genome.fa.s226.2.7.7.80.10.50.1000.5.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: Scaffold226
Parameters: 2 7 7 80 10 50 1000
Length:  1170647

Tables:   1   2   3   4   5   6   7   8   

This is table  5  of  8  ( 925 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)
476669--476726	29	2.0	29	100	0	116	31	10	13	44	1.78
481707--481769	23	2.7	23	77	15	67	44	0	0	55	0.99
482224--482262	3	13.0	3	94	0	69	66	0	2	30	1.05
483408--483468	28	2.2	28	82	5	81	63	0	0	36	0.94
483407--483473	23	3.1	23	72	19	65	61	0	0	38	0.96
483447--483526	35	2.3	32	78	15	97	48	0	0	51	1.00
483460--483516	9	5.4	11	74	19	50	45	0	0	54	0.99
483452--483526	29	2.4	32	80	8	102	48	0	0	52	1.00
484423--484476	18	2.8	19	76	18	58	40	1	0	57	1.09
484438--484478	20	2.0	20	90	9	64	41	2	0	56	1.13
484793--484829	19	2.1	17	90	10	56	37	0	2	59	1.12
485091--485126	18	2.0	18	88	0	54	58	0	2	38	1.13
487895--487973	28	2.8	28	76	16	83	39	0	1	59	1.06
487961--488009	17	3.0	17	73	26	52	44	0	0	55	0.99
487892--487989	19	4.8	20	67	24	55	40	0	1	58	1.05
491272--491310	20	2.0	20	84	0	51	46	2	2	48	1.29
492775--492868	36	2.5	38	78	16	97	60	3	0	36	1.13
494136--494186	20	2.5	20	75	15	59	37	0	1	60	1.08
494572--494638	30	2.2	30	84	15	84	61	1	1	35	1.15
494683--494785	51	2.0	51	96	0	188	39	13	16	30	1.87
504873--504907	2	17.5	2	100	0	70	51	0	0	48	1.00
505104--505142	2	19.5	2	100	0	78	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)
512765--512795	2	15.5	2	100	0	62	51	0	48	0	1.00
512975--513011	2	18.5	2	94	0	65	45	2	51	0	1.15
513461--513513	12	4.2	12	77	15	54	49	1	0	49	1.12
514014--514069	23	2.5	23	79	2	69	55	0	0	44	0.99
514041--514097	17	3.3	17	75	20	55	49	0	1	49	1.11
514243--514322	24	3.1	25	77	17	83	62	0	0	37	0.95
515840--515908	13	4.9	14	73	15	61	43	0	1	55	1.08
515870--515908	6	6.5	6	82	11	53	41	0	2	56	1.13
516302--516366	27	2.4	26	80	12	69	41	0	6	52	1.26
516429--516512	7	12.3	7	70	16	52	53	0	0	46	1.00
516412--516514	24	4.2	24	75	11	82	50	0	0	49	1.00
516428--516516	34	2.6	36	74	18	91	52	0	0	47	1.00
516414--516518	26	4.2	26	73	10	83	49	0	0	50	1.00
516874--516898	2	12.5	2	100	0	50	0	52	0	48	1.00
520369--520397	14	2.0	15	93	6	51	51	0	13	34	1.42
520545--520606	30	2.1	30	82	11	74	69	3	0	27	1.04
520546--520577	4	7.8	4	93	6	55	75	0	0	25	0.81
520965--520991	2	13.5	2	100	0	54	51	0	0	48	1.00
521100--521128	2	14.5	2	100	0	58	48	0	0	51	1.00
528002--528056	28	2.0	28	100	0	110	40	14	10	34	1.81
528821--528865	15	3.1	15	84	15	67	44	0	0	55	0.99
529501--529536	16	2.1	18	90	10	58	72	0	2	25	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
533274--533304	12	2.6	12	89	0	53	58	9	32	0	1.31
533406--533450	18	2.5	18	100	0	90	37	6	37	17	1.76
533681--533720	19	2.2	19	86	13	57	62	0	0	37	0.95
535249--535303	28	2.0	26	82	6	65	40	0	1	58	1.09
535955--535996	18	2.3	19	84	12	52	59	4	2	33	1.31
536708--536771	24	2.8	23	77	15	71	56	0	0	43	0.99
537211--537345	65	2.0	67	80	7	150	25	32	5	35	1.80
539756--539795	2	20.0	2	100	0	80	50	0	0	50	1.00
546957--547021	19	3.5	19	74	19	64	61	1	0	36	1.05
546925--547020	7	12.9	7	68	16	50	59	3	0	37	1.13
546957--547020	15	4.6	14	72	11	51	62	1	0	35	1.05
547556--547637	2	41.0	2	82	0	83	40	2	4	52	1.36
547556--547637	32	2.6	32	92	0	128	40	2	4	52	1.36
547944--547970	2	13.5	2	100	0	54	51	0	0	48	1.00
548940--548987	22	2.2	23	77	11	55	37	0	2	60	1.09
551515--551549	2	17.5	2	93	0	61	51	0	0	48	1.00
553667--553715	24	2.0	24	84	7	64	51	0	0	48	1.00
555524--555548	6	4.2	6	100	0	50	32	0	68	0	0.90
556559--556607	22	2.2	23	92	3	82	59	4	14	22	1.52
559406--559477	20	3.5	20	71	3	63	48	1	0	50	1.09
559408--559493	41	2.1	42	86	2	120	48	1	0	50	1.08
559771--560213	146	3.0	147	95	1	782	50	9	6	34	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
567405--567459	21	2.3	24	85	14	71	58	0	0	41	0.98
567398--567459	25	2.4	25	86	8	79	58	0	0	41	0.98
567426--567490	20	3.1	21	78	8	62	55	1	0	43	1.09
570456--570509	27	2.0	27	100	0	108	22	22	29	25	1.99
572818--572847	15	2.0	15	93	0	51	83	0	13	3	0.77
573485--573532	2	24.0	2	95	0	87	47	0	2	50	1.12
574477--574522	17	2.8	16	83	6	56	36	0	0	63	0.95
576688--576872	34	5.5	34	86	3	248	40	25	7	26	1.82
580930--580999	19	3.8	18	86	3	77	34	20	18	27	1.96
581304--581486	34	5.4	34	86	3	244	39	26	7	26	1.83
583218--583280	29	2.2	30	80	11	78	42	1	0	55	1.09
583239--583296	29	2.0	29	87	9	84	46	1	1	50	1.22
583317--583377	17	3.3	18	77	13	61	31	0	0	68	0.89
583312--583377	14	4.6	14	72	20	57	30	1	0	68	0.99
583317--583375	6	9.8	6	75	17	52	30	0	0	69	0.89
584119--584152	9	3.7	9	88	4	50	58	5	0	35	1.22
584193--584240	15	3.2	15	81	0	69	45	4	0	50	1.21
584496--584542	2	23.5	2	100	0	94	0	48	0	51	1.00
584542--584574	2	16.5	2	100	0	66	48	0	0	51	1.00
595163--595300	6	24.7	6	68	18	66	55	1	0	43	1.08
595173--595300	24	5.2	24	73	17	95	54	1	0	43	1.09
595199--595301	33	3.2	31	73	14	68	56	0	0	42	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
595164--595300	62	2.3	60	80	11	163	55	1	0	43	1.08
595163--595298	35	4.1	33	75	19	115	55	1	0	43	1.09
598360--598426	24	3.0	22	74	10	64	53	0	0	46	1.00
601512--601544	15	2.1	16	88	5	50	72	0	9	18	1.10
608140--608180	18	2.2	20	91	8	68	58	0	0	41	0.98
608144--608207	19	3.2	21	77	20	59	51	0	0	48	1.00
608198--608237	20	2.0	20	85	5	53	62	0	0	37	0.95
608223--608263	18	2.3	18	87	8	57	60	2	0	36	1.10
608184--608253	27	2.6	27	79	2	70	60	1	0	38	1.06
608346--608635	148	2.0	149	86	3	415	41	5	7	45	1.56
608718--608757	21	2.0	21	85	5	55	50	2	0	47	1.14
608799--608857	27	2.1	27	84	3	73	45	3	1	49	1.28
608863--608901	20	1.9	20	84	5	51	58	2	2	35	1.25
609074--609195	16	7.2	16	71	17	68	57	2	1	38	1.22
609133--609181	9	5.7	9	74	16	50	65	2	0	32	1.04
609129--609195	16	4.0	18	86	5	72	64	1	0	34	1.03
609266--609298	16	2.1	16	100	0	66	36	15	30	18	1.91
612303--612333	12	2.5	13	94	5	55	77	12	9	0	0.99
616073--616116	12	3.6	12	77	17	54	52	0	0	47	1.00
616162--616198	2	18.5	2	100	0	74	51	0	0	48	1.00
616598--616624	13	2.1	13	100	0	54	25	0	0	74	0.83
616647--616685	18	2.2	17	86	13	53	61	2	0	35	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
617365--617420	28	2.0	28	85	0	76	53	0	0	46	1.00
623688--623736	19	2.7	19	78	6	57	48	2	0	48	1.12
625391--625466	10	7.9	10	75	16	54	44	0	0	55	0.99
625372--625466	47	2.0	46	82	12	111	43	0	0	56	0.99
625397--625462	5	13.8	5	74	15	50	42	0	0	57	0.98
625427--625473	14	3.3	14	82	11	51	46	0	0	53	1.00
625524--625611	39	2.5	34	82	17	92	45	0	0	54	0.99
625612--625652	21	2.0	21	95	0	73	29	7	7	56	1.54
625939--625979	20	2.0	21	85	9	57	34	0	0	65	0.93
626894--627208	103	3.2	100	84	9	371	53	5	4	36	1.45

Tables:   1   2   3   4   5   6   7   8