genome.fa.s258.2.7.7.80.10.50.1000.4.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: Scaffold258
Parameters: 2 7 7 80 10 50 1000
Length:  5730937

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  4  of  25  ( 2900 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)
617483--617525	20	2.2	19	84	16	52	32	23	4	39	1.75
619844--619916	20	3.6	20	81	3	101	35	13	19	31	1.91
619862--619937	21	3.7	21	80	3	100	42	11	17	28	1.84
619844--619937	41	2.3	41	98	0	179	39	12	18	29	1.88
619976--620001	13	2.0	13	100	0	52	38	15	15	30	1.88
620871--620903	14	2.2	16	89	10	52	57	12	0	30	1.35
621669--621707	11	3.5	11	78	0	51	56	5	7	30	1.49
621727--621768	20	2.2	20	87	8	61	64	4	0	30	1.14
621731--621807	29	2.6	28	76	15	68	62	3	0	33	1.14
621811--621865	4	13.8	4	77	11	51	0	18	0	81	0.68
621807--621868	17	3.5	17	80	10	79	0	17	0	82	0.67
621809--621865	23	2.6	23	84	15	84	0	17	0	82	0.67
622763--622798	2	18.0	2	100	0	72	50	0	0	50	1.00
622857--622890	2	17.0	2	100	0	68	50	0	0	50	1.00
622972--623008	2	18.5	2	100	0	74	48	0	0	51	1.00
623654--623678	7	3.6	7	100	0	50	52	0	0	48	1.00
627821--627845	12	2.1	12	100	0	50	20	32	40	8	1.81
650526--650602	38	2.0	38	87	0	109	20	11	19	48	1.80
652962--653002	20	2.0	20	85	0	55	60	0	2	36	1.10
653010--653048	21	1.9	20	89	5	60	56	0	0	43	0.99
653357--653387	2	15.5	2	100	0	62	0	51	0	48	1.00
669781--669808	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
672720--672746	2	13.5	2	100	0	54	48	0	0	51	1.00
678096--678125	15	2.0	15	93	0	51	50	0	0	50	1.00
679804--679867	29	2.1	31	85	5	87	40	6	1	51	1.36
683225--683261	2	18.5	2	100	0	74	0	51	0	48	1.00
685808--685840	17	1.9	17	93	0	57	39	0	0	60	0.97
685835--685888	22	2.5	22	77	14	58	40	3	0	55	1.17
692417--692441	2	12.5	2	100	0	50	52	0	0	48	1.00
692990--693027	2	20.5	2	84	15	55	55	0	44	0	0.99
692990--693025	7	5.0	7	96	3	63	55	0	44	0	0.99
701908--701959	3	17.7	3	96	4	97	69	0	0	30	0.89
702613--702654	19	2.4	17	78	21	50	45	0	0	54	0.99
702634--702672	15	2.8	13	82	14	51	46	0	0	53	1.00
702641--702676	15	2.4	15	90	0	54	47	0	0	52	1.00
702618--702664	19	2.4	20	89	10	71	46	0	0	53	1.00
705428--705471	3	14.7	3	100	0	88	31	0	0	68	0.90
711968--712014	2	23.5	2	95	0	85	51	0	2	46	1.13
716663--716712	12	4.2	12	80	19	52	34	2	0	64	1.05
716672--716712	11	3.7	11	81	18	50	34	0	0	65	0.93
717466--717519	20	2.7	21	80	8	58	62	0	0	37	0.95
718154--718182	5	5.8	5	100	0	58	20	20	17	41	1.90
719892--719930	15	2.5	15	83	4	51	58	0	0	41	0.98
719939--719979	15	2.6	16	80	7	57	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)
720010--720045	5	7.2	5	87	0	54	77	5	0	16	0.94
720301--720439	74	1.9	75	86	5	203	33	8	18	39	1.81
721279--721308	3	10.0	3	92	0	51	33	0	3	63	1.11
726248--726291	22	2.0	22	90	0	70	43	11	18	27	1.84
726646--726691	18	2.5	19	86	6	69	52	0	2	45	1.13
738942--738978	2	18.5	2	94	0	65	48	0	0	51	1.00
750234--750335	47	2.2	46	87	5	145	32	10	10	46	1.73
757004--757084	31	2.7	30	72	11	74	43	3	0	53	1.18
760721--760757	2	19.0	2	88	5	58	2	0	48	48	1.15
760875--760908	2	17.0	2	100	0	68	50	0	0	50	1.00
761204--761246	14	3.1	14	80	10	52	11	0	6	81	0.87
761204--761246	21	2.0	22	86	4	61	11	0	6	81	0.87
762842--762866	2	12.5	2	100	0	50	48	0	0	52	1.00
763057--763095	2	19.5	2	89	0	60	46	0	5	48	1.24
763469--763540	24	2.9	23	76	13	63	40	0	1	58	1.07
763477--763520	14	3.2	14	81	12	56	40	0	0	59	0.98
763475--763540	23	2.6	24	81	11	71	42	0	1	56	1.08
763475--763541	13	5.3	13	70	13	59	43	0	1	55	1.09
764433--764458	2	13.0	2	100	0	52	50	0	0	50	1.00
766259--766287	2	14.5	2	100	0	58	0	0	48	51	1.00
768241--768270	2	15.0	2	92	0	51	50	3	0	46	1.18
777979--778025	18	2.6	19	80	12	55	57	2	0	40	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
777979--778026	17	2.7	18	78	15	55	58	2	0	39	1.10
778052--778145	10	9.1	10	72	16	59	37	1	0	61	1.03
778081--778161	41	1.9	44	85	12	116	37	1	2	59	1.19
778950--778974	13	1.9	13	100	0	50	72	0	0	28	0.86
778994--779029	7	4.9	7	87	12	54	25	2	0	72	0.98
778998--779033	16	2.2	16	95	0	63	25	2	0	72	0.98
783070--783111	14	3.0	14	82	0	57	52	19	0	28	1.46
788257--788358	14	7.6	14	78	15	108	28	25	21	24	1.99
788258--788356	27	3.7	28	78	10	118	28	26	21	24	1.99
792372--792446	15	4.4	16	76	16	71	61	0	0	38	0.96
792367--792459	26	3.5	25	76	14	89	56	0	0	43	0.99
798358--798450	34	2.7	33	72	8	78	52	0	3	44	1.17
798967--799000	2	17.0	2	87	0	50	44	2	2	50	1.32
808088--808160	26	3.0	23	75	15	67	53	0	1	45	1.09
810127--810167	19	2.2	20	78	13	50	48	0	0	51	1.00
810747--810774	14	2.0	14	100	0	56	14	28	21	35	1.92
829617--829660	17	2.6	18	82	10	58	47	0	0	52	1.00
829944--830021	30	2.6	29	82	8	77	52	0	5	42	1.23
831265--831290	6	4.3	6	100	0	52	53	30	0	15	1.42
833241--833267	6	4.5	6	100	0	54	14	51	18	14	1.76
834723--834752	2	15.0	2	100	0	60	0	0	50	50	1.00
835215--835246	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
838614--838692	39	2.0	39	95	0	140	37	11	16	34	1.85
859433--859532	53	1.9	52	91	2	164	34	13	21	32	1.91
861757--861788	3	10.7	3	100	0	64	34	0	0	65	0.93
862402--862441	21	1.9	21	84	0	53	67	7	7	17	1.38
864628--864672	20	2.3	19	84	7	54	40	4	4	51	1.42
864912--864956	20	2.2	20	88	0	63	33	2	11	53	1.49
864925--865172	77	3.2	74	76	6	212	34	2	14	47	1.59
864895--865172	154	1.8	153	79	6	330	33	3	15	48	1.61
865385--865436	18	2.9	18	82	0	59	46	1	1	50	1.23
866169--866215	23	2.1	22	88	4	67	55	0	0	44	0.99
866213--866263	19	2.8	17	77	13	57	54	7	0	37	1.29
868655--868723	21	3.2	20	72	10	57	37	0	4	57	1.18
873123--873164	17	2.5	17	80	11	50	45	0	0	54	0.99
875348--875398	23	2.2	23	82	6	59	33	1	9	54	1.44
875538--875567	2	15.0	2	100	0	60	50	0	0	50	1.00
876042--876082	15	2.6	17	81	18	61	46	4	0	48	1.23
876042--876089	17	3.0	16	77	20	55	45	4	0	50	1.21
877708--877733	2	13.0	2	100	0	52	50	0	0	50	1.00
878146--878175	2	15.0	2	100	0	60	50	0	0	50	1.00
886370--886431	24	2.6	25	84	5	74	43	0	0	56	0.99
887107--887174	36	1.9	35	82	5	84	41	0	1	57	1.08
887137--887223	24	3.6	25	76	14	92	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
913375--913409	15	2.4	14	90	9	52	51	0	0	48	1.00
913382--913482	16	6.4	16	76	5	91	57	0	0	40	1.12
914536--914596	17	3.4	19	73	11	56	40	0	0	59	0.98
914564--914588	11	2.3	11	100	0	50	28	0	0	72	0.86
914511--914598	28	3.0	29	80	14	83	43	0	1	55	1.07
914538--914600	16	4.1	17	76	21	68	39	0	0	60	0.97
914561--914625	28	2.2	29	81	13	71	33	1	1	63	1.13
915737--915782	24	1.9	24	86	8	67	15	8	36	39	1.78
921857--921903	14	3.7	13	78	10	53	44	0	0	55	0.99
921844--921893	27	1.9	26	88	8	75	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