genome.fa.s440.2.7.7.80.10.50.1000.4.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: Scaffold440
Parameters: 2 7 7 80 10 50 1000
Length:  783396

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 683 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)
336551--336604	24	2.3	23	84	6	65	42	0	0	57	0.98
336812--336836	2	12.5	2	100	0	50	48	0	0	52	1.00
336986--337071	34	2.9	27	72	22	73	43	0	1	55	1.07
336976--337051	34	2.2	34	85	4	98	48	0	1	50	1.09
336999--337049	16	3.0	17	71	18	52	49	0	1	49	1.12
337020--337068	22	2.2	22	81	3	53	40	0	2	57	1.10
337031--337105	20	3.6	21	81	12	75	33	0	1	65	1.01
338933--338992	27	2.2	27	81	3	66	28	5	15	51	1.63
341519--341564	21	2.1	22	84	4	58	32	17	28	21	1.96
343448--343499	27	1.9	27	96	0	95	25	1	21	51	1.57
343458--343514	24	2.2	25	81	9	62	29	3	21	45	1.68
344217--344258	21	2.0	21	85	4	57	45	4	2	47	1.36
347501--347577	14	5.4	14	70	13	50	54	1	2	41	1.22
347501--347577	35	2.2	36	82	15	90	54	1	2	41	1.22
347966--348012	10	5.1	9	87	10	60	55	2	0	42	1.12
347968--348009	10	4.4	10	88	8	61	61	2	0	35	1.09
347968--348012	9	4.9	9	83	5	54	57	2	0	40	1.11
348014--348073	3	20.3	3	83	10	79	63	0	1	35	1.05
348148--348176	3	9.7	3	100	0	58	65	0	0	34	0.93
348424--348461	15	2.4	16	82	4	51	42	0	0	57	0.98
348438--348497	30	2.0	30	83	6	77	48	0	0	51	1.00
348470--348507	18	2.2	17	90	4	58	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
348779--348825	6	7.8	6	85	0	67	76	0	2	21	0.89
348779--348825	18	2.6	18	89	0	76	76	0	2	21	0.89
349810--349842	2	16.5	2	93	0	57	48	0	3	48	1.17
355195--355222	2	14.0	2	100	0	56	50	0	0	50	1.00
355756--355795	20	2.0	20	85	9	55	57	0	0	42	0.98
355800--355850	23	2.4	21	80	9	59	62	0	0	37	0.95
355808--355847	19	2.2	19	95	4	73	67	0	0	32	0.91
355959--355987	2	14.5	2	100	0	58	51	0	0	48	1.00
356097--356126	2	15.0	2	92	0	51	46	0	3	50	1.18
356404--356436	2	16.5	2	100	0	66	48	0	0	51	1.00
363323--363359	17	2.1	18	90	5	58	67	5	0	27	1.12
363779--363811	14	2.3	15	89	5	50	45	3	6	45	1.43
364335--364383	25	2.0	25	84	8	64	40	0	4	55	1.19
364803--364972	92	1.8	93	86	6	247	48	2	1	47	1.25
364901--364949	20	2.4	20	86	10	64	34	2	0	63	1.06
368975--369042	28	2.5	26	81	13	82	67	1	1	29	1.08
368999--369046	19	2.5	19	80	6	53	66	2	0	31	1.03
369515--369543	2	14.5	2	100	0	58	48	0	0	51	1.00
370698--370769	35	2.1	34	82	12	85	48	0	0	51	1.00
371485--371526	22	1.9	22	90	9	68	61	0	0	38	0.96
372613--372668	21	2.7	21	79	17	64	57	0	0	42	0.99
372633--372720	25	3.5	25	70	16	74	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
372634--372721	37	2.3	39	78	9	101	57	0	0	42	0.98
372792--372826	2	17.5	2	100	0	70	48	0	0	51	1.00
373080--373114	18	1.9	18	88	0	52	60	0	0	40	0.97
373318--373357	20	2.0	20	85	0	53	37	0	0	62	0.95
373592--373652	19	3.7	15	69	26	52	59	0	0	40	0.98
373619--373678	22	2.9	20	88	11	86	53	0	0	46	1.00
373591--373694	23	4.7	21	75	20	88	56	0	0	43	0.99
375225--375289	22	3.0	22	77	8	71	53	1	0	44	1.09
375218--375283	22	2.9	23	73	11	64	56	3	0	40	1.15
376694--377205	195	2.6	192	75	6	494	37	11	12	38	1.80
380476--380525	21	2.3	21	75	3	55	52	0	2	46	1.12
380632--380670	20	2.0	20	85	10	53	74	5	7	12	1.20
380782--380808	3	9.0	3	100	0	54	66	0	0	33	0.92
384870--384916	21	2.3	21	85	3	69	40	0	0	59	0.97
387542--387695	75	2.1	75	82	2	184	34	17	23	24	1.96
393002--393033	15	2.1	15	100	0	64	56	6	0	37	1.25
397691--397754	17	3.7	17	75	4	56	48	1	1	48	1.20
397686--397801	52	2.2	51	79	8	119	50	0	1	46	1.17
398134--398189	23	2.4	25	77	19	68	30	8	1	58	1.39
404897--404924	14	2.0	14	100	0	56	35	0	0	64	0.94
404898--404939	22	1.9	22	90	9	68	35	0	0	64	0.94
407221--407282	29	2.1	30	90	3	99	29	3	1	66	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
410737--410776	20	2.2	17	86	13	53	52	0	7	40	1.30
411711--411781	34	2.1	35	84	12	94	54	0	0	45	0.99
412396--412435	19	2.1	19	86	9	55	57	0	0	42	0.98
413022--413058	3	12.3	3	100	0	74	35	0	0	64	0.94
414376--414423	21	2.3	22	78	10	55	25	4	2	68	1.18
417982--418025	23	1.9	23	85	0	61	50	4	2	43	1.35
418008--418082	24	3.4	22	80	18	84	58	0	1	40	1.06
418064--418107	18	2.6	16	80	13	52	43	0	2	54	1.12
418266--418317	23	2.3	23	87	9	72	57	0	0	42	0.98
418955--418988	4	8.5	4	100	0	68	26	0	0	73	0.83
419310--419367	20	2.9	19	73	14	55	53	0	0	46	1.00
421874--421918	19	2.4	19	85	7	56	53	0	0	46	1.00
422903--422927	6	4.2	6	100	0	50	32	20	16	32	1.94
424115--424156	17	2.5	17	88	3	59	42	0	2	54	1.13
425953--425986	7	4.9	7	88	0	50	50	0	0	50	1.00
427773--427816	23	2.0	23	86	4	63	31	2	2	63	1.19
428805--428855	20	2.4	21	83	6	59	39	1	0	58	1.09
428817--428856	22	1.9	20	90	10	62	40	0	0	60	0.97
428971--429045	13	5.8	13	73	10	55	53	2	0	44	1.14
429232--429270	20	2.1	20	86	13	57	41	0	0	58	0.98
431240--431295	23	2.5	23	83	13	64	39	0	1	58	1.08
431229--431295	23	3.1	22	73	23	61	40	1	1	56	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
431237--431307	23	3.2	22	76	19	60	40	1	1	56	1.17
431850--431893	19	2.3	19	80	4	52	38	2	0	59	1.10
431865--431897	15	2.3	15	90	10	52	42	0	0	57	0.98
440066--440102	18	2.1	18	94	0	65	54	13	21	10	1.69
441233--441270	7	5.3	7	82	17	51	39	0	0	60	0.97
441344--441379	17	2.0	18	89	10	56	44	0	5	50	1.25
442852--442919	24	2.8	24	90	4	100	58	11	8	20	1.59
443523--443597	21	3.7	21	76	15	86	36	0	1	62	1.04
443484--443583	44	2.2	43	79	15	105	41	0	1	58	1.05
443513--443594	39	2.0	43	86	11	118	35	0	1	63	1.02
443708--443775	19	3.2	20	80	12	66	35	0	0	64	0.94
443717--443805	28	3.1	29	73	14	87	32	0	1	66	0.99
443715--443805	6	15.0	6	71	21	57	32	0	1	65	1.00
443717--443793	7	11.0	7	73	19	54	32	0	1	66	1.00
444093--444126	3	11.3	3	100	0	68	32	0	0	67	0.91
447701--447779	18	4.6	18	73	17	69	32	29	5	32	1.79
472241--472266	13	2.0	13	100	0	52	38	7	30	23	1.83
478942--478977	9	4.1	9	89	7	56	11	8	0	80	0.90
479926--479972	16	2.8	17	78	9	51	34	2	10	53	1.48
480295--480327	2	16.5	2	100	0	66	51	0	0	48	1.00
480709--480757	20	2.4	20	86	10	64	57	0	0	42	0.99
480728--480764	15	2.4	16	82	17	51	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
480718--480850	63	2.1	63	81	12	148	51	0	0	48	1.00
481467--481565	38	2.6	37	85	6	119	36	12	20	31	1.89
482614--482762	69	2.2	69	100	0	298	28	19	12	38	1.89
483671--483713	21	2.0	22	86	13	63	48	0	0	51	1.00
484620--484659	21	1.9	21	90	10	64	60	0	0	40	0.97
485889--485923	13	2.7	13	95	0	61	60	0	0	40	0.97
486098--486141	23	1.9	23	95	0	79	45	0	0	54	0.99
487580--487647	23	3.0	21	78	8	64	63	2	0	33	1.10
487618--487663	16	2.6	17	83	13	58	63	2	2	32	1.19
490640--490679	21	1.9	21	84	0	53	35	0	5	60	1.19

Tables:   1   2   3   4   5   6