genome.fa.s63.2.7.7.80.10.50.1000.3.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: Scaffold63
Parameters: 2 7 7 80 10 50 1000
Length:  2211945

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  3  of  16  ( 1834 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)
432235--432278	3	14.3	3	95	4	79	68	0	31	0	0.90
438538--438578	20	2.0	21	85	4	57	56	0	0	43	0.99
441631--441662	2	16.0	2	100	0	64	50	0	0	50	1.00
444764--444807	19	2.3	19	84	7	54	45	0	2	52	1.13
450545--450584	19	2.1	19	95	0	71	40	7	32	20	1.80
452406--452436	2	15.5	2	100	0	62	51	48	0	0	1.00
452841--452897	23	2.4	24	73	2	62	57	0	0	42	0.98
453117--453185	32	2.0	35	83	10	90	39	0	4	56	1.19
453664--453719	18	3.0	19	82	15	64	42	0	0	57	0.99
456796--456913	28	4.3	26	73	18	98	62	1	0	35	1.05
456837--456902	33	2.0	32	88	2	96	59	0	0	40	0.98
456807--456909	17	6.3	15	69	13	53	61	1	0	36	1.07
456854--456910	18	3.4	18	69	18	50	61	0	0	38	0.96
456855--456920	34	2.0	33	82	8	80	59	0	0	40	0.98
457662--457725	27	2.2	30	84	13	82	51	6	3	39	1.43
458666--458716	14	3.6	14	71	10	50	41	0	0	58	0.98
458641--458715	28	2.6	30	85	10	104	38	0	0	61	0.96
458654--458715	29	2.1	28	91	5	97	40	0	0	59	0.97
467459--467484	10	2.6	10	100	0	52	30	0	7	61	1.24
468554--468616	20	3.2	20	95	0	108	47	9	17	25	1.77
470813--470850	17	2.2	18	86	9	53	47	0	0	52	1.00
472066--472105	18	2.2	18	86	8	55	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
472066--472116	18	2.9	17	80	11	50	45	0	0	54	0.99
472388--472476	10	8.3	11	68	18	62	40	0	1	58	1.05
472383--472468	25	3.3	28	73	16	69	39	0	1	59	1.05
472394--472468	32	2.3	33	84	6	109	41	0	1	57	1.07
472404--472458	16	3.4	16	72	18	51	43	0	1	54	1.10
473233--473299	31	2.2	31	81	10	75	59	5	2	31	1.36
474274--474324	21	2.5	21	83	3	68	41	0	0	58	0.98
474278--474399	16	7.8	16	66	29	50	39	0	0	60	0.97
474273--474332	27	2.2	26	83	13	77	40	0	0	60	0.97
474292--474348	27	2.1	27	81	12	64	43	0	0	56	0.99
474274--474374	47	2.2	46	85	3	130	41	0	0	58	0.98
474358--474398	12	3.3	13	80	19	52	29	0	0	70	0.87
474838--474876	19	2.1	19	95	4	71	66	0	5	28	1.12
475872--475930	21	2.9	21	78	16	61	42	0	0	57	0.98
476209--476251	2	21.5	2	100	0	86	51	0	0	48	1.00
476433--476471	14	2.8	14	84	7	53	56	0	0	43	0.99
476818--476875	31	1.9	31	89	3	91	43	5	3	48	1.42
477149--477191	22	1.9	23	81	13	54	34	13	18	32	1.90
479569--479602	16	2.1	16	100	0	68	50	11	5	32	1.63
480294--480329	2	18.0	2	100	0	72	0	50	0	50	1.00
482162--482206	23	2.0	23	86	0	63	40	2	2	55	1.24
482827--482879	27	2.0	27	92	0	88	32	26	13	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
484942--484984	11	4.1	10	79	8	50	53	2	0	44	1.13
484952--485002	24	2.3	23	86	10	70	47	5	0	47	1.26
490098--490130	2	17.0	2	87	6	50	45	0	0	54	0.99
492104--492143	15	2.8	14	85	7	53	42	0	0	57	0.98
494396--494463	32	2.1	32	86	5	93	55	7	0	36	1.28
494537--494564	3	9.3	3	100	0	56	67	0	0	32	0.91
496605--496635	16	2.0	15	93	6	53	64	0	0	35	0.94
497545--497668	11	10.3	12	68	24	50	38	0	0	59	1.09
497546--497660	15	7.9	15	71	20	52	40	0	0	58	1.10
497559--497596	14	2.8	13	85	14	51	47	2	0	50	1.15
497561--497648	13	6.4	13	73	22	65	43	1	1	54	1.15
497582--497624	16	2.6	17	78	10	54	44	0	0	55	0.99
497548--497638	45	2.0	47	83	12	118	42	1	1	54	1.14
497595--497664	24	2.8	24	72	22	63	38	0	1	60	1.06
497734--497758	2	12.5	2	100	0	50	48	0	52	0	1.00
497957--497995	18	2.2	18	90	0	60	25	0	0	74	0.82
498798--498824	2	13.5	2	100	0	54	51	0	0	48	1.00
501447--501496	2	25.0	2	84	8	66	0	48	4	48	1.20
517936--517988	25	2.1	24	82	6	61	62	0	3	33	1.13
518144--518202	21	2.9	21	78	16	61	42	0	0	57	0.98
518480--518517	2	19.5	2	94	5	69	52	0	0	47	1.00
518698--518736	14	2.8	14	84	7	53	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)
519085--519142	31	1.9	31	89	3	91	43	5	3	48	1.42
519416--519459	23	1.9	23	81	9	54	36	13	18	31	1.90
521707--521737	2	15.5	2	100	0	62	48	0	0	51	1.00
524060--524098	22	1.9	20	85	15	53	46	2	5	46	1.38
524328--524361	2	17.0	2	100	0	68	50	0	0	50	1.00
524414--524458	23	2.0	23	86	0	63	40	2	2	55	1.24
525079--525131	27	2.0	27	92	0	88	32	26	13	28	1.93
527185--527227	11	4.1	10	79	8	50	53	2	0	44	1.13
527195--527245	24	2.3	23	86	10	70	47	5	0	47	1.26
527588--527639	17	2.9	17	74	20	52	78	11	0	9	0.95
531028--531063	3	12.3	3	94	5	65	66	0	0	33	0.92
533974--534015	2	21.5	2	90	4	68	50	0	0	50	1.00
534266--534307	15	2.9	14	79	6	57	45	0	0	54	0.99
536569--536635	33	2.0	34	85	5	93	53	7	0	38	1.29
536709--536742	3	11.3	3	100	0	68	67	0	0	32	0.91
538784--538821	15	2.6	14	88	12	58	68	0	2	28	1.03
539734--539849	15	7.9	15	69	21	52	40	0	0	57	1.10
539747--539784	14	2.8	13	85	14	51	47	2	0	50	1.15
540152--540190	18	2.2	18	85	0	51	28	0	0	71	0.86
541002--541032	2	15.5	2	100	0	62	51	0	0	48	1.00
541358--541401	18	2.5	18	85	3	54	45	0	0	54	0.99
541369--541410	16	2.6	16	84	3	57	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)
541698--541758	20	3.0	20	72	9	61	42	4	0	52	1.23
542593--542631	19	2.1	18	95	4	69	28	0	0	71	0.86
542593--542635	16	2.4	18	88	11	63	32	0	0	67	0.91
542608--542641	16	2.1	16	88	0	50	38	0	0	61	0.96
548279--548313	2	17.5	2	100	0	70	0	48	0	51	1.00
560192--560228	18	2.1	18	100	0	74	56	10	16	16	1.66
560195--560233	18	2.2	18	90	4	62	56	10	17	15	1.66
567600--567635	17	2.1	17	90	10	56	63	2	0	33	1.08
567888--567943	19	2.8	20	71	12	53	57	0	0	42	0.99
575643--575670	2	14.0	2	100	0	56	50	50	0	0	1.00
577317--577355	2	19.5	2	100	0	78	51	0	0	48	1.00
578972--579080	42	2.7	40	72	16	98	51	0	0	47	1.07
582300--582343	20	2.2	20	83	0	52	59	2	0	38	1.10
582706--582752	25	1.9	24	91	4	76	55	0	0	44	0.99
582932--582986	25	2.1	27	83	10	69	38	0	0	61	0.96
584270--584311	2	21.5	2	95	4	77	50	0	0	50	1.00
586459--586490	2	16.0	2	100	0	64	50	0	50	0	1.00
589464--589496	13	2.4	14	85	10	50	60	0	0	39	0.97
590305--590343	16	2.5	16	91	4	62	25	5	0	69	1.09
590961--590989	15	1.9	15	100	0	58	20	6	34	37	1.80
590998--591038	21	1.9	22	85	5	57	36	0	0	63	0.95
592641--592676	2	18.0	2	100	0	72	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)
592879--592930	24	2.2	24	80	12	65	55	0	0	44	0.99
596192--596216	13	1.9	13	100	0	50	44	0	0	56	0.99
596886--596915	2	15.0	2	100	0	60	50	0	0	50	1.00
597858--597900	2	22.5	2	83	9	54	53	0	2	44	1.13
599319--599353	12	3.1	12	88	12	56	68	0	0	31	0.90
600851--601005	79	2.0	79	89	0	238	32	18	16	32	1.93
607418--607454	17	2.2	16	90	4	56	67	0	0	32	0.91
607451--607489	19	2.0	20	90	5	62	43	0	0	56	0.99
607801--607883	16	4.9	16	71	18	62	48	0	0	51	1.00
607793--607858	27	2.4	28	82	9	75	48	0	0	51	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16