genome.fa.s48.2.7.7.80.10.50.1000.4.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: Scaffold48
Parameters: 2 7 7 80 10 50 1000
Length:  4619657

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   

This is table  4  of  27  ( 3212 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)
430456--430513	28	2.1	27	80	3	62	36	8	8	46	1.65
430940--431011	32	2.2	33	78	4	85	52	5	1	40	1.33
433727--433752	2	13.0	2	100	0	52	50	0	0	50	1.00
436695--436744	19	2.6	19	87	3	64	36	2	4	58	1.29
436682--436770	19	4.6	19	78	4	61	35	3	7	52	1.47
436855--436910	19	2.9	19	78	5	58	53	5	3	37	1.41
439034--439071	20	1.9	19	89	5	58	34	0	0	65	0.93
440216--440261	19	2.4	19	82	10	58	45	0	0	54	0.99
440688--440750	27	2.4	27	84	7	78	57	0	0	42	0.99
442363--442401	20	2.1	18	85	9	51	46	2	10	41	1.51
444994--445046	22	2.2	24	80	9	65	43	1	0	54	1.11
447105--447168	28	2.2	30	81	10	71	68	1	1	28	1.07
447205--447253	13	4.1	13	72	20	52	67	0	0	32	0.91
447211--447256	22	2.0	23	87	4	67	67	0	0	32	0.91
447235--447325	31	2.8	32	77	13	78	51	1	0	47	1.07
447231--447327	39	2.6	38	81	12	114	53	1	0	45	1.07
447840--447890	21	2.5	20	78	18	52	58	0	0	41	0.98
447860--447905	14	3.1	15	81	12	58	60	0	0	39	0.97
447845--447974	38	3.3	38	72	17	106	57	0	0	41	1.04
447860--447978	29	4.1	29	75	13	88	56	0	0	42	1.05
451765--451838	20	3.8	20	77	12	82	40	1	12	45	1.50
451744--451844	39	2.6	39	93	1	166	37	0	10	50	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
451784--451880	17	5.6	16	72	21	70	45	1	6	47	1.34
451826--451880	16	3.4	17	71	16	53	50	0	1	47	1.11
452054--452094	12	3.5	12	83	6	57	31	2	0	65	1.05
452447--452523	39	1.9	41	84	10	106	55	0	0	44	0.99
452473--452523	24	2.1	24	88	0	75	54	0	0	45	0.99
452462--452517	14	4.4	14	70	20	52	50	0	0	50	1.00
452545--452611	15	4.2	16	68	28	54	40	0	1	58	1.07
452545--452635	33	2.8	32	76	21	93	40	1	1	57	1.13
454280--454323	21	2.2	20	84	12	54	4	11	11	72	1.25
455987--456043	27	2.3	25	82	11	64	43	0	0	56	0.99
456412--456453	22	1.9	22	90	0	66	61	0	2	35	1.09
459977--460017	21	1.9	22	85	5	57	63	0	2	34	1.08
460278--460307	15	2.1	14	93	6	51	26	0	0	73	0.84
460275--460316	21	2.0	21	85	0	57	28	2	0	69	1.01
460418--460468	14	3.6	14	76	10	50	35	0	3	60	1.15
460412--460466	29	2.0	27	82	13	67	34	0	3	61	1.13
461208--461718	255	2.0	255	100	0	1022	27	25	17	29	1.97
462126--462152	4	6.8	4	100	0	54	77	0	0	22	0.76
462367--462602	118	2.0	117	99	0	463	28	26	19	25	1.99
464245--464303	16	3.5	17	75	11	59	61	0	0	38	0.96
468820--468861	3	14.0	3	100	0	84	33	0	0	66	0.92
469141--469215	29	2.6	29	81	10	82	45	8	9	37	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
470624--470650	3	9.0	3	100	0	54	33	0	33	33	1.58
470916--470971	26	2.1	28	86	6	80	50	0	3	46	1.19
471507--471546	18	2.2	18	86	8	55	50	2	2	45	1.28
472968--473002	2	17.5	2	100	0	70	51	0	0	48	1.00
477904--477947	21	2.1	21	83	8	54	61	9	0	29	1.27
481734--481842	41	2.7	41	76	0	128	36	10	14	38	1.80
481964--482004	21	2.0	21	95	0	73	29	12	17	41	1.85
486207--486240	2	17.0	2	100	0	68	50	0	0	50	1.00
486760--486887	37	3.1	42	69	22	112	50	0	3	46	1.17
486754--486934	83	2.2	80	87	8	262	50	0	2	46	1.13
486882--486936	16	3.4	16	75	7	58	54	0	0	45	0.99
486949--486984	18	2.0	18	94	0	63	63	0	0	36	0.94
487422--487481	25	2.4	27	78	16	74	50	1	0	48	1.11
487465--487513	13	3.6	14	73	21	50	42	0	0	57	0.99
487468--487532	24	2.5	26	78	9	62	44	1	0	53	1.09
487856--487882	4	6.8	4	100	0	54	0	22	0	77	0.76
490251--490328	39	2.0	39	85	7	106	44	0	0	55	0.99
490283--490322	13	2.9	14	85	11	55	47	0	0	52	1.00
492013--492098	34	2.5	35	79	11	106	61	2	1	34	1.16
492048--492099	26	2.0	26	88	7	79	65	3	0	30	1.10
493004--493039	2	18.0	2	100	0	72	50	50	0	0	1.00
493393--493421	7	4.1	7	100	0	58	86	0	0	13	0.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
493757--493784	4	7.0	4	100	0	56	75	0	0	25	0.81
494024--494068	2	23.0	2	90	4	74	51	0	0	48	1.00
499636--499678	22	2.0	22	100	0	86	39	0	9	51	1.34
499644--499682	20	2.0	20	100	0	78	41	0	7	51	1.31
509041--509073	16	2.1	16	94	0	57	33	0	0	66	0.92
509040--509078	15	2.6	15	80	11	53	38	0	0	61	0.96
510533--510607	17	4.4	17	75	16	66	54	0	0	45	0.99
510564--510612	17	3.1	15	80	11	53	46	0	2	51	1.12
510543--510606	32	2.0	33	90	3	103	51	0	0	48	1.00
511067--511114	24	2.0	25	88	12	73	64	0	0	35	0.94
511095--511124	15	1.9	16	93	6	53	60	0	0	40	0.97
511424--511464	20	2.0	21	85	4	57	34	0	2	63	1.08
511442--511486	14	3.1	14	78	6	54	37	0	0	62	0.96
511459--511493	17	2.1	17	88	0	52	34	0	0	65	0.93
511727--511761	17	2.1	17	89	5	54	40	2	2	54	1.30
511718--511771	27	2.0	27	81	0	63	42	1	1	53	1.22
512009--512072	29	2.2	29	78	10	69	62	1	3	32	1.20
512294--512409	6	19.8	6	68	19	68	61	0	0	38	0.96
512266--512410	17	7.7	18	66	26	61	62	0	0	37	1.01
512290--512411	38	3.2	38	71	17	103	61	0	0	38	0.96
512294--512409	11	11.0	11	70	21	79	61	0	0	38	0.96
516580--516613	15	2.4	14	90	5	50	73	0	0	26	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
516830--516868	2	19.5	2	100	0	78	51	0	0	48	1.00
519145--519176	17	1.9	17	93	6	57	37	0	0	62	0.95
519147--519189	16	2.6	16	85	3	50	44	0	0	55	0.99
519408--519439	15	2.1	15	100	0	64	43	0	0	56	0.99
519553--519582	5	5.8	5	92	7	51	60	0	0	40	0.97
519641--519677	16	2.4	16	90	4	58	72	0	0	27	0.84
520626--520664	20	2.0	20	85	10	53	56	0	0	43	0.99
521212--521236	2	12.5	2	100	0	50	52	0	0	48	1.00
521672--521730	21	2.6	22	76	13	57	54	0	0	45	0.99
526278--526316	13	3.2	13	92	7	64	43	0	0	56	0.99
526284--526321	13	3.4	11	89	10	51	44	0	0	55	0.99
527376--527411	18	2.0	18	88	0	54	47	2	2	47	1.31
531077--531106	8	3.6	8	95	4	51	10	3	0	86	0.67
531692--531746	25	2.2	26	80	9	69	45	0	0	54	0.99
531755--531800	11	4.3	11	81	13	51	47	0	0	52	1.00
533156--533231	2	38.0	2	78	10	75	47	3	3	44	1.40
533679--533711	3	11.3	3	93	6	59	69	0	0	30	0.88
534074--534150	33	2.3	34	77	4	84	50	10	3	35	1.55
534418--534492	26	2.8	26	75	13	71	38	0	2	58	1.12
534479--534504	7	3.7	7	100	0	52	30	0	0	69	0.89
534562--534630	26	2.6	27	79	13	79	52	0	0	47	1.00
538893--538957	33	1.9	34	90	6	105	36	0	6	56	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
540171--540217	24	2.0	24	86	0	67	48	4	6	40	1.48
540194--540247	23	2.6	19	74	20	54	48	1	1	48	1.23
540780--540816	20	1.9	18	89	10	56	45	5	0	48	1.25
540961--540987	2	13.5	2	100	0	54	51	0	0	48	1.00
543183--543209	1	27.0	1	100	0	54	100	0	0	0	0.00
544482--544544	27	2.3	27	100	0	126	36	3	11	49	1.54
544627--544671	12	3.7	12	87	3	63	75	0	0	24	0.80
546193--546228	18	1.9	19	94	5	65	50	0	11	38	1.38
546281--546328	25	1.9	25	86	0	69	27	2	20	50	1.60
547290--547323	2	17.0	2	100	0	68	50	0	0	50	1.00

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