genome.fa.s59.2.7.7.80.10.50.1000.5.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: Scaffold59
Parameters: 2 7 7 80 10 50 1000
Length:  3999109

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   

This is table  5  of  25  ( 2913 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)
811842--811875	17	1.9	18	88	5	52	47	0	2	50	1.16
811885--811978	30	3.2	30	75	1	100	52	1	5	41	1.31
817101--817144	21	2.1	21	86	0	61	40	0	2	56	1.11
817100--817207	22	5.0	22	73	11	73	47	0	0	51	1.07
817583--817607	2	12.5	2	100	0	50	52	0	0	48	1.00
819642--819684	18	2.5	17	85	7	61	65	0	0	34	0.93
820151--820210	26	2.3	26	80	11	70	33	1	1	63	1.14
820179--820210	16	2.0	16	93	0	55	28	0	0	71	0.86
820170--820209	18	2.2	18	91	8	64	32	0	0	67	0.91
821751--821811	17	3.6	16	75	18	52	50	1	0	47	1.10
822869--822906	2	19.5	2	94	5	69	47	0	0	52	1.00
823811--823845	2	17.5	2	100	0	70	51	0	48	0	1.00
829897--829945	18	2.5	20	74	9	57	57	0	0	42	0.99
830803--830830	14	2.0	14	100	0	56	42	0	0	57	0.99
833418--833458	22	2.0	21	85	9	57	46	2	4	46	1.37
836354--836526	88	2.0	88	96	0	319	29	19	13	36	1.91
840749--840778	15	1.9	16	93	6	53	40	0	6	53	1.27
841336--841380	22	2.1	21	88	12	65	60	4	0	35	1.17
844009--844066	30	1.9	31	86	10	84	43	0	0	56	0.99
847188--847218	15	2.1	15	93	0	53	48	6	6	38	1.55
847735--847775	15	2.7	16	88	11	68	48	0	0	51	1.00
848088--848120	13	2.8	12	90	9	50	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)
847931--848442	216	2.4	215	85	3	663	36	11	9	41	1.75
848569--848609	22	1.9	22	85	5	57	39	2	2	56	1.26
851268--851295	2	14.0	2	100	0	56	0	50	0	50	1.00
851384--851415	2	16.0	2	93	0	55	0	46	0	53	1.00
857242--857287	23	2.0	23	84	16	60	32	0	2	65	1.05
857322--857363	18	2.3	19	79	8	50	64	2	2	30	1.19
857646--857687	21	2.0	21	86	9	59	54	2	2	40	1.26
857973--858020	9	4.9	9	80	16	51	47	2	2	47	1.25
858347--858432	29	3.0	27	76	5	73	45	4	2	47	1.36
858608--858632	2	12.5	2	100	0	50	48	0	0	52	1.00
859442--859468	2	13.5	2	100	0	54	48	0	0	51	1.00
859532--859583	23	2.3	23	86	0	68	69	0	3	26	1.06
860439--860477	14	3.1	14	75	24	50	61	0	0	38	0.96
860433--860503	24	3.0	25	76	17	71	56	0	0	43	0.99
860449--860510	19	3.4	19	79	20	78	58	0	0	41	0.98
860514--860579	33	1.9	35	87	6	100	36	0	4	59	1.18
860560--860624	33	1.9	35	87	6	98	47	0	0	52	1.00
860840--860894	17	3.4	16	71	28	53	41	0	0	58	0.98
861317--861345	2	14.5	2	100	0	58	48	0	0	51	1.00
864784--864844	26	2.3	26	77	0	68	60	0	0	39	0.97
865118--865164	2	23.5	2	95	0	85	48	0	2	48	1.13
865715--865751	2	18.5	2	94	0	65	51	2	0	45	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
869094--869124	3	10.7	3	93	6	55	70	0	29	0	0.87
869655--869727	5	14.4	5	75	13	60	63	0	0	36	0.95
869653--869763	15	7.8	14	66	22	61	55	0	1	41	1.16
869655--869763	56	2.0	54	82	7	130	56	0	1	40	1.16
870130--870191	28	2.3	27	81	13	74	43	1	0	54	1.09
873655--873693	2	20.0	2	94	5	71	48	0	0	51	1.00
875167--875196	2	15.0	2	100	0	60	50	0	0	50	1.00
875619--875645	2	13.5	2	100	0	54	51	0	0	48	1.00
876011--876035	2	12.5	2	100	0	50	48	0	0	52	1.00
876471--876504	2	17.0	2	100	0	68	50	0	50	0	1.00
876799--876823	2	12.5	2	100	0	50	0	0	48	52	1.00
880831--880868	20	1.9	20	88	0	58	50	0	0	50	1.00
887788--887812	2	12.5	2	100	0	50	0	48	0	52	1.00
888154--888202	22	2.3	21	83	13	57	40	0	0	59	0.98
888154--888197	18	2.3	19	84	7	54	43	0	0	56	0.99
888121--888193	34	2.3	31	83	11	85	52	0	0	47	1.00
888636--888664	14	2.0	15	93	6	51	75	13	0	10	1.04
889234--889289	11	5.0	11	82	4	60	69	8	0	21	1.15
889236--889289	22	2.4	23	81	9	67	70	7	0	22	1.12
889379--889432	24	2.3	23	79	14	58	68	3	0	27	1.06
889373--889433	11	5.5	11	74	14	54	68	3	0	27	1.05
889600--889648	18	2.7	18	87	6	64	69	2	0	28	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
889565--889648	23	3.6	22	73	13	62	66	3	0	29	1.08
889619--889679	19	3.3	18	80	13	61	55	1	0	42	1.09
895357--895390	17	1.9	18	94	5	61	67	0	0	32	0.91
896557--896584	14	2.0	14	100	0	56	57	0	0	42	0.99
896733--896828	18	5.4	18	70	20	60	55	1	0	43	1.06
896673--896802	32	4.0	31	76	10	102	53	0	1	43	1.15
896710--896824	25	4.5	26	71	13	69	53	0	0	44	1.12
900524--900618	49	1.9	49	85	4	129	49	16	13	20	1.79
901999--902031	15	2.1	16	94	5	59	33	27	6	33	1.81
903561--903646	16	5.0	17	69	16	52	56	0	0	43	0.99
903570--903641	26	2.8	26	75	12	76	56	0	0	43	0.99
904212--904244	6	5.7	6	85	7	50	48	0	3	48	1.17
904199--904300	33	3.1	31	75	9	87	45	0	2	50	1.23
904199--904286	33	2.7	32	78	5	88	46	1	3	48	1.26
909575--909610	13	2.6	14	91	8	56	61	0	0	38	0.96
909881--909909	2	14.5	2	100	0	58	51	0	0	48	1.00
915604--915639	2	18.0	2	100	0	72	50	0	0	50	1.00
931236--931279	2	22.0	2	90	0	70	54	0	0	45	0.99
933602--934022	51	8.1	52	79	9	403	16	22	29	31	1.95
933602--933967	102	3.6	103	85	4	463	16	22	29	31	1.96
935028--935052	13	1.9	13	100	0	50	28	32	8	32	1.86
935947--935989	17	2.5	17	88	7	61	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
935947--936008	28	2.2	29	83	8	76	35	0	0	64	0.94
936193--936271	36	2.2	36	80	13	90	45	0	0	54	0.99
936177--936301	26	5.1	23	69	23	69	40	0	0	60	0.97
936201--936279	18	4.5	17	76	14	72	43	0	0	56	0.99
936201--936309	26	4.4	25	70	19	70	41	0	0	58	0.98
936277--936315	12	3.3	12	89	7	62	35	0	0	64	0.94
936265--936315	23	2.4	21	83	9	68	35	0	0	64	0.94
941889--941921	11	2.8	12	90	9	50	51	0	0	48	1.00
946179--946250	28	2.6	27	77	16	69	33	2	2	61	1.25
946555--946593	20	2.0	20	84	0	51	46	2	0	51	1.14
952593--952649	28	2.0	28	100	0	114	29	7	17	45	1.75
955313--955345	2	16.5	2	100	0	66	51	0	0	48	1.00
957784--957814	2	15.5	2	100	0	62	51	0	0	48	1.00
959161--959195	12	2.9	12	91	0	52	37	5	11	45	1.64
959470--959508	6	6.5	6	93	0	69	0	48	17	33	1.48
960663--960694	2	16.0	2	100	0	64	50	0	0	50	1.00
960861--960890	10	2.9	10	95	5	51	33	0	0	66	0.92
961821--961897	17	4.8	16	69	18	61	58	0	2	38	1.12
961845--961908	30	2.3	27	83	8	74	62	0	1	35	1.05
961860--961920	19	3.3	18	73	8	59	62	0	3	34	1.12
965832--965881	15	3.4	15	83	5	66	52	0	0	48	1.00
966958--967010	24	2.2	25	80	12	58	43	5	1	49	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
967115--967198	40	2.1	40	97	0	159	38	15	9	36	1.80
967999--968041	2	21.5	2	85	0	59	46	2	4	46	1.36
969020--969065	2	23.0	2	90	0	65	50	4	2	43	1.34
969928--969967	2	20.0	2	89	0	62	47	0	5	47	1.24
979766--979815	17	2.9	17	73	26	52	40	2	0	58	1.10
981347--981380	6	5.7	6	89	0	50	2	20	0	76	0.92
984996--985047	7	7.6	7	80	10	63	46	0	0	53	1.00
984994--985047	20	2.7	20	97	2	99	48	0	0	51	1.00
984996--985047	13	3.8	14	80	10	63	46	0	0	53	1.00
985051--985097	14	3.5	14	83	16	64	59	0	0	40	0.97

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