0	41	0.98
497526--497583	26	2.2	26	84	0	71	58	1	1	37	1.18
497565--497631	13	5.1	13	75	10	64	49	2	2	44	1.32
498034--498078	9	5.2	9	77	17	51	55	0	0	44	0.99
498036--498069	15	2.1	17	89	10	54	61	0	0	38	0.96
498610--498635	13	2.0	13	100	0	52	53	0	0	46	1.00
499547--499597	15	3.1	15	75	25	50	56	0	0	43	0.99
499544--499587	15	2.7	17	74	25	58	52	0	0	47	1.00
499583--499627	15	2.9	15	76	3	54	53	0	0	46	1.00
502178--502202	2	12.5	2	100	0	50	52	0	0	48	1.00
503228--503269	12	3.4	13	81	18	54	45	0	0	54	0.99
503210--503269	25	2.4	24	81	15	61	48	0	0	51	1.00
503258--503305	25	2.0	24	84	12	62	52	0	4	43	1.20
504194--504309	9	13.9	9	67	22	51	43	0	0	56	0.99
504192--504255	24	2.7	24	82	4	67	40	0	1	57	1.08
504197--504231	16	2.3	15	90	5	52	40	0	0	60	0.97
504197--504262	25	2.8	24	79	6	64	42	0	0	57	0.98
504198--504240	13	3.4	13	81	12	54	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
504224--504301	34	2.4	31	85	10	102	44	0	0	55	0.99
504245--504315	32	2.1	34	82	10	85	45	1	0	53	1.09
504673--504716	20	2.3	19	81	11	54	56	0	2	40	1.11
504688--504748	24	2.5	24	75	15	63	50	0	0	49	1.00
504967--505011	16	2.8	16	77	16	56	48	0	0	51	1.00
504962--505023	32	2.0	30	84	6	79	48	0	0	51	1.00
505263--505327	20	3.2	20	77	2	58	33	3	7	55	1.44
507130--507161	16	1.9	17	93	6	57	37	0	0	62	0.95
507711--507749	20	2.0	19	85	5	51	51	0	2	46	1.14
508517--508557	6	7.0	6	78	15	50	48	0	2	48	1.14
508517--508567	12	4.5	11	76	11	50	47	0	1	50	1.12
508516--508567	18	3.0	17	83	5	61	48	0	1	50	1.12
508517--508557	11	3.5	12	78	15	50	48	0	2	48	1.14
508525--508567	16	2.5	17	85	10	61	44	0	2	53	1.13
508525--508569	17	2.6	17	80	13	56	44	0	2	53	1.13
511135--511159	13	1.9	13	100	0	50	48	16	12	24	1.79
511323--511373	26	2.0	26	100	0	102	19	17	3	58	1.54
511324--511370	13	3.3	16	67	32	52	21	19	4	55	1.60
513571--513603	11	2.8	12	86	13	50	39	0	0	60	0.97
514517--514581	15	4.5	15	73	7	71	44	0	0	55	0.99
514531--514663	24	5.3	25	84	11	157	46	0	0	52	1.05
515988--516079	41	2.3	42	80	14	104	46	0	1	52	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
521417--521470	20	2.6	21	75	21	60	51	0	3	44	1.19
522494--522537	22	2.0	22	86	8	63	36	0	0	63	0.95
524654--524713	13	4.6	14	74	15	58	40	0	0	60	0.97
525826--525927	18	6.0	17	70	22	72	58	0	0	40	1.04
525861--525924	20	3.1	20	71	8	56	59	0	0	40	0.97
529358--529639	146	1.9	147	89	4	442	32	17	12	37	1.88
530888--530913	2	13.0	2	100	0	52	50	0	0	50	1.00
531387--531428	21	1.9	21	85	9	57	54	2	0	42	1.13
533425--533553	63	2.1	62	88	4	188	54	3	6	36	1.41
536041--536073	17	1.9	17	88	11	50	48	3	0	48	1.17
536832--536862	6	5.2	6	100	0	62	16	0	16	67	1.23
537755--537793	2	19.5	2	100	0	78	0	51	0	48	1.00
538274--538322	18	2.9	17	80	14	57	36	0	0	63	0.95
543073--543097	7	3.6	7	100	0	50	88	0	12	0	0.53
544174--544248	17	4.1	18	80	16	75	64	1	0	34	1.02
544174--544248	20	4.1	18	75	16	64	64	1	0	34	1.02
544175--544248	36	2.1	36	82	5	87	64	1	0	33	1.02
544174--544269	27	3.7	25	76	16	97	61	2	0	36	1.08
544227--544288	32	2.0	32	87	3	90	54	4	0	40	1.22
545149--545234	30	2.7	33	84	10	108	62	2	0	34	1.08
545356--545389	2	17.5	2	93	6	61	50	0	0	50	1.00
545435--545473	19	2.1	19	90	0	60	84	0	12	2	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
546024--546054	16	1.9	16	93	0	53	51	0	0	48	1.00
546121--546168	16	2.8	17	78	9	53	56	0	0	43	0.99
546640--546701	28	2.2	28	85	2	79	50	0	0	50	1.00
547846--547881	18	1.9	19	88	5	56	58	0	0	41	0.98
547847--547955	30	3.7	30	71	16	79	55	0	0	44	0.99
547877--547919	19	2.6	16	80	20	52	51	0	0	48	1.00
547879--547918	18	2.2	18	91	8	64	52	0	0	47	1.00
547866--547944	23	3.4	23	71	11	63	55	0	0	44	0.99
549803--549838	18	1.9	20	88	11	58	2	5	2	88	0.67
550522--550567	22	2.0	23	88	12	69	63	0	0	36	0.95
552137--552179	21	2.1	20	83	12	52	23	2	4	69	1.18
558609--558638	15	1.9	16	93	6	53	36	6	3	53	1.44
559769--559811	21	2.0	22	86	4	61	39	0	0	60	0.97
560824--560889	5	13.6	5	70	17	50	34	0	1	63	1.04
560825--560898	23	3.1	23	84	13	89	32	0	1	66	1.00
560825--560893	17	3.9	17	75	9	52	33	0	1	65	1.02
560860--560912	16	3.4	16	77	10	56	26	1	1	69	1.09
560824--560909	33	2.5	35	80	10	90	33	1	1	63	1.09
561202--561250	15	3.1	15	80	19	55	42	0	2	55	1.11
561496--561535	18	2.3	18	87	8	57	62	0	5	32	1.17
562042--562074	14	2.3	15	94	5	59	30	0	0	69	0.88
562274--562309	18	1.9	19	94	5	65	36	2	0	61	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
562305--562355	21	2.5	21	79	17	63	56	0	0	43	0.99
563025--563062	20	1.9	20	84	10	51	34	0	2	63	1.09
563486--563556	12	6.2	11	73	12	54	29	2	1	66	1.15
563484--563556	18	4.1	19	74	15	59	30	2	1	65	1.15
564126--564166	21	1.9	21	85	5	55	65	4	2	26	1.25
564630--564730	26	3.8	27	76	14	77	52	0	0	46	1.07
564680--564727	21	2.2	22	85	14	64	54	2	0	43	1.12
566300--566345	20	2.2	20	88	3	65	36	0	2	60	1.09
568577--568606	2	15.0	2	92	0	51	0	3	46	50	1.18
571498--571539	13	3.0	14	80	19	52	52	0	0	47	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19