genome.fa.s264.2.7.7.80.10.50.1000.3.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: Scaffold264
Parameters: 2 7 7 80 10 50 1000
Length:  1000627

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 631 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)
410505--410544	16	2.5	17	84	15	59	7	10	0	82	0.84
410507--410543	15	2.5	15	91	8	58	5	10	0	83	0.79
411449--411816	165	2.2	164	84	3	454	30	9	8	51	1.64
411552--411891	165	2.1	165	81	6	393	29	10	9	50	1.68
412450--412491	9	4.7	9	79	8	50	76	2	21	0	0.90
412452--412506	13	4.3	12	78	13	65	78	1	18	1	0.94
412479--412513	17	2.0	18	88	5	54	77	2	14	5	1.07
412453--412508	22	2.6	23	80	11	64	78	1	17	1	0.92
416049--416181	52	2.6	52	88	0	203	36	17	16	29	1.92
422919--422959	11	3.9	11	81	9	50	7	24	2	65	1.30
426952--427002	21	2.5	21	87	6	70	35	17	11	35	1.87
428742--428767	13	2.0	13	100	0	52	30	15	15	38	1.88
428723--428785	32	2.0	32	87	6	92	28	15	15	39	1.89
429474--429517	21	2.1	21	83	8	54	25	31	4	38	1.76
431328--431353	13	2.0	13	100	0	52	38	15	15	30	1.88
433433--433463	15	2.1	15	93	0	53	12	22	16	48	1.80
435267--435311	21	2.1	21	84	8	56	22	20	4	53	1.63
437509--437559	19	2.7	20	84	9	70	29	15	15	39	1.89
438933--438965	15	2.1	16	94	5	59	0	18	3	78	0.87
439754--439794	13	3.4	13	80	12	52	51	0	0	48	1.00
441230--441260	3	10.3	3	100	0	62	67	0	0	32	0.91
442515--442547	2	16.5	2	100	0	66	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)
445720--445752	2	16.5	2	100	0	66	0	48	0	51	1.00
445867--445897	16	1.9	16	93	0	53	0	6	0	93	0.35
447472--447522	19	2.6	20	96	3	95	27	11	15	45	1.81
452826--452876	19	2.6	19	90	3	84	27	7	15	49	1.72
458891--458965	20	3.8	20	80	3	80	40	12	13	34	1.81
458888--458965	40	2.0	39	87	2	111	39	12	12	34	1.82
459577--461442	57	32.8	57	87	5	2534	21	17	32	28	1.96
459577--461440	115	16.4	115	88	4	2587	21	17	32	28	1.96
459577--461166	28	55.6	29	88	4	2206	21	17	32	28	1.96
461150--461186	18	2.1	18	94	0	65	16	8	43	32	1.77
461121--461210	46	1.9	47	95	2	164	18	14	36	30	1.91
461168--461440	29	9.5	29	91	2	435	21	15	33	29	1.94
461168--461440	86	3.2	87	91	2	444	21	15	33	29	1.94
462672--462723	1	52.0	1	76	0	50	1	1	7	88	0.66
462672--462723	19	2.7	18	85	5	68	1	1	7	88	0.66
475731--475785	22	2.5	22	100	0	110	61	9	10	18	1.54
476696--476770	20	3.8	20	80	3	80	40	12	13	34	1.81
476693--476770	40	2.0	39	87	2	111	39	12	12	34	1.82
478179--478549	79	4.7	79	81	6	414	27	26	12	34	1.92
487956--488635	155	4.4	155	83	5	727	24	16	20	39	1.92
487956--488635	309	2.2	310	82	6	792	24	16	20	39	1.92
488093--488656	308	1.8	308	82	4	724	24	15	20	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
490886--490926	7	5.9	7	100	0	82	58	0	0	41	0.98
492442--492496	20	2.7	21	85	2	76	49	9	10	30	1.69
492518--492597	42	1.9	42	84	0	106	40	11	8	40	1.72
492542--492597	20	2.6	22	80	5	71	33	12	8	44	1.73
493579--493612	17	1.9	18	88	5	52	32	14	11	41	1.82
494676--494701	13	2.0	13	100	0	52	38	15	15	30	1.88
512838--512963	41	2.9	42	72	14	123	15	24	13	46	1.81
512755--512963	83	2.5	85	86	7	291	16	24	12	46	1.82
512965--513066	42	2.4	42	78	4	107	25	21	13	39	1.90
513147--513622	248	1.9	247	88	0	718	29	28	22	19	1.98
513519--513601	31	2.7	31	82	0	94	28	33	25	12	1.92
514300--514379	20	3.8	22	79	8	87	37	11	12	38	1.79
514300--514379	42	1.9	42	84	0	106	37	11	12	38	1.79
515818--516408	155	3.8	155	80	5	631	39	20	15	24	1.91
515843--516406	310	1.8	310	89	0	878	39	20	15	24	1.91
516666--516953	148	2.0	146	82	5	357	37	14	12	35	1.84
518900--518976	28	2.8	28	86	7	95	22	18	35	24	1.96
518959--519181	105	2.1	103	82	3	259	33	12	25	29	1.92
518959--519181	52	4.3	51	83	4	257	33	12	25	29	1.92
518798--519181	51	7.4	51	74	11	240	31	13	26	28	1.94
519164--519236	27	2.7	27	87	6	94	23	21	31	23	1.98
519224--519348	51	2.4	50	84	7	160	30	12	24	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
521782--521849	19	3.9	18	76	23	83	38	14	11	35	1.83
521804--521828	13	1.9	13	100	0	50	32	16	16	36	1.90
521785--521847	32	2.0	32	96	0	117	36	15	12	34	1.86
521885--521961	21	3.7	21	89	3	111	35	16	12	35	1.88
522317--522368	11	4.4	12	83	9	63	0	13	1	84	0.70
522317--522369	12	4.4	12	83	6	63	0	13	1	84	0.69
522956--523925	330	2.9	326	80	6	1091	51	8	11	28	1.66
522956--523925	164	5.9	165	80	5	898	51	8	11	28	1.66
527505--527539	15	2.3	15	95	0	61	11	20	14	54	1.70
531597--531655	25	2.6	22	84	12	75	27	11	15	45	1.81
533155--533181	13	2.1	13	100	0	54	40	14	14	29	1.86
533168--533222	20	2.7	21	85	2	76	41	14	16	27	1.87
533274--533298	13	1.9	13	100	0	50	32	20	16	32	1.94
533255--533318	33	2.0	32	90	3	101	37	21	12	28	1.90
535299--535341	2	21.5	2	100	0	86	51	0	0	48	1.00
536178--536207	7	4.4	7	91	8	53	50	0	0	50	1.00
536182--536207	13	2.0	13	100	0	52	46	0	0	53	1.00
536257--536345	26	3.4	27	85	3	94	47	6	4	41	1.50
536512--536543	2	16.0	2	100	0	64	50	0	50	0	1.00
537432--537853	228	1.9	227	91	3	706	36	9	8	45	1.67
538849--538894	16	2.9	15	84	15	58	54	0	0	45	0.99
538843--538887	23	2.0	21	87	8	63	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
538839--538934	16	6.3	16	71	18	53	59	1	0	39	1.04
538840--538933	7	12.7	7	74	13	55	60	1	0	38	1.04
539022--539061	16	2.6	15	88	4	53	65	2	0	32	1.06
541929--541969	20	2.0	20	90	0	64	31	17	9	41	1.82
549878--549955	30	2.5	31	93	4	140	34	19	8	37	1.83
550220--550462	57	4.2	57	83	7	260	25	29	10	34	1.89
550216--550434	27	7.8	27	79	10	215	25	31	10	33	1.89
550456--550531	31	2.5	31	84	0	98	28	27	19	23	1.98
550538--550727	52	3.6	51	81	4	200	25	22	14	37	1.92
551378--551433	20	2.7	21	80	5	69	41	14	16	28	1.87
563526--563882	140	2.5	142	83	4	431	32	10	11	45	1.75
565489--565545	26	2.2	26	84	12	73	38	5	7	49	1.53
568402--568454	9	5.8	9	80	4	61	83	3	11	1	0.87
568402--568462	18	3.3	18	82	13	79	81	3	9	4	0.94
568401--568454	19	2.9	18	86	8	72	83	3	11	1	0.85
568401--568446	20	2.4	19	88	3	65	84	4	8	2	0.83
568401--568462	19	3.3	18	78	13	63	82	3	9	4	0.93
570272--570530	60	4.4	59	76	8	224	22	19	11	47	1.81
570272--570502	30	7.8	29	71	11	128	22	19	11	46	1.81
570274--570530	120	2.2	119	80	5	297	22	19	11	46	1.82
570312--570530	30	7.4	29	70	12	106	21	19	12	46	1.83
570541--570650	45	2.4	46	78	4	134	20	24	12	41	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
570751--570869	40	3.0	40	79	7	123	15	22	16	44	1.86
570800--571018	121	1.8	122	81	5	273	18	22	15	42	1.88
570919--571045	41	3.1	40	73	10	123	21	19	13	45	1.84
570919--571080	81	2.0	81	85	4	220	20	21	14	43	1.87
570856--571080	40	5.6	40	71	11	122	20	21	14	43	1.87
571177--571299	41	3.0	41	72	1	122	17	24	16	42	1.88
571180--571314	40	3.3	40	72	3	128	16	24	14	44	1.85
571369--571730	44	8.2	44	77	4	309	18	20	16	44	1.87
571358--571689	132	2.5	132	78	7	352	17	20	15	46	1.85
571358--571688	88	3.8	88	83	2	398	17	20	16	45	1.85

Tables:   1   2   3   4   5   6