genome.fa.s263.2.7.7.80.10.50.1000.5.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: Scaffold263
Parameters: 2 7 7 80 10 50 1000
Length:  1338270

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  5  of  10  ( 1134 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)
650087--650156	31	2.3	31	80	5	79	55	2	1	40	1.23
651201--651228	9	3.1	9	100	0	56	75	0	0	25	0.81
651527--651567	21	2.0	20	85	4	55	48	2	7	41	1.44
658917--658950	2	17.0	2	100	0	68	50	0	0	50	1.00
659293--659330	20	1.9	20	100	0	76	52	18	10	18	1.73
660212--660240	2	14.5	2	100	0	58	48	0	0	51	1.00
664140--664170	2	15.5	2	93	0	53	48	0	51	0	1.00
664663--664699	16	2.4	16	86	8	51	43	0	0	56	0.99
665333--665366	17	2.1	16	88	5	50	58	0	0	41	0.98
665333--665380	15	3.0	16	84	6	53	54	0	0	45	0.99
665675--665745	25	2.7	26	76	6	72	60	0	1	38	1.06
665674--665745	26	2.7	27	76	10	76	59	0	1	38	1.06
665699--665740	13	3.2	13	83	9	59	69	0	0	30	0.89
667781--667818	3	12.7	3	100	0	76	68	0	0	31	0.90
672365--672418	22	2.5	22	90	0	90	50	1	0	48	1.11
672364--672448	29	3.2	28	76	23	110	51	1	0	47	1.08
672430--672475	20	2.3	20	81	7	58	56	0	6	36	1.25
673061--673111	21	2.5	21	81	9	61	50	0	0	49	1.00
673212--673269	20	2.8	20	75	12	55	41	0	1	56	1.09
673440--673474	16	2.2	16	100	0	70	31	0	0	68	0.90
673618--673665	11	4.4	11	76	10	53	56	0	0	43	0.99
673618--673665	23	2.2	21	88	7	69	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)
673618--673672	12	4.9	11	78	10	58	54	0	0	45	0.99
673627--673698	17	4.7	15	71	20	60	48	1	0	50	1.09
674180--674231	23	2.3	22	87	9	70	38	0	0	61	0.96
674176--674225	26	2.0	24	88	7	73	40	0	0	60	0.97
674207--674258	16	3.2	16	81	5	61	32	1	0	65	1.04
674202--674248	16	2.9	16	80	3	58	40	0	0	59	0.97
674421--674454	16	2.2	16	90	10	54	32	0	0	67	0.91
675059--675105	18	2.6	19	77	12	55	48	0	0	51	1.00
676066--676090	1	25.0	1	100	0	50	0	100	0	0	0.00
677553--677595	19	2.1	19	83	12	50	41	2	0	55	1.12
677720--677760	21	2.0	21	85	0	55	31	4	4	58	1.40
678769--678831	23	2.8	23	80	7	67	52	1	0	46	1.10
684389--684424	2	18.5	2	94	5	65	52	0	0	47	1.00
685694--685750	26	2.2	26	81	9	62	45	7	0	47	1.30
687544--687585	20	2.0	20	82	13	50	40	0	2	57	1.12
689835--689886	22	2.4	21	75	15	52	40	0	1	57	1.10
689958--690008	16	3.4	14	79	15	57	62	1	1	33	1.17
690648--690678	15	2.1	15	100	0	62	45	0	0	54	0.99
691532--691563	2	16.0	2	100	0	64	50	0	0	50	1.00
691694--691727	13	2.7	12	86	13	50	79	2	0	17	0.86
691695--691729	18	1.9	18	88	11	54	77	2	0	20	0.90
691867--691944	12	5.7	13	68	26	54	52	0	1	46	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
693585--693627	3	14.3	3	100	0	86	32	0	0	67	0.91
695711--695746	3	12.0	3	100	0	72	0	33	0	66	0.92
696111--696200	27	3.2	27	70	23	78	45	0	1	53	1.07
696098--696196	20	5.0	20	73	20	68	46	0	1	52	1.07
696179--696212	17	2.0	17	88	0	50	38	0	2	58	1.13
696273--696314	20	2.1	20	95	0	75	50	0	0	50	1.00
696311--696350	19	2.2	19	86	13	57	60	0	0	40	0.97
697524--697587	32	2.0	33	87	3	94	42	3	0	54	1.16
697514--697581	16	4.2	17	73	17	56	41	1	0	57	1.08
697619--697648	2	15.5	2	93	6	53	46	0	0	53	1.00
697900--697936	20	2.0	19	85	15	51	51	13	16	18	1.76
698119--698204	42	2.0	42	97	0	163	41	19	12	25	1.87
700158--700191	15	2.3	15	90	5	52	38	0	0	61	0.96
700180--700230	20	2.5	21	80	3	59	50	0	0	49	1.00
700230--700275	22	2.0	23	88	12	69	63	2	0	34	1.07
701143--701184	14	2.9	14	80	13	50	59	0	0	40	0.97
701134--701177	21	2.1	21	87	4	63	65	0	0	34	0.93
701134--701195	20	3.0	21	80	7	63	59	0	0	40	0.97
701625--701975	113	3.0	120	75	14	317	41	8	21	29	1.82
702628--702665	15	2.5	15	95	0	67	7	21	18	52	1.70
705144--705184	16	2.5	17	76	7	50	60	0	0	39	0.96
705784--705816	6	5.7	6	85	7	50	69	0	0	30	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
705779--705816	12	3.2	12	88	7	51	71	2	0	26	1.00
706058--706096	20	2.0	20	89	0	60	53	0	0	46	1.00
706043--706100	20	3.0	19	75	9	55	55	1	0	43	1.10
706193--706296	19	5.6	19	65	18	58	51	0	0	47	1.07
706368--706394	2	13.5	2	100	0	54	0	51	0	48	1.00
710068--710105	20	1.9	20	88	0	58	10	21	21	47	1.80
715509--715550	3	14.0	3	100	0	84	66	0	0	33	0.92
716394--716496	17	6.4	16	70	24	58	45	0	0	54	0.99
716409--716474	18	3.6	19	72	15	59	48	0	0	51	1.00
716409--716478	17	4.0	18	77	15	76	47	0	0	52	1.00
716394--716483	35	2.6	36	80	16	109	46	0	0	53	1.00
716432--716508	27	2.8	26	75	11	73	40	0	0	59	0.97
716450--716511	29	2.1	29	85	11	83	40	0	0	59	0.97
716597--716668	32	2.2	33	85	2	101	44	0	0	55	0.99
716560--716676	52	2.1	59	84	12	160	44	0	0	55	0.99
716908--716939	7	4.4	7	96	4	55	65	0	0	34	0.93
717446--717476	15	2.1	15	100	0	62	61	0	19	19	1.35
719779--719854	32	2.4	31	86	8	100	43	0	0	56	0.99
719766--719882	58	2.0	58	82	12	143	43	0	0	55	1.05
725113--725157	17	2.6	17	86	6	56	51	0	0	48	1.00
725191--725262	21	3.3	21	74	20	67	47	0	0	52	1.00
727998--728035	3	12.7	3	100	0	76	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
728585--728900	157	2.0	157	91	0	515	23	16	29	30	1.96
731275--731304	15	2.1	14	93	6	51	40	0	0	60	0.97
731797--731910	51	2.2	51	98	0	219	42	5	2	49	1.39
731812--731897	24	3.5	24	66	20	68	39	6	3	50	1.47
731971--732009	6	6.5	6	88	8	53	71	0	15	12	1.14
731971--732009	19	2.2	18	86	9	53	71	0	15	12	1.14
732324--732394	21	3.3	21	73	9	54	52	1	0	46	1.09
733941--734221	123	2.3	123	82	0	348	28	19	16	35	1.94
734223--734586	144	2.5	143	82	3	442	33	17	19	29	1.95
736352--736425	22	3.3	22	77	9	87	64	0	0	35	0.94
736379--736411	10	2.9	12	82	17	52	66	0	0	33	0.92
736350--736437	22	4.1	21	80	11	81	64	0	0	35	0.94
736365--736459	14	6.1	16	70	16	67	60	0	1	38	1.04
736593--736634	19	2.2	19	87	8	59	45	0	0	54	0.99
738565--738609	21	2.1	22	91	4	74	51	4	6	37	1.49
740714--740756	20	2.2	20	95	0	77	58	0	2	39	1.11
741328--741367	17	2.4	17	79	4	55	50	0	0	50	1.00
745284--745325	22	2.0	22	85	4	59	47	4	2	45	1.36
745347--745396	15	3.4	15	76	15	59	64	0	0	36	0.94
745350--745399	14	3.5	14	82	15	66	64	0	0	36	0.94
745357--745400	8	5.9	8	75	24	51	61	0	0	38	0.96
745547--745579	4	8.2	4	93	0	57	75	3	0	21	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
750527--750576	21	2.5	21	78	18	61	58	0	0	42	0.98
754849--754926	39	2.0	39	94	0	138	39	19	21	19	1.92
755131--755187	19	2.9	21	79	12	75	54	0	0	45	0.99
756083--756125	20	2.1	20	86	4	59	62	0	4	32	1.15
757590--757622	13	2.6	13	90	4	50	45	0	0	54	0.99
760472--760518	14	3.4	14	77	11	51	42	0	0	57	0.98
760867--760904	15	2.6	15	91	4	60	36	0	0	63	0.95
760841--760906	21	3.3	21	77	8	66	39	0	0	60	0.97
761519--761557	19	2.1	18	85	4	51	38	2	0	58	1.12
761547--761597	17	3.0	17	77	5	50	45	3	0	50	1.20

Tables:   1   2   3   4   5   6   7   8   9   10