genome.fa.s327.2.7.7.80.10.50.1000.4.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: Scaffold327
Parameters: 2 7 7 80 10 50 1000
Length:  596179

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 484 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)
476647--476772	20	6.7	20	80	15	144	26	16	14	42	1.87
476687--476751	32	2.0	32	100	0	130	27	18	15	38	1.91
476707--476731	12	2.1	12	100	0	50	32	16	16	36	1.90
476667--476771	52	2.0	52	94	0	183	27	17	14	40	1.88
476646--476787	72	2.0	72	86	5	198	28	16	14	41	1.87
479057--479242	79	2.4	79	91	1	302	28	25	14	31	1.95
479180--479356	51	3.5	49	75	10	167	31	27	9	32	1.88
479057--479265	79	2.6	78	86	4	215	28	24	13	33	1.93
490423--490706	151	1.9	151	81	5	351	38	15	16	30	1.89
491388--491583	98	2.0	99	95	1	358	51	18	4	25	1.65
491979--492022	22	2.0	22	86	0	61	4	22	36	36	1.75
491793--492097	78	3.9	79	83	5	395	8	22	31	36	1.85
491793--492097	160	1.9	155	87	4	441	8	22	31	36	1.85
494440--494587	72	2.1	72	87	2	208	37	5	11	45	1.63
496126--496158	2	16.5	2	100	0	66	51	0	0	48	1.00
496807--496856	24	2.1	25	82	14	61	56	4	0	40	1.18
497817--497848	16	2.0	16	93	0	55	21	9	12	56	1.64
498478--500072	228	7.0	228	85	2	1630	29	21	24	23	1.99
498478--500045	684	2.3	684	82	2	1835	30	21	24	23	1.99
500574--500598	2	12.5	2	100	0	50	52	0	0	48	1.00
505034--505059	4	6.5	4	100	0	52	26	0	0	73	0.84
506591--506668	21	3.6	21	80	5	84	65	0	1	33	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
506593--506662	24	3.0	24	71	12	74	65	0	1	32	1.01
506737--506880	35	4.2	35	76	11	145	56	0	3	40	1.16
506783--506876	29	2.9	29	68	29	64	53	0	4	42	1.20
506753--506877	31	3.7	31	79	17	108	53	0	4	42	1.19
508479--508522	23	2.0	22	81	4	52	43	6	4	45	1.51
508524--508580	23	2.4	23	85	8	71	59	0	1	38	1.08
509447--509489	16	2.5	17	81	11	52	62	0	4	32	1.15
510069--510119	14	3.6	14	79	12	59	37	0	0	62	0.95
510194--510310	19	6.4	18	66	20	64	56	2	0	40	1.19
510178--510255	35	2.2	35	84	4	95	61	0	0	38	0.96
510510--510578	21	3.5	20	69	23	56	50	4	0	44	1.21
510702--510743	20	2.0	23	86	13	63	52	0	4	42	1.22
511003--511037	18	1.9	18	100	0	70	74	0	5	20	1.02
511104--511140	17	2.2	17	95	0	65	45	2	5	45	1.40
511827--511954	21	6.0	21	66	20	59	49	1	3	46	1.27
511841--511912	24	2.9	24	80	10	74	48	1	2	47	1.25
512533--512586	28	1.9	28	88	0	81	40	11	3	44	1.58
513218--513253	15	2.4	15	90	9	56	25	13	11	50	1.75
514762--514805	21	2.1	22	87	8	65	63	4	6	25	1.38
515851--515889	3	13.0	3	94	0	69	66	2	0	30	1.05
518019--518052	2	17.0	2	100	0	68	0	50	0	50	1.00
522643--522680	15	2.5	15	91	0	67	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
522706--522747	12	3.6	12	80	3	50	47	0	0	52	1.00
523434--523470	16	2.3	16	90	0	56	62	2	0	35	1.10
532171--532208	6	6.3	6	87	0	58	44	5	0	50	1.24
532592--532629	20	1.9	20	88	0	58	57	0	0	42	0.98
533365--533445	31	2.6	31	92	0	126	56	1	4	37	1.29
533379--533430	16	3.3	16	74	15	63	59	0	3	36	1.16
533407--533487	22	3.5	24	78	21	84	56	0	0	43	0.99
533465--533501	12	2.7	14	80	20	51	54	0	0	45	1.00
533413--533503	20	4.4	20	68	17	53	54	0	0	45	0.99
533681--533717	2	18.5	2	94	0	65	45	2	0	51	1.15
534494--534628	66	2.0	67	94	1	236	28	11	11	48	1.75
534747--534771	2	12.5	2	100	0	50	52	0	0	48	1.00
534839--534914	26	3.1	25	74	18	70	75	0	23	1	0.89
534839--534912	9	7.8	9	70	20	53	74	0	24	1	0.90
534851--534903	21	2.5	22	84	12	74	75	0	22	1	0.90
534851--534915	22	3.0	22	80	15	73	76	0	21	1	0.86
534839--534912	19	4.1	18	74	22	59	74	0	24	1	0.90
534962--535027	32	2.1	32	82	5	80	30	1	1	66	1.10
534986--535074	24	3.7	23	74	16	83	28	2	2	67	1.14
536924--536965	17	2.4	18	84	11	61	54	0	0	45	0.99
536936--536992	19	3.0	19	82	10	55	59	0	0	40	0.97
537198--537263	24	2.7	23	81	11	69	59	0	1	39	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
537175--537332	16	9.5	17	65	13	62	55	0	1	43	1.08
537234--537301	21	3.2	21	74	14	61	51	0	0	48	1.00
537297--537342	22	2.2	21	88	7	67	56	0	0	43	0.99
537244--537350	29	3.6	28	74	22	69	53	0	0	46	1.00
537690--537733	21	2.2	19	84	8	52	22	9	4	63	1.42
537802--537874	33	2.2	34	82	7	87	45	4	1	49	1.29
538768--538801	17	2.1	17	88	5	52	61	0	0	38	0.96
538898--538943	14	3.2	14	80	14	58	50	0	0	50	1.00
538894--538952	29	2.0	30	90	3	93	54	0	0	45	0.99
539385--539433	16	2.9	16	78	6	53	32	0	2	65	1.04
539533--539563	13	2.4	13	94	0	53	32	0	0	67	0.91
540677--540707	2	15.5	2	100	0	62	51	0	0	48	1.00
545936--545960	11	2.3	11	100	0	50	16	0	0	84	0.63
552464--552496	16	2.0	17	88	5	50	42	0	3	54	1.15
562433--562457	12	2.1	12	100	0	50	24	8	8	60	1.52
562985--563037	20	2.7	19	80	5	61	45	0	0	54	0.99
562992--563057	20	3.9	18	77	22	54	39	1	0	59	1.07
564400--564466	15	4.1	16	74	25	61	46	0	0	53	1.00
564398--564467	33	2.1	35	89	5	108	48	0	0	51	1.00
564488--564521	10	3.1	11	87	12	52	35	0	0	64	0.94
564448--564519	24	3.0	24	76	15	78	40	1	0	58	1.07
567754--567821	22	2.9	25	81	14	83	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
567771--567820	11	4.6	11	77	2	57	62	0	0	38	0.96
568090--568131	17	2.4	17	80	11	50	66	0	2	30	1.04
567588--568234	297	2.2	288	88	4	938	47	7	7	37	1.62
568248--568294	24	2.0	24	83	8	60	63	0	2	34	1.06
568572--568639	28	2.4	29	78	16	79	41	0	0	58	0.98
570128--570181	26	2.0	27	82	7	65	20	1	11	66	1.32
571486--571511	3	8.7	3	100	0	52	30	34	0	34	1.58
571779--571825	12	3.8	13	80	8	53	65	0	2	31	1.04
574203--574265	26	2.4	26	76	10	74	50	0	1	47	1.10
574494--574530	17	2.2	17	100	0	74	37	8	10	43	1.69
574970--575008	14	2.9	14	84	3	53	66	0	0	33	0.92
575442--575498	21	2.7	21	91	8	98	31	10	21	36	1.87
575554--575621	19	3.9	19	78	21	85	35	11	14	38	1.83
575575--575599	13	1.9	13	100	0	50	36	16	16	32	1.90
575556--575618	32	2.0	32	96	0	117	34	12	15	36	1.86
575661--575686	13	2.0	13	100	0	52	30	15	15	38	1.88
575673--575726	20	2.7	20	100	0	108	25	14	18	40	1.89
577860--577906	23	2.0	23	100	0	94	23	25	25	25	2.00
577864--577914	23	2.2	23	85	0	66	23	23	27	25	2.00
578400--578481	28	2.9	28	83	7	96	25	17	32	24	1.96
578464--578794	51	6.3	51	71	13	215	30	12	26	30	1.92
578616--578691	27	2.8	28	88	6	102	21	21	34	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
581153--581178	13	2.0	13	100	0	52	38	15	15	30	1.88
581132--581198	33	2.0	33	88	0	98	43	16	14	25	1.86
581218--581285	19	3.9	18	76	23	83	38	14	11	35	1.83
581240--581264	13	1.9	13	100	0	50	32	16	16	36	1.90
581221--581283	32	2.0	32	96	0	117	36	15	12	34	1.86
581321--581397	21	3.7	21	89	3	111	35	16	12	35	1.88
582077--583502	61	24.4	61	89	6	1863	23	20	30	26	1.98
582077--583502	121	12.2	121	92	3	1869	23	20	30	26	1.98
589656--589824	52	3.3	49	79	8	185	31	11	26	30	1.91
589656--589991	51	6.4	50	70	14	198	30	12	26	30	1.92

Tables:   1   2   3   4   5