genome.fa.s96.2.7.7.80.10.50.1000.3.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: Scaffold96
Parameters: 2 7 7 80 10 50 1000
Length:  1013983

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 903 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)
286351--286569	33	6.8	32	79	9	187	36	14	29	20	1.91
286325--286569	63	3.9	64	82	7	229	36	14	28	20	1.92
286414--286607	97	2.0	95	87	5	275	35	13	29	21	1.92
286481--286604	33	4.0	29	79	11	81	33	15	29	22	1.95
287795--287849	7	7.9	7	76	15	60	0	1	14	83	0.73
287795--287851	13	4.1	14	82	10	73	0	1	14	84	0.71
295948--296001	20	2.7	20	82	2	63	38	7	16	37	1.77
296058--296194	52	2.7	51	82	7	163	29	16	11	42	1.84
299618--299700	42	2.0	42	82	0	103	34	10	14	39	1.81
301073--301123	25	2.1	23	82	13	59	45	1	1	50	1.24
302127--302165	14	2.6	15	88	8	53	38	2	2	56	1.27
304112--304413	149	2.0	147	81	5	349	23	15	18	42	1.89
308780--308988	112	1.9	113	81	3	260	32	14	13	39	1.85
309518--309735	89	2.5	89	83	0	285	26	21	11	40	1.88
310278--310696	92	4.6	92	85	1	518	28	26	14	30	1.95
311143--311313	40	4.3	40	72	4	139	18	18	15	47	1.82
311147--311323	80	2.2	80	84	0	228	18	18	15	47	1.83
311148--311440	120	2.4	120	80	4	297	19	19	13	47	1.83
311316--311775	81	5.7	79	76	10	380	20	23	12	43	1.86
311290--311802	40	12.8	40	69	14	216	20	22	13	44	1.85
311489--311833	41	8.6	41	71	12	142	18	23	13	44	1.85
311858--312246	42	9.2	42	71	12	251	19	21	11	47	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
311825--312317	85	5.8	85	83	4	548	20	21	11	46	1.82
311825--312300	170	2.8	170	87	2	645	19	21	11	47	1.81
313062--313116	20	2.8	20	88	5	76	40	14	14	30	1.86
313188--313213	13	2.0	13	100	0	52	38	15	15	30	1.88
313169--313233	33	2.0	33	87	6	96	41	16	13	27	1.87
319383--319436	20	2.7	20	100	0	108	22	14	11	51	1.73
319422--319460	13	3.0	13	96	0	69	30	17	15	35	1.91
321882--321936	20	2.8	20	88	5	76	40	14	14	30	1.86
322008--322033	13	2.0	13	100	0	52	38	15	15	30	1.88
323407--323544	51	2.7	51	89	1	206	29	12	13	44	1.79
323522--323564	20	2.2	20	95	0	77	30	11	9	48	1.71
327002--327623	166	3.7	166	75	6	541	31	10	8	48	1.69
327002--327625	332	1.9	331	81	6	753	31	11	8	48	1.69
337235--337265	9	3.4	9	90	0	53	22	32	0	45	1.53
338847--338899	20	2.7	20	91	5	81	32	20	13	33	1.91
338927--338978	20	2.7	19	85	8	70	32	15	19	32	1.93
339095--339135	22	2.0	21	85	9	57	43	9	9	36	1.71
340200--340229	13	2.2	14	94	5	53	50	3	0	46	1.18
344324--344402	40	2.0	39	85	4	106	45	3	5	45	1.43
344968--345016	24	2.0	25	84	4	64	32	26	6	34	1.81
346084--346137	24	2.2	24	96	0	99	35	31	16	16	1.92
350595--350683	24	3.5	25	70	11	74	57	0	1	41	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
350633--350672	20	2.0	20	90	0	62	57	0	2	40	1.12
352030--352062	6	5.3	6	96	3	57	45	0	0	54	0.99
352118--352161	22	2.0	21	87	12	63	40	0	0	59	0.98
356909--356947	11	3.5	11	85	3	51	0	17	2	79	0.84
360601--360665	33	2.0	33	90	6	105	38	15	12	33	1.85
360697--360756	20	3.0	20	87	7	95	35	18	13	33	1.89
360696--360752	19	2.9	19	92	5	96	35	17	14	33	1.90
360737--360763	13	2.1	13	100	0	54	40	14	14	29	1.86
360718--360782	32	2.0	33	87	3	96	41	15	13	29	1.86
363141--363179	13	3.0	13	92	0	69	35	17	15	30	1.91
363240--363291	21	2.4	22	90	6	88	34	11	26	26	1.91
363323--363459	53	2.6	53	94	1	238	27	17	17	37	1.92
363447--363499	20	2.7	19	82	11	63	32	11	15	41	1.82
363539--363579	21	2.0	21	85	9	57	39	7	12	41	1.70
364182--364250	16	4.3	17	75	10	56	60	8	2	27	1.40
364500--364537	16	2.3	17	86	13	53	52	0	7	39	1.31
364741--364776	2	18.0	2	100	0	72	0	50	0	50	1.00
368583--368656	30	2.5	30	89	4	107	29	9	9	51	1.66
378201--378226	13	2.0	13	100	0	52	30	15	15	38	1.88
378210--378264	19	2.8	19	84	10	76	36	16	14	32	1.89
378295--378343	13	4.2	13	71	28	56	30	12	18	38	1.87
382269--382309	18	2.3	18	91	0	64	31	7	21	39	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
382267--382302	18	2.0	18	100	0	72	33	5	22	38	1.77
385661--385701	21	2.0	21	85	9	57	41	12	7	39	1.70
385782--385916	53	2.5	53	96	1	243	37	18	17	26	1.92
385948--385999	21	2.4	22	90	6	88	26	26	11	34	1.91
386074--386112	13	3.0	13	92	0	69	30	15	17	35	1.91
386581--386647	37	1.9	35	85	11	93	32	10	25	31	1.89
388489--388515	13	2.1	13	100	0	54	29	14	14	40	1.86
388499--388556	19	3.1	18	88	11	89	34	15	17	32	1.91
388470--388534	32	2.0	33	87	3	96	29	13	15	41	1.86
388500--388555	20	2.8	20	92	7	89	32	16	17	33	1.92
391461--391527	37	1.9	35	88	11	102	32	11	25	29	1.92
394932--395115	52	3.5	52	96	0	332	30	16	20	33	1.94
395188--395254	33	2.0	33	88	0	98	40	13	11	34	1.81
395210--395234	13	1.9	13	100	0	50	32	16	16	36	1.90
395974--396006	14	2.4	14	95	5	59	21	0	9	69	1.15
398669--398702	17	2.0	17	88	0	50	29	0	0	70	0.87
402183--402524	170	2.0	170	95	0	612	38	8	11	41	1.72
402872--402936	19	2.9	24	79	16	70	47	1	0	50	1.10
407559--407679	52	2.3	52	97	0	224	28	18	18	34	1.94
407559--407699	52	2.7	51	90	4	212	30	17	18	33	1.94
407688--407712	13	1.9	13	100	0	50	36	16	16	32	1.90
407777--407801	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)
407755--407821	33	2.0	33	88	0	98	40	13	11	34	1.81
408697--410081	49	28.7	49	84	7	1818	30	17	26	24	1.97
409260--410081	198	4.2	198	92	4	1315	31	17	26	24	1.97
408688--410081	241	5.8	239	86	5	1870	30	17	26	24	1.97
410081--410153	33	2.2	33	92	2	130	20	16	35	27	1.94
410155--410931	33	23.1	34	81	11	799	33	12	33	20	1.90
410155--410924	137	5.7	134	83	10	814	33	12	34	20	1.90
410529--410926	98	4.1	95	87	6	505	31	13	34	20	1.91
410765--410883	61	1.9	63	89	5	188	29	14	36	20	1.92
410727--410988	131	2.0	135	82	7	322	33	14	30	20	1.93
412276--412350	39	1.9	39	86	5	107	2	2	8	86	0.75
412276--412338	1	63.0	1	80	0	72	0	0	9	90	0.45
419205--419325	52	2.3	52	97	0	224	28	18	18	34	1.94
419205--419345	52	2.7	51	90	4	212	30	17	18	33	1.94
419334--419358	13	1.9	13	100	0	50	36	16	16	32	1.90
419423--419447	13	1.9	13	100	0	50	32	16	16	36	1.90
419401--419467	33	2.0	33	88	0	98	40	13	11	34	1.81
420343--421727	49	28.7	49	84	7	1818	30	17	26	24	1.97
420906--421727	198	4.2	198	92	4	1315	31	17	26	24	1.97
420334--421727	241	5.8	239	86	5	1870	30	17	26	24	1.97
421727--421799	33	2.2	33	92	2	130	20	16	35	27	1.94
421801--422577	33	23.1	34	81	11	799	33	12	33	20	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
421801--422570	137	5.7	134	83	10	814	33	12	34	20	1.90
422175--422572	98	4.1	95	87	6	505	31	13	34	20	1.91
422411--422529	61	1.9	63	89	5	188	29	14	36	20	1.92
422373--422634	131	2.0	135	82	7	322	33	14	30	20	1.93
423925--423987	14	4.8	13	86	9	92	0	0	9	90	0.45
423924--423987	27	2.3	26	84	10	83	0	0	9	90	0.45
423924--424000	40	1.9	40	86	5	111	2	2	7	87	0.74
423924--423987	1	64.0	1	80	0	74	0	0	9	90	0.45
426204--426751	154	3.5	153	76	8	446	25	12	20	40	1.88
429656--429707	22	2.3	22	80	3	59	55	5	11	26	1.58

Tables:   1   2   3   4   5   6   7   8