genome.fa.s450.2.7.7.80.10.50.1000.3.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: Scaffold450
Parameters: 2 7 7 80 10 50 1000
Length:  725389

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 559 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)
342771--342795	13	1.9	13	100	0	50	32	16	16	36	1.90
343681--344483	43	16.8	53	77	14	342	31	17	25	25	1.97
343789--344434	43	14.1	43	82	11	752	30	18	26	24	1.98
343736--344483	92	8.0	92	92	2	1158	30	18	26	24	1.98
344072--344138	21	3.1	21	62	26	50	26	17	29	25	1.98
343736--344483	275	2.7	275	93	2	1244	30	18	26	24	1.98
344367--344434	22	3.1	22	62	26	54	30	20	25	23	1.98
344347--344413	21	3.1	21	62	26	50	26	19	28	25	1.99
344476--344545	33	2.2	32	85	9	99	18	18	34	28	1.95
344486--344552	33	2.0	34	94	2	118	20	17	34	26	1.96
344537--345127	34	17.3	35	71	18	301	32	12	33	21	1.91
344557--344743	71	2.7	70	92	3	297	35	12	33	18	1.89
344666--344838	87	2.0	88	93	3	296	33	13	32	20	1.91
344752--345099	62	5.4	61	87	7	376	31	13	33	21	1.92
345103--345188	30	2.8	30	92	5	138	26	19	27	25	1.99
346141--346195	24	2.2	25	90	3	85	0	9	7	83	0.81
353360--353487	52	2.5	52	93	3	215	30	18	17	32	1.95
353360--353507	52	2.9	50	85	12	185	31	18	18	31	1.95
353496--353520	13	1.9	13	100	0	50	36	16	16	32	1.90
353561--353627	33	2.0	33	88	0	98	40	13	11	34	1.81
353583--353607	13	1.9	13	100	0	50	32	16	16	36	1.90
354816--354861	24	1.9	24	86	0	65	71	4	0	23	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
355108--355157	17	2.9	17	74	11	57	68	4	2	26	1.18
355280--355340	28	2.3	26	83	10	72	22	4	6	65	1.36
355304--355351	25	1.9	25	87	8	71	22	4	6	66	1.32
355306--355519	117	1.8	117	79	7	247	28	4	3	63	1.31
355377--355573	97	2.0	96	79	10	209	26	5	4	63	1.35
355641--355667	14	1.9	14	100	0	54	29	0	0	70	0.88
356455--356542	12	7.8	12	69	23	57	54	2	0	43	1.12
356447--356525	22	4.1	20	70	23	62	54	2	0	43	1.14
356492--356537	15	2.9	17	81	12	55	54	0	0	45	0.99
356467--356543	24	3.2	24	85	7	95	54	2	0	42	1.14
356634--356693	20	3.1	19	81	11	77	48	1	0	50	1.11
356923--357009	27	3.2	27	64	20	72	27	9	6	56	1.56
356909--357020	55	2.0	55	100	0	224	28	9	7	54	1.59
357178--357220	24	1.9	23	81	13	54	32	6	6	53	1.55
357652--357696	12	3.8	12	85	5	65	71	2	0	26	0.98
357649--357696	23	2.0	23	92	4	78	70	2	0	27	0.98
359199--359239	18	2.2	20	86	8	59	56	0	0	43	0.99
359199--359241	19	2.2	20	83	8	52	55	0	0	44	0.99
359969--360014	19	2.3	20	85	3	67	60	2	0	36	1.09
361491--361543	20	2.7	20	88	5	72	30	15	11	43	1.81
361506--361575	33	2.1	33	84	5	88	31	18	11	38	1.86
363966--364083	51	2.3	51	86	2	157	27	25	14	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
365183--365237	19	2.9	18	74	25	60	34	0	1	63	1.05
365181--365247	11	6.7	10	73	13	50	32	0	2	64	1.09
365183--365249	20	3.4	19	76	12	64	32	0	2	64	1.09
366007--366032	7	3.7	7	100	0	52	11	0	42	46	1.40
366267--366306	18	2.2	18	86	0	53	47	0	5	47	1.24
366450--366497	24	2.0	24	88	4	71	56	2	0	41	1.11
368119--368163	17	2.6	18	76	23	51	48	0	0	51	1.00
368134--368166	6	5.8	6	89	10	52	51	0	0	48	1.00
368097--368166	28	2.5	28	75	15	72	48	1	1	48	1.19
368753--368810	27	2.2	27	90	3	91	10	8	8	72	1.29
369053--369095	21	2.0	21	100	0	86	27	30	9	32	1.88
374992--375451	173	2.8	160	80	11	531	31	10	5	52	1.58
375192--375228	18	2.0	19	89	5	58	35	10	2	51	1.51
375527--375568	19	2.2	19	86	0	57	50	0	0	50	1.00
375527--375578	18	2.8	18	85	2	59	44	0	0	55	0.99
376018--376067	23	2.1	25	92	7	86	78	0	20	2	0.86
376856--377295	163	2.7	161	80	9	497	36	10	12	40	1.78
377762--378052	154	1.9	154	83	2	379	25	16	18	39	1.92
377776--378109	154	2.2	154	79	6	363	25	17	17	39	1.91
378493--378530	16	2.4	16	86	0	58	42	18	10	28	1.83
379911--379949	16	2.2	19	82	17	57	43	0	2	53	1.14
379900--379949	16	2.7	20	73	20	54	46	0	4	50	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
379964--379992	15	1.9	15	100	0	58	58	0	0	41	0.98
381195--381229	2	17.5	2	100	0	70	51	0	48	0	1.00
382177--382457	96	3.0	94	81	10	297	38	15	13	33	1.86
382400--382451	20	2.6	20	88	11	72	42	15	15	26	1.87
382853--382878	13	2.0	13	100	0	52	38	15	15	30	1.88
382835--382897	32	2.0	32	87	6	92	39	15	15	28	1.89
386210--386241	15	2.1	15	94	0	55	46	15	21	15	1.83
388254--388333	20	3.8	20	75	15	79	26	15	15	43	1.85
388319--388357	13	3.0	13	96	0	69	30	17	15	35	1.91
390911--390936	13	2.0	13	100	0	52	38	15	15	30	1.88
390893--390955	32	2.0	32	87	6	92	39	15	15	28	1.89
391716--391755	20	2.0	20	90	0	62	42	12	12	32	1.80
397638--397816	48	3.7	48	78	6	166	33	15	15	35	1.89
401098--401170	20	3.6	20	81	3	101	36	13	17	31	1.89
401115--401191	21	3.7	21	77	6	86	42	11	16	28	1.84
401098--401191	41	2.3	41	94	3	163	39	12	18	29	1.88
401230--401255	13	2.0	13	100	0	52	38	15	15	30	1.88
405317--405347	15	2.1	15	93	0	53	48	16	22	12	1.80
407426--407464	13	3.0	13	96	0	69	30	17	15	35	1.91
409903--409975	20	3.6	20	81	3	101	36	13	17	31	1.89
409920--409996	21	3.7	21	77	6	86	42	11	16	28	1.84
409903--409996	41	2.3	41	94	3	163	39	12	18	29	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
410035--410060	13	2.0	13	100	0	52	38	15	15	30	1.88
411927--411965	21	1.9	20	94	5	69	30	12	20	35	1.90
412644--413110	49	9.8	48	75	8	359	30	17	27	24	1.97
412644--413016	97	3.8	96	85	5	441	31	17	26	24	1.97
413152--413403	28	8.8	28	83	4	245	21	16	28	32	1.95
413180--413403	86	2.6	85	83	3	295	21	16	29	32	1.95
413136--413403	58	4.7	58	83	5	355	23	16	28	30	1.96
414832--414898	12	5.5	11	79	15	53	0	2	17	79	0.86
428675--428699	13	1.9	13	100	0	50	40	0	16	44	1.47
430207--430237	16	1.9	16	100	0	62	25	6	19	48	1.72
430707--430749	20	2.1	21	82	4	52	39	9	16	34	1.80
432698--432728	2	15.5	2	100	0	62	51	0	0	48	1.00
433844--434034	13	11.8	18	68	28	94	35	12	17	34	1.87
433864--434041	13	11.5	13	70	29	104	34	12	17	34	1.89
433845--434041	32	6.2	32	98	0	362	35	12	17	34	1.88
433879--434111	95	2.4	94	84	6	256	36	15	15	33	1.89
434085--434144	13	5.1	12	75	24	65	35	18	13	33	1.89
434067--434144	34	2.3	34	97	0	147	35	19	11	33	1.88
434153--434281	52	2.5	52	89	0	204	35	17	17	29	1.93
438047--438082	3	12.0	3	88	11	56	69	0	0	30	0.89
441004--441053	19	2.6	19	80	3	55	30	14	14	42	1.84
441004--441075	20	3.7	20	74	7	58	33	13	13	38	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
441102--441126	13	1.9	13	100	0	50	32	16	16	36	1.90
441959--441996	3	12.7	3	88	0	58	39	0	31	28	1.57
446305--446379	20	3.8	19	78	7	87	41	12	13	33	1.81
446302--446379	40	2.0	39	89	2	120	41	12	12	33	1.82
447186--447229	19	2.3	19	84	4	52	29	18	11	40	1.85
447180--447251	20	3.7	20	74	7	58	31	16	12	38	1.86
455115--455182	34	2.0	35	88	5	104	45	0	25	29	1.54
455469--455593	62	2.0	62	92	0	205	40	12	20	28	1.87
455976--456027	20	2.6	20	87	6	70	32	15	13	38	1.86
455995--456057	33	1.9	32	87	3	90	26	14	15	42	1.86

Tables:   1   2   3   4   5