genome.fa.s243.2.7.7.80.10.50.1000.3.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: Scaffold243
Parameters: 2 7 7 80 10 50 1000
Length:  726772

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 482 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)
436278--436332	15	3.7	15	78	14	60	40	0	0	60	0.97
436747--436783	2	18.5	2	100	0	74	48	0	51	0	1.00
438684--438732	8	6.1	8	86	6	55	36	0	2	61	1.08
438684--438730	17	2.9	16	84	6	58	36	0	2	61	1.08
439727--439763	2	18.5	2	100	0	74	0	48	0	51	1.00
440299--440357	22	2.5	22	74	17	57	55	0	0	44	0.99
440354--440415	19	3.2	18	75	24	63	37	0	0	62	0.95
440354--440416	21	3.0	21	74	19	69	36	0	0	63	0.95
440349--440433	41	2.2	40	83	10	115	36	0	0	63	0.95
440361--440442	36	2.1	40	80	10	91	36	2	0	60	1.10
448959--448993	18	1.9	18	94	0	61	40	2	0	57	1.14
450863--450891	2	14.5	2	100	0	58	51	0	0	48	1.00
451155--451215	16	3.8	16	73	18	54	55	0	1	42	1.09
451161--451215	17	3.4	16	75	25	53	56	0	1	41	1.10
451383--451434	24	2.2	23	83	10	61	46	1	0	51	1.12
451022--453367	473	5.0	473	91	2	3738	43	8	7	40	1.65
452329--452380	24	2.2	23	83	10	61	46	1	0	51	1.12
453058--453118	27	2.3	27	75	16	63	52	1	3	42	1.27
454931--454986	17	3.3	16	74	18	51	39	0	0	60	0.97
454937--454992	26	2.0	28	83	10	71	37	0	0	62	0.95
458815--458854	19	2.1	19	90	0	62	50	0	0	50	1.00
459327--459388	23	2.6	25	80	19	78	58	1	0	40	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
460619--460749	66	2.0	66	93	0	226	29	11	22	35	1.90
460795--460837	18	2.4	18	92	0	68	53	2	0	44	1.13
463429--463566	69	2.0	69	82	2	170	28	24	16	30	1.97
467087--467176	5	18.2	5	73	15	80	55	0	0	44	0.99
467087--467176	9	9.1	10	74	15	80	55	0	0	44	0.99
467068--467176	40	2.8	37	75	12	103	53	0	0	46	1.00
467079--467183	15	6.8	15	70	14	61	54	0	0	45	0.99
467343--467411	17	3.9	17	80	14	70	47	0	0	52	1.00
467349--467411	33	1.9	33	90	6	101	47	0	0	52	1.00
467341--467442	44	2.3	43	76	6	98	42	0	0	57	0.98
467407--467457	18	2.9	18	75	18	63	29	0	0	70	0.87
470655--470695	21	2.0	21	85	9	57	51	0	2	46	1.14
471573--471619	19	2.4	21	79	13	55	44	0	0	55	0.99
472110--472149	19	2.1	19	85	0	53	65	2	0	32	1.06
479853--480067	34	6.4	33	75	9	166	43	23	5	27	1.76
479853--480067	68	3.2	67	79	4	227	43	23	5	27	1.76
485198--485249	2	26.0	2	88	0	77	51	0	1	46	1.12
485997--486021	2	12.5	2	100	0	50	52	0	0	48	1.00
486294--486396	28	3.5	28	89	10	170	37	2	8	50	1.48
486294--486398	32	3.4	32	94	5	182	38	2	8	50	1.48
490526--490582	25	2.2	25	81	3	69	31	0	10	57	1.32
490542--490588	14	3.6	14	72	16	55	34	0	8	57	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
491667--491718	17	3.0	17	86	8	61	44	0	0	55	0.99
492081--492147	13	5.5	13	77	16	63	65	0	0	34	0.93
492056--492139	30	2.8	28	75	19	89	66	0	1	32	0.99
492081--492148	22	3.0	23	73	22	63	64	0	0	35	0.94
492128--492203	16	4.8	16	75	13	68	52	1	0	46	1.08
492129--492216	31	2.8	31	79	8	90	57	1	0	40	1.06
492119--492208	42	2.2	42	80	9	105	57	1	0	41	1.06
492233--492275	11	3.8	11	81	6	50	41	0	0	58	0.98
493490--493518	7	4.1	7	100	0	58	41	13	0	44	1.44
495638--495687	2	25.0	2	91	0	82	52	2	0	46	1.12
503034--503083	27	1.9	27	84	8	68	48	4	4	44	1.40
503720--503788	16	4.1	17	73	19	56	52	0	0	47	1.00
503723--503802	25	3.3	23	76	13	65	53	1	1	43	1.16
516206--516255	25	1.9	27	88	8	77	66	0	0	34	0.92
518159--518232	20	3.4	23	72	18	70	54	0	0	45	1.00
518183--518220	18	2.1	18	90	0	58	50	0	0	50	1.00
518166--518228	18	3.6	18	68	27	55	52	0	0	47	1.00
521205--521233	3	9.7	3	100	0	58	31	0	0	68	0.89
523430--523467	20	1.9	19	85	15	51	52	0	0	47	1.00
527005--527067	33	1.9	32	83	3	81	38	33	14	14	1.86
528374--528404	6	5.2	6	100	0	62	32	16	35	16	1.91
528374--528410	18	2.1	18	89	0	56	35	18	32	13	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
530480--530511	6	5.7	6	92	7	50	71	12	0	15	1.14
531196--531221	13	2.0	13	100	0	52	92	0	7	0	0.39
536076--536176	30	3.3	31	84	5	109	34	9	24	30	1.88
536095--536196	30	3.4	29	85	5	123	36	10	27	25	1.89
536186--536220	18	1.9	18	88	0	52	48	11	17	22	1.79
542668--542814	19	8.0	19	69	19	73	60	0	0	38	1.07
542710--542769	9	6.3	9	74	14	50	68	1	1	28	1.09
542667--542814	17	8.1	17	67	22	79	60	0	0	37	1.06
544569--545083	139	3.6	139	84	3	602	43	25	9	21	1.83
544569--545083	278	1.8	281	84	5	698	43	25	9	21	1.83
546048--546129	27	3.0	29	78	8	82	58	0	1	40	1.06
546070--546123	20	2.7	20	80	8	56	61	0	0	38	0.96
546042--546127	23	3.7	23	74	9	77	56	0	1	41	1.06
546188--546219	2	16.0	2	100	0	64	50	0	0	50	1.00
546953--547002	3	16.7	3	100	0	100	32	0	0	68	0.90
550907--550957	2	25.5	2	100	0	102	50	0	0	49	1.00
551181--551215	16	2.2	17	90	10	56	22	0	14	62	1.31
553229--553345	62	1.9	62	96	0	216	45	9	2	42	1.50
553795--553846	16	3.2	16	83	0	59	42	1	5	50	1.37
560862--560918	20	2.8	19	84	7	60	36	0	0	63	0.95
560860--560923	9	6.2	11	70	24	50	39	0	0	60	0.97
560891--560935	20	2.2	21	84	4	56	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
562934--562990	27	2.2	26	84	9	71	29	1	0	68	1.00
562943--563006	23	2.9	21	76	17	67	31	0	0	68	0.90
562947--562992	16	2.8	17	86	6	67	28	0	0	71	0.86
563578--563634	26	2.1	27	81	15	66	45	3	0	50	1.18
563593--563680	37	2.3	38	76	7	99	43	6	0	50	1.29
564201--564236	18	2.0	18	94	0	63	52	0	0	47	1.00
565906--565979	22	3.3	21	73	19	60	60	0	1	37	1.05
565906--565948	11	4.0	11	84	3	61	65	0	2	32	1.06
565902--566004	13	8.0	13	65	27	51	59	0	0	39	1.04
565934--566011	26	2.9	27	71	22	65	56	0	0	43	0.99
565946--566045	31	3.1	32	75	16	84	57	1	0	42	1.05
566027--566129	37	2.8	36	76	15	88	50	0	0	49	1.00
566403--566449	20	2.3	22	78	17	64	46	0	0	53	1.00
566367--566450	27	3.2	27	81	6	102	52	0	0	47	1.00
567179--567268	8	11.0	8	70	20	62	40	0	0	60	0.97
567183--567276	28	3.4	28	73	18	79	39	0	0	60	0.97
567190--567258	20	3.6	19	78	16	63	42	0	0	57	0.98
568165--568211	22	2.1	22	92	0	76	27	6	2	63	1.30
568732--568795	23	2.8	23	82	13	80	67	0	0	32	0.91
568750--568881	18	7.1	20	69	21	74	58	0	0	40	1.03
568774--568888	33	3.5	32	71	13	90	56	0	1	41	1.09
570057--570101	2	22.5	2	100	0	90	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
570774--570831	26	2.3	25	82	8	73	44	0	0	55	0.99
571765--571805	18	2.3	18	91	0	64	29	0	2	68	1.03
571818--571881	20	3.4	18	71	25	51	46	0	1	51	1.10
571891--571927	12	3.0	13	84	11	51	35	0	0	64	0.94
571940--572016	22	3.4	22	74	5	73	48	1	0	50	1.09
574074--574126	2	26.5	2	96	0	97	47	0	1	50	1.12
581780--581820	17	2.4	18	80	12	50	65	0	0	34	0.93
581882--581982	5	20.6	5	73	18	79	39	0	0	60	0.97
581901--581982	11	7.5	11	73	13	80	40	0	0	59	0.97
581856--581982	60	2.0	64	81	13	149	42	0	0	57	0.98

Tables:   1   2   3   4   5