genome.fa.s416.2.7.7.80.10.50.1000.4.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: Scaffold416
Parameters: 2 7 7 80 10 50 1000
Length:  1156864

Tables:   1   2   3   4   5   6   7   8   

This is table  4  of  8  ( 844 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)
426059--426095	19	1.9	19	89	10	58	54	0	2	43	1.14
426188--426237	25	2.0	25	85	14	68	32	0	0	68	0.90
426436--426520	16	5.0	16	74	20	66	56	2	1	40	1.20
426473--426519	17	2.9	16	81	9	60	63	2	0	34	1.06
426566--426673	25	4.2	26	68	15	73	48	0	0	50	1.07
428238--428268	16	1.9	16	93	0	53	61	3	6	29	1.37
428549--428606	24	2.4	23	82	8	62	37	0	3	58	1.15
429510--429539	13	2.3	13	100	0	60	36	13	16	33	1.88
429585--429640	19	2.9	19	91	2	85	35	17	16	30	1.92
429625--429651	13	2.1	13	100	0	54	40	14	14	29	1.86
431248--431319	20	3.6	20	90	0	108	29	15	12	43	1.83
432522--432618	19	5.8	18	72	27	97	30	12	17	39	1.87
432524--432623	32	3.1	32	97	0	182	32	12	18	38	1.87
432543--432598	13	3.8	13	75	24	58	30	14	17	37	1.90
432706--432829	52	2.4	52	97	0	239	36	19	18	25	1.94
433849--433910	32	1.9	33	87	9	92	40	14	14	30	1.86
433849--433910	33	1.9	32	87	9	90	40	14	14	30	1.86
433915--433949	10	3.5	10	96	0	61	25	20	31	22	1.98
440083--440121	13	3.0	13	96	0	69	30	17	15	35	1.91
442649--442700	20	2.7	20	85	11	72	40	17	13	28	1.87
449375--449425	22	2.5	22	78	9	54	50	0	17	31	1.46
455013--455037	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)
455081--455151	32	2.2	32	92	0	115	32	19	14	33	1.92
455108--455132	13	1.9	13	100	0	50	32	16	16	36	1.90
459210--459234	13	1.9	13	100	0	50	32	16	16	36	1.90
459264--459316	20	2.7	19	88	5	70	33	20	13	32	1.91
460588--460658	27	2.6	27	93	4	117	16	19	40	22	1.91
462799--462910	33	3.3	32	85	7	118	36	10	16	36	1.83
462866--462892	13	2.1	13	100	0	54	40	14	14	29	1.86
462845--462915	20	3.9	20	72	24	75	35	8	14	42	1.75
462930--462987	13	4.0	13	74	23	53	32	17	15	34	1.91
462944--463006	19	3.6	19	76	24	84	34	19	12	33	1.89
462931--463006	32	2.4	32	97	0	143	34	18	14	32	1.91
463797--463921	57	2.2	58	89	1	198	29	8	15	47	1.74
465174--465200	14	1.9	14	100	0	54	37	3	0	59	1.15
465402--465456	22	2.5	22	80	13	69	50	1	0	47	1.11
466325--466377	20	2.7	20	88	5	72	33	13	20	32	1.91
470346--470395	20	2.5	20	100	0	100	36	20	10	34	1.86
471015--471067	22	2.4	22	83	0	70	24	32	5	37	1.79
479075--479128	20	2.7	20	86	13	76	37	18	11	33	1.86
479157--479211	19	2.8	20	86	5	76	34	20	14	30	1.92
480338--480414	28	2.8	28	86	7	95	22	18	35	24	1.96
480397--480578	52	3.6	49	83	8	220	31	10	26	30	1.90
483159--483200	21	2.0	21	95	0	75	30	19	7	42	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
483218--483296	13	5.5	13	78	21	86	34	18	13	32	1.91
483225--483315	17	5.8	16	76	23	95	34	19	13	32	1.90
483218--483317	30	3.3	30	95	2	173	34	19	13	34	1.90
484137--484187	19	2.6	19	81	3	57	35	13	9	41	1.78
487911--487950	20	2.0	21	95	5	73	40	12	15	32	1.84
489884--489944	19	3.5	19	71	28	64	34	13	14	37	1.85
489880--489952	32	2.3	32	95	4	130	34	12	16	36	1.86
489969--490010	21	2.0	21	90	0	66	40	11	19	28	1.87
492387--492751	51	6.9	53	69	16	163	28	24	12	34	1.91
492552--492772	51	4.3	51	80	6	214	31	24	10	33	1.90
492760--492831	28	2.6	28	86	4	92	20	34	20	23	1.96
492385--492882	262	1.9	262	92	0	845	28	25	13	32	1.93
494357--494421	33	2.0	33	84	6	87	38	13	16	30	1.88
494410--494527	52	2.3	52	98	0	227	34	16	16	32	1.91
496284--496309	13	2.0	13	100	0	52	30	15	15	38	1.88
504168--504247	32	2.5	33	82	10	101	31	12	17	38	1.87
505086--505213	19	6.6	19	90	0	166	29	17	14	39	1.88
508385--508440	20	2.8	19	89	5	76	37	16	17	28	1.91
508491--508542	19	2.7	20	84	6	79	42	15	13	28	1.85
512587--512617	15	2.1	15	93	0	53	48	16	22	12	1.80
514822--514867	21	2.2	20	81	11	58	32	19	4	43	1.71
517234--517285	19	2.7	20	90	6	88	44	15	11	28	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
523159--523210	26	2.0	26	88	3	77	59	3	3	32	1.33
524548--524574	13	2.1	13	100	0	54	29	14	14	40	1.86
524529--524592	33	2.0	32	84	9	85	28	12	15	43	1.83
525539--525569	10	3.1	10	90	0	53	41	6	29	22	1.78
525593--525629	19	2.0	19	94	5	67	27	10	16	45	1.80
525593--525729	53	2.6	53	95	1	247	25	17	18	38	1.92
525699--525769	20	3.5	20	75	11	65	29	12	16	40	1.86
525809--525849	21	2.0	21	85	9	57	39	9	12	39	1.76
528148--528199	20	2.6	20	81	0	59	26	9	17	46	1.79
529455--529480	11	2.4	11	100	0	52	34	0	7	57	1.27
533086--533139	20	2.7	20	83	8	74	33	14	14	37	1.88
533167--533191	13	1.9	13	100	0	50	32	16	16	36	1.90
533179--533224	20	2.3	20	80	0	56	34	13	17	34	1.88
538375--538401	13	2.1	13	100	0	54	29	14	14	40	1.86
538356--538419	33	2.0	32	84	3	83	31	15	14	39	1.87
538387--538439	19	2.7	19	82	2	61	33	15	15	35	1.88
538579--538624	23	2.0	23	91	0	74	39	8	19	32	1.82
538733--538775	9	4.6	9	86	11	59	65	20	11	2	1.36
538736--538776	10	4.2	10	87	3	57	65	21	9	2	1.34
540137--540170	3	11.3	3	93	0	59	38	0	32	29	1.58
541695--541814	51	2.4	51	82	2	143	31	16	26	25	1.96
541746--542011	79	3.4	78	79	8	283	33	14	25	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
541985--542149	51	3.2	50	84	5	197	31	11	27	29	1.92
541879--542049	76	2.2	76	81	7	193	30	15	26	26	1.96
544512--544590	21	3.8	20	83	6	95	30	15	12	41	1.84
544532--544593	21	3.0	21	90	4	99	27	17	9	45	1.80
544612--544682	32	2.2	32	92	5	117	39	15	9	35	1.81
545458--545629	42	4.0	42	78	13	161	41	12	27	19	1.87
545463--545629	43	3.9	42	78	12	151	40	12	26	19	1.88
545568--545910	155	2.2	156	88	4	494	28	19	27	24	1.98
545761--545965	55	3.6	55	84	4	239	23	20	29	25	1.99
545666--546185	210	2.4	213	85	7	692	26	20	28	24	1.99
545982--546740	61	12.8	61	81	10	761	25	20	27	26	1.99
545982--546755	116	6.6	115	82	10	861	25	20	27	26	1.99
546779--547052	125	2.2	121	86	5	379	27	19	27	25	1.99
546779--547046	63	4.3	61	84	2	331	27	20	26	25	1.99
553193--553398	79	2.6	78	85	4	270	30	14	28	27	1.95
553352--553425	27	2.7	26	89	6	103	22	21	33	21	1.97
553272--553497	103	2.2	104	85	4	294	30	15	27	26	1.96
553218--553550	182	1.8	183	82	3	436	30	14	27	27	1.95
553514--553650	51	2.7	51	81	4	161	32	11	27	28	1.92
558116--558185	27	2.6	27	95	0	122	38	12	28	20	1.89
562463--562487	13	1.9	13	100	0	50	32	16	16	36	1.90
562555--562603	20	2.5	20	93	0	80	38	10	18	32	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
564010--564046	16	2.2	17	95	4	67	51	21	8	18	1.72
567034--567204	52	3.3	51	78	7	177	33	11	25	29	1.91
567033--567253	51	4.3	51	80	6	214	33	12	25	28	1.92
567236--567308	27	2.7	27	86	2	92	19	21	35	23	1.96
567190--567387	103	1.9	105	84	3	265	29	16	28	26	1.97
567371--567491	51	2.4	51	90	0	179	31	12	26	29	1.93
567408--567536	51	2.5	51	87	2	170	36	11	24	27	1.90
567552--567724	51	3.4	50	78	9	179	34	11	22	31	1.90
570071--570096	13	2.0	13	100	0	52	38	15	15	30	1.88
570083--570124	21	2.0	21	100	0	84	28	19	9	42	1.82

Tables:   1   2   3   4   5   6   7   8