genome.fa.s269.2.7.7.80.10.50.1000.3.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: Scaffold269
Parameters: 2 7 7 80 10 50 1000
Length:  1389591

Tables:   1   2   3   4   5   6   7   

This is table  3  of  7  ( 840 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)
362357--362411	24	2.3	24	81	6	67	7	21	0	70	1.11
373472--373622	76	2.0	76	81	0	176	35	13	15	35	1.87
376478--377015	156	3.4	154	78	8	437	28	20	13	37	1.91
376478--377004	79	6.7	78	74	12	334	28	21	12	37	1.90
382651--382862	28	7.4	28	81	12	236	17	16	28	37	1.91
382620--382862	57	4.2	57	90	5	341	18	15	28	37	1.92
382651--382862	85	2.5	85	81	12	256	17	16	28	37	1.91
382835--382927	35	2.7	34	81	3	107	35	11	32	20	1.89
382903--383063	29	5.6	29	75	8	132	25	18	29	26	1.98
382922--383081	85	1.9	86	85	3	225	23	17	28	30	1.97
384525--384578	1	54.0	1	77	0	54	1	0	9	88	0.58
384516--384564	11	4.3	12	85	10	59	0	0	14	85	0.59
384516--384575	6	10.8	6	81	12	58	1	0	11	86	0.64
384516--384579	22	3.0	20	86	11	83	1	0	12	85	0.66
388755--388848	47	2.0	47	100	0	188	25	12	23	38	1.90
391947--391984	13	2.9	13	96	0	67	31	15	18	34	1.92
397864--397938	20	3.8	19	78	7	78	32	12	16	40	1.84
397813--397988	91	1.9	91	84	2	237	30	14	11	43	1.81
398622--398807	51	3.9	51	74	15	187	30	17	10	41	1.83
398683--398758	20	3.8	20	85	0	107	34	11	13	40	1.81
398633--398807	91	1.9	91	91	0	287	31	16	10	41	1.83
402416--402453	13	2.9	13	96	0	67	31	15	18	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
404536--404566	15	2.1	15	93	0	53	12	22	16	48	1.80
406369--406413	21	2.1	21	84	8	56	22	20	4	53	1.63
422314--422374	17	3.6	16	79	14	68	85	13	0	1	0.68
422320--422374	23	2.4	23	87	0	83	85	12	0	1	0.68
423084--423112	15	1.9	15	100	0	58	41	41	0	17	1.49
423534--423591	20	2.9	21	87	5	84	34	17	12	36	1.87
423507--423638	71	1.9	71	91	3	221	31	18	9	39	1.84
426146--426221	20	3.8	20	76	10	73	39	10	13	36	1.79
426130--426242	41	2.8	41	85	4	149	38	13	14	33	1.84
426169--426242	21	3.6	21	80	10	89	37	12	16	33	1.85
427485--427567	39	2.1	39	90	0	130	44	13	15	26	1.83
428906--428955	27	1.9	25	84	15	66	44	0	10	46	1.37
429950--430001	18	2.9	19	78	13	58	65	1	1	30	1.14
430036--430076	19	2.2	18	91	4	64	17	0	2	80	0.82
430036--430076	6	6.7	6	88	5	64	17	0	2	80	0.82
430081--430126	23	2.0	23	83	8	58	23	0	4	71	1.03
430068--430141	31	2.3	32	80	11	82	22	0	6	70	1.11
437615--437646	16	2.1	16	94	5	57	75	0	0	25	0.81
441754--441792	13	3.0	13	80	0	51	33	17	12	35	1.88
441925--441966	20	2.0	21	86	13	61	35	21	0	42	1.53
442227--442278	20	2.4	21	87	9	70	19	50	26	3	1.65
444215--444271	20	2.8	20	83	0	69	38	14	15	31	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
444257--444285	13	2.2	13	100	0	58	31	17	13	37	1.89
450347--450419	20	3.6	20	81	3	101	35	13	19	31	1.91
450365--450440	21	3.7	21	78	3	91	40	11	17	30	1.85
450347--450440	41	2.3	41	96	0	170	38	12	18	30	1.88
450479--450504	13	2.0	13	100	0	52	38	15	15	30	1.88
454566--454596	15	2.1	15	93	0	53	48	16	22	12	1.80
456611--456688	20	3.6	21	73	15	70	25	12	16	44	1.83
456675--456709	13	2.7	13	95	0	61	28	17	17	37	1.92
458534--458606	36	2.0	36	100	0	146	42	5	35	16	1.71
459192--459264	20	3.6	20	81	3	101	35	13	19	31	1.91
459210--459285	21	3.7	21	78	3	91	40	11	17	30	1.85
459192--459285	41	2.3	41	96	0	170	38	12	18	30	1.88
459324--459349	13	2.0	13	100	0	52	38	15	15	30	1.88
460862--460916	28	2.0	28	96	0	101	40	23	18	18	1.91
461733--462026	79	3.7	77	77	4	257	36	12	24	26	1.91
464435--464492	20	2.8	20	84	5	62	31	8	12	48	1.70
464456--464497	20	2.1	20	90	0	66	28	14	9	47	1.75
467366--467406	21	2.0	21	95	4	75	29	19	9	41	1.83
468811--468886	20	3.7	20	79	6	71	30	15	13	40	1.86
477419--478023	164	3.7	163	82	6	667	51	7	12	28	1.66
477419--478023	327	1.9	325	82	5	783	51	7	12	28	1.66
479276--479653	84	4.5	84	79	4	386	35	12	29	21	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
479496--479633	43	3.3	43	70	4	127	34	15	27	21	1.94
479691--479932	85	2.9	85	74	12	203	34	18	24	21	1.96
479779--480044	128	2.1	128	79	6	281	36	18	24	21	1.95
479726--480139	43	9.8	42	72	9	196	35	17	25	21	1.95
479984--480269	43	6.7	43	78	4	211	37	17	25	19	1.93
480175--480284	43	2.6	43	83	0	112	44	18	20	16	1.87
480366--480743	44	8.8	44	68	11	171	38	15	25	20	1.92
480412--480742	88	3.9	87	75	10	306	38	16	24	19	1.92
480409--480737	167	2.0	167	84	1	435	38	16	24	20	1.93
480621--480757	44	3.1	44	77	8	143	40	14	23	21	1.90
480767--480948	94	1.9	95	81	2	222	41	17	19	21	1.90
480749--480951	48	4.3	48	75	9	182	40	17	20	21	1.92
481593--481734	44	3.2	43	74	13	128	47	11	16	23	1.80
483113--483156	18	2.4	18	82	10	54	6	13	4	75	1.17
483131--483173	17	2.6	16	77	3	50	2	16	4	76	1.05
488905--488934	2	15.0	2	100	0	60	50	0	50	0	1.00
489006--489057	19	2.7	19	85	5	61	63	5	0	30	1.18
493163--493215	20	2.7	20	87	0	79	37	15	13	33	1.86
495350--495406	21	2.7	21	86	8	71	61	1	19	17	1.43
495399--495444	21	2.2	21	84	0	56	67	4	8	19	1.35
502416--502445	13	2.3	13	94	0	51	26	10	20	43	1.83
502532--502556	13	1.9	13	100	0	50	32	16	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
503485--503551	33	2.0	33	91	0	107	32	20	25	20	1.97
504897--504961	21	3.0	21	97	2	121	50	0	18	30	1.47
504893--504957	10	6.4	10	82	8	78	52	0	20	27	1.47
505051--505075	13	1.9	13	100	0	50	32	16	16	36	1.90
513236--513350	51	2.3	50	93	1	194	45	11	14	28	1.80
515431--515496	33	2.0	33	87	0	96	34	13	15	36	1.87
516015--516148	34	3.9	34	82	5	155	35	10	24	29	1.89
516400--516821	155	2.7	159	82	9	522	51	9	10	28	1.67
518435--519405	155	6.2	154	70	13	452	38	20	17	24	1.93
521008--521047	12	3.2	12	92	3	62	2	17	0	80	0.83
521008--521055	12	4.1	12	86	2	53	2	22	0	75	0.91
521579--521921	166	2.1	165	80	6	372	46	7	11	34	1.69
522956--523131	85	2.1	84	89	1	262	41	14	22	21	1.89
523126--523287	83	2.0	83	80	4	184	48	12	17	20	1.79
523911--523964	20	2.7	20	82	5	65	35	12	14	37	1.85
531809--531881	20	3.7	19	87	7	85	28	15	17	38	1.90
531847--532006	63	2.5	63	91	4	261	30	17	17	35	1.93
531973--532026	20	2.7	20	85	5	65	33	11	16	38	1.84
532809--533422	168	3.7	168	76	6	474	39	16	24	19	1.92
532933--533625	168	4.1	167	76	5	549	39	17	24	19	1.92
532769--534075	42	31.1	42	72	7	422	39	16	24	18	1.91
534959--534996	20	1.9	20	94	0	67	28	10	15	44	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
537389--537596	79	2.6	78	81	6	249	27	26	12	32	1.93
537564--537680	50	2.3	51	82	5	148	26	27	13	32	1.94
537615--537897	157	1.8	156	84	3	390	26	24	13	34	1.93
537615--537882	79	3.4	78	81	6	310	26	24	14	34	1.94
537615--537914	78	3.8	75	79	9	250	26	24	14	34	1.94
540760--540818	33	1.9	31	83	13	77	74	8	11	5	1.20
540788--540836	19	2.6	19	83	0	62	75	6	10	8	1.18
542688--542763	21	3.7	21	80	3	100	28	17	11	42	1.84
542708--542781	20	3.7	20	81	3	103	31	20	13	35	1.91
542688--542781	41	2.3	41	98	0	179	29	18	12	39	1.88

Tables:   1   2   3   4   5   6   7