genome.fa.s223.2.7.7.80.10.50.1000.3.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: Scaffold223
Parameters: 2 7 7 80 10 50 1000
Length:  4172444

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   

This is table  3  of  26  ( 3021 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)
463143--463250	47	2.4	45	76	13	114	60	0	0	38	1.03
464271--464310	18	2.2	18	86	0	53	7	12	5	75	1.18
472643--472702	32	1.9	32	86	6	88	38	6	1	53	1.37
472883--473048	83	2.0	83	95	0	296	24	20	15	39	1.91
474936--474979	16	2.8	16	86	3	63	47	0	2	50	1.13
477107--477140	16	2.1	16	88	0	50	11	11	23	52	1.70
477679--477711	2	16.5	2	100	0	66	48	0	0	51	1.00
481798--481826	2	14.5	2	100	0	58	51	0	0	48	1.00
482831--482908	21	3.8	20	79	14	70	35	2	6	55	1.39
483488--483544	30	1.9	30	85	7	80	28	3	5	63	1.33
483863--483934	23	3.2	22	82	5	90	51	16	1	30	1.53
486730--486772	22	2.0	22	90	0	68	34	37	13	13	1.85
486891--486933	22	2.0	22	90	0	68	41	6	2	48	1.43
486896--486938	22	2.0	22	86	4	61	46	2	2	48	1.27
486960--487040	30	2.8	29	81	5	83	46	1	7	44	1.39
487700--487731	2	16.0	2	100	0	64	50	0	0	50	1.00
502837--502876	2	20.0	2	94	0	71	47	2	0	50	1.14
505287--505757	234	2.0	234	91	0	762	29	25	19	25	1.99
510259--510299	2	20.5	2	100	0	82	51	0	0	48	1.00
510482--510520	14	2.6	14	84	8	51	38	2	0	58	1.12
512335--512370	2	18.5	2	88	5	56	52	2	0	44	1.15
513357--513399	23	1.9	23	85	4	61	39	2	2	55	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
513358--513407	22	2.2	23	82	3	57	44	2	4	50	1.32
514149--514174	13	2.0	13	100	0	52	61	0	0	38	0.96
516152--516224	36	2.0	36	84	7	94	56	1	1	41	1.16
517371--517405	2	17.5	2	93	0	61	54	0	0	45	0.99
517995--518059	25	2.5	27	71	19	66	50	0	0	49	1.00
518007--518052	12	3.8	13	78	21	55	41	0	0	58	0.98
535815--535907	46	2.0	45	81	10	107	47	2	1	49	1.20
540321--540354	2	17.0	2	100	0	68	50	0	0	50	1.00
543771--543799	2	14.5	2	100	0	58	51	0	0	48	1.00
545301--545337	2	18.5	2	100	0	74	51	0	0	48	1.00
547017--547042	3	8.7	3	100	0	52	34	0	0	65	0.93
547300--547330	4	7.8	4	100	0	62	51	22	0	25	1.48
547643--547674	2	16.0	2	100	0	64	50	0	0	50	1.00
548254--548278	7	3.6	7	100	0	50	12	0	0	88	0.53
548646--548679	17	2.0	17	88	0	50	41	2	5	50	1.42
551090--551139	22	2.3	22	86	6	66	50	2	4	44	1.32
552499--552536	20	1.9	20	88	0	58	42	0	0	57	0.98
553052--553079	2	14.0	2	100	0	56	50	0	0	50	1.00
554091--554153	32	2.0	32	84	6	83	49	0	0	50	1.00
561415--561457	20	2.2	20	87	8	61	72	0	0	27	0.85
563640--563686	6	7.5	6	77	17	51	61	2	0	36	1.08
563647--563686	13	3.0	13	88	3	53	62	2	0	35	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
569241--569323	29	2.9	29	98	0	157	33	9	27	28	1.88
573689--573713	2	12.5	2	100	0	50	0	48	0	52	1.00
575662--575702	2	20.5	2	100	0	82	0	48	0	51	1.00
580768--580802	18	1.9	18	88	0	52	8	88	2	0	0.61
581187--581285	15	6.5	15	66	19	53	48	1	0	50	1.07
581184--581227	22	1.9	22	86	9	61	50	0	0	50	1.00
581191--581230	20	2.0	20	85	9	55	50	0	0	50	1.00
581493--581518	2	13.0	2	100	0	52	50	0	0	50	1.00
581642--581683	15	2.7	16	77	7	50	59	0	0	40	0.97
588861--589047	93	2.0	93	100	0	374	35	12	14	36	1.85
589852--589898	24	2.0	24	87	8	69	51	0	0	48	1.00
589868--589923	12	4.6	12	76	12	51	41	0	1	57	1.09
594458--594488	3	10.3	3	100	0	62	32	0	0	67	0.91
594805--594829	2	12.5	2	100	0	50	0	52	0	48	1.00
596214--596248	2	17.5	2	100	0	70	51	0	48	0	1.00
601302--601346	21	2.1	22	87	4	65	42	0	6	51	1.28
601457--601502	22	2.1	21	84	11	58	52	0	0	47	1.00
602760--602795	2	18.0	2	100	0	72	50	0	0	50	1.00
603062--603096	17	2.0	18	88	5	54	45	0	0	54	0.99
603607--603632	3	8.7	3	100	0	52	34	0	34	30	1.58
604926--604952	14	1.9	14	100	0	54	55	7	0	37	1.28
605069--605112	20	2.2	20	84	8	54	68	0	4	27	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
613163--613201	19	2.0	20	85	5	53	51	0	0	48	1.00
617939--617998	17	3.4	18	77	9	61	40	1	0	58	1.08
620394--620445	2	26.0	2	96	0	95	48	1	0	50	1.12
624420--624467	2	24.0	2	95	0	87	52	0	47	0	1.00
624992--625021	14	2.1	14	100	0	60	60	0	40	0	0.97
626563--626598	3	12.0	3	100	0	72	33	0	0	66	0.92
627734--627762	11	2.6	11	100	0	58	31	0	0	68	0.89
629874--629916	20	2.2	20	82	0	50	30	0	11	58	1.34
630398--630430	2	16.5	2	100	0	66	0	48	0	51	1.00
635546--635588	15	2.8	16	83	13	54	60	2	0	37	1.10
635535--635596	15	4.1	14	74	15	52	64	1	1	32	1.13
636619--636649	2	16.0	2	93	6	55	48	0	0	51	1.00
640116--640308	107	1.8	105	84	2	260	44	13	30	11	1.79
642402--642429	3	9.3	3	100	0	56	67	0	0	32	0.91
642726--642769	19	2.3	19	80	7	54	31	0	0	68	0.90
644849--644900	20	2.6	21	87	6	63	50	0	0	50	1.00
644936--644983	25	2.0	23	88	8	69	60	6	0	33	1.22
646987--647013	2	13.5	2	100	0	54	0	0	48	51	1.00
654507--654547	20	2.0	20	85	0	55	48	0	0	51	1.00
654504--654573	36	2.0	34	83	10	88	50	0	2	47	1.16
654558--654606	17	2.7	18	78	12	55	38	0	0	61	0.96
655844--655910	19	3.4	18	70	20	53	62	0	5	31	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
655849--655890	22	2.0	21	85	4	57	66	0	2	30	1.04
655849--655909	21	3.0	21	73	11	63	65	0	3	31	1.09
655875--655970	33	2.9	33	80	9	108	56	0	1	42	1.06
655882--655971	16	5.7	15	72	17	58	55	0	1	43	1.07
669821--669853	16	2.0	17	88	5	50	33	0	9	57	1.30
669989--670028	16	2.5	16	88	11	64	62	0	0	37	0.95
669989--670042	21	2.6	21	80	8	58	57	0	0	42	0.98
670017--670068	18	2.8	18	80	13	54	44	0	1	53	1.11
670122--670173	23	2.1	26	82	13	74	40	0	3	55	1.18
670163--670232	23	2.9	23	76	16	70	60	0	0	40	0.97
670165--670206	12	3.1	14	80	16	52	64	0	0	35	0.94
670170--670225	19	2.8	20	76	12	62	60	0	0	39	0.97
670165--670274	53	2.1	52	81	8	125	57	0	0	40	1.11
670753--670800	15	3.2	15	81	0	51	39	22	29	8	1.83
673927--673973	24	2.0	24	86	0	67	29	31	17	21	1.96
676225--676254	2	15.0	2	100	0	60	50	0	0	50	1.00
676621--676649	14	2.0	15	93	6	51	34	0	0	65	0.93
676809--676855	18	2.5	19	82	6	60	55	0	0	44	0.99
676930--677094	86	1.9	87	88	1	251	26	18	21	34	1.96
683285--683405	52	2.3	52	95	2	217	28	18	19	34	1.95
683285--683425	52	2.7	51	86	10	205	29	17	19	33	1.95
683414--683438	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
683504--683528	13	1.9	13	100	0	50	32	16	16	36	1.90
683482--683548	33	2.0	33	88	0	98	40	13	11	34	1.81
684346--684742	173	2.3	171	91	6	656	36	14	24	25	1.93
684657--685111	49	9.4	49	84	7	583	32	18	25	24	1.97
684656--685215	98	5.9	93	90	7	780	31	17	26	24	1.97
685025--685202	88	2.0	88	98	0	347	32	17	26	23	1.97
685210--685275	33	2.0	34	96	3	125	16	18	37	27	1.92
685282--686237	34	29.0	34	78	16	834	32	13	34	20	1.91
685280--686226	61	14.4	67	79	12	822	31	13	34	20	1.91
685729--686205	98	5.1	93	78	15	432	30	13	35	20	1.92

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