genome.fa.s30.2.7.7.80.10.50.1000.3.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: Scaffold30
Parameters: 2 7 7 80 10 50 1000
Length:  2650045

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  3  of  17  ( 1999 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)
304695--304858	32	5.0	32	87	6	197	29	14	14	40	1.86
304757--304859	51	2.0	53	88	9	158	29	14	16	39	1.88
306499--306534	9	4.0	9	88	0	54	44	0	25	30	1.54
313777--314106	79	4.2	79	84	5	413	32	14	26	26	1.95
313927--313986	28	2.2	26	77	16	68	35	15	25	25	1.94
314042--314221	51	3.5	51	83	2	211	34	12	25	27	1.92
314414--314449	16	2.2	16	100	0	72	33	11	33	22	1.89
316523--316578	20	2.8	20	86	5	69	42	14	16	26	1.86
317159--317256	41	2.4	40	85	8	126	43	10	28	17	1.81
317344--318068	88	8.3	88	81	6	821	36	12	30	20	1.90
317305--318068	264	2.9	262	93	2	1271	37	12	29	20	1.90
318044--319051	60	16.4	60	82	6	1155	28	19	27	24	1.99
318044--319051	123	8.2	121	83	5	1188	28	19	27	24	1.99
319351--319375	13	1.9	13	100	0	50	36	16	16	32	1.90
319331--319397	33	2.0	33	88	0	98	32	11	14	40	1.83
319438--319475	13	2.9	13	100	0	76	31	15	15	36	1.90
319484--319612	52	2.5	52	93	0	222	34	17	17	29	1.94
323736--323762	10	2.7	10	100	0	54	0	0	22	77	0.76
334159--334581	155	2.7	157	79	5	468	25	16	17	40	1.90
337890--338240	166	2.1	167	85	3	467	32	10	13	42	1.79
340466--340518	20	2.8	18	83	13	70	35	18	16	28	1.93
340466--340521	19	2.9	19	87	10	78	35	17	17	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
340506--340531	13	2.0	13	100	0	52	38	15	15	30	1.88
341084--341141	31	1.9	31	92	3	100	36	22	6	34	1.81
342548--342597	19	2.6	19	100	0	100	32	12	20	36	1.89
342586--342623	13	2.9	13	92	0	67	36	18	15	28	1.92
343636--343660	13	1.9	13	100	0	50	36	16	16	32	1.90
343724--343748	13	1.9	13	100	0	50	32	16	16	36	1.90
343757--343880	52	2.4	51	90	2	203	35	17	17	29	1.93
350042--350091	21	2.4	21	83	9	59	48	0	20	32	1.50
350049--350091	21	2.0	22	86	4	61	51	0	20	27	1.48
356425--356480	19	2.9	19	89	2	76	35	19	16	28	1.93
356446--356509	32	2.0	32	87	0	92	40	17	15	26	1.89
359100--359147	21	2.3	21	86	10	64	45	0	18	35	1.50
369411--369441	3	10.3	3	100	0	62	32	0	35	32	1.58
373887--373930	19	2.2	20	80	8	54	40	13	11	34	1.81
375714--375751	18	2.1	18	100	0	76	0	26	15	57	1.38
376266--376499	111	2.1	111	100	0	468	37	15	16	30	1.90
376551--376603	19	2.7	20	85	8	72	39	18	13	28	1.88
382151--382189	13	3.0	13	92	0	60	33	17	12	35	1.88
384606--384661	20	2.8	19	89	5	76	39	14	16	30	1.88
384731--384756	13	2.0	13	100	0	52	38	15	15	30	1.88
384713--384777	32	2.0	32	87	6	94	40	18	13	27	1.89
386016--386056	22	1.9	22	90	5	66	26	19	17	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
399354--399446	20	4.7	19	78	15	73	38	16	15	30	1.89
399375--399448	20	3.8	18	78	15	76	41	14	13	29	1.85
399924--400068	79	1.9	79	89	5	233	33	17	6	42	1.74
400397--400459	33	1.9	33	83	0	81	28	17	28	25	1.97
402069--402103	17	2.1	17	100	0	70	37	17	11	34	1.85
408058--408095	20	2.0	20	89	5	60	36	13	10	39	1.79
408130--408183	20	2.7	19	86	11	65	37	18	12	31	1.89
408212--408267	19	2.9	19	86	2	67	37	16	14	32	1.88
408252--408278	13	2.1	13	100	0	54	40	14	14	29	1.86
409588--409636	23	2.2	22	81	3	53	36	16	2	44	1.59
410125--410327	89	2.3	90	84	10	258	31	22	9	36	1.86
422412--422436	13	1.9	13	100	0	50	36	16	16	32	1.90
422499--422523	13	1.9	13	100	0	50	32	16	16	36	1.90
423815--423865	5	10.8	5	85	10	72	88	11	0	0	0.52
423813--423884	10	7.4	10	84	7	87	86	9	4	0	0.70
423807--423884	19	4.1	18	87	9	95	84	11	3	0	0.74
423813--423867	1	55.0	1	77	0	56	89	10	0	0	0.50
423807--423884	9	8.2	9	83	14	95	84	11	3	0	0.74
425072--425371	31	9.9	31	78	11	202	20	36	16	26	1.94
425232--425376	27	5.2	27	83	6	173	20	37	15	26	1.92
425344--425438	33	2.8	32	77	15	93	20	30	15	33	1.94
425442--425549	33	3.4	31	87	8	164	30	35	15	18	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
425423--425549	65	2.0	62	88	10	186	29	34	16	19	1.94
425423--425542	32	3.7	33	86	7	167	28	34	16	20	1.95
425542--426434	49	18.7	49	84	7	1155	25	25	17	31	1.97
425824--426498	92	7.1	92	82	11	750	25	25	17	31	1.97
426344--426481	52	2.6	52	84	3	177	24	24	15	34	1.95
426447--426573	67	1.9	68	88	1	193	23	24	12	39	1.89
427385--427409	13	1.9	13	100	0	50	36	16	16	32	1.90
427473--427497	13	1.9	13	100	0	50	32	16	16	36	1.90
436044--436080	13	2.8	13	88	12	58	86	0	2	10	0.67
436045--436079	12	2.8	12	95	4	61	85	0	2	11	0.69
436044--436086	12	3.4	12	83	6	50	86	0	4	9	0.71
437670--438572	42	21.4	42	75	6	603	18	29	18	33	1.95
437816--438573	168	4.5	168	80	6	734	18	30	17	33	1.94
437995--438557	211	2.7	209	82	3	630	18	30	17	33	1.94
450222--450297	12	6.9	11	75	15	52	39	2	48	9	1.49
450221--450306	24	3.8	24	72	17	85	41	2	45	10	1.51
450212--450327	42	2.8	42	91	0	187	43	2	45	8	1.48
456036--456095	12	5.0	12	74	20	54	78	0	16	5	0.92
456029--456082	17	3.2	17	84	5	65	75	0	20	3	0.95
456031--456099	24	2.9	25	72	25	69	76	0	15	7	0.99
456462--456682	49	4.5	49	75	6	191	33	12	14	40	1.83
458053--458109	13	4.0	13	73	20	51	35	14	17	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
458036--458108	31	2.3	32	92	4	130	34	13	17	34	1.90
458147--458174	13	2.2	13	100	0	56	28	14	17	39	1.89
458127--458192	33	2.0	33	88	5	98	30	15	13	40	1.85
464312--464364	17	3.3	17	80	17	60	66	0	0	33	0.92
464784--464824	9	4.6	9	82	11	57	48	0	0	51	1.00
464792--464877	33	2.5	33	79	7	102	46	0	0	53	1.00
464831--464973	5	29.4	5	71	18	90	35	0	0	64	0.94
464793--464975	17	11.4	17	70	20	60	38	0	0	61	0.96
464845--464975	38	3.5	37	83	10	160	34	0	0	65	0.93
466784--466840	15	3.7	15	79	4	60	64	0	0	35	0.93
466784--466848	31	2.1	31	85	2	87	64	0	0	35	0.94
466810--466870	23	2.8	22	80	11	72	57	1	0	40	1.08
472180--472254	27	2.8	27	78	7	82	34	12	28	25	1.91
474583--474722	52	2.7	52	84	2	183	42	13	12	30	1.82
474774--474825	20	2.5	20	84	9	61	30	13	13	42	1.83
475468--476302	52	16.1	52	79	3	714	36	14	22	26	1.92
476354--476500	64	2.3	63	80	12	158	25	14	30	29	1.95
476428--476665	29	8.1	29	76	10	175	29	11	31	26	1.92
477080--477171	32	2.8	33	71	3	87	29	13	23	33	1.92
479797--479835	20	2.1	19	85	9	53	56	10	10	23	1.63
480701--480826	20	5.8	20	70	18	99	42	11	15	30	1.83
481517--482357	28	29.1	28	81	5	733	22	17	29	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
481535--482600	56	18.6	57	79	9	761	24	16	30	28	1.97
482069--482328	32	8.4	32	86	5	351	20	18	30	31	1.96
481535--482597	28	37.2	28	78	8	672	24	16	30	28	1.97
482364--482600	27	8.7	27	81	7	282	30	14	31	23	1.94
482276--482754	55	8.9	55	77	11	377	28	14	30	26	1.95
482373--482754	82	4.8	81	78	13	416	30	13	31	25	1.93
482558--482643	43	2.0	43	95	0	154	26	12	33	26	1.93
482604--482754	27	5.5	27	85	3	203	29	11	31	27	1.92
482535--482753	71	2.9	71	80	10	224	29	12	31	26	1.93
482506--482698	98	2.0	98	88	2	289	29	12	31	26	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17