genome.fa.s116.2.7.7.80.10.50.1000.2.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: Scaffold116
Parameters: 2 7 7 80 10 50 1000
Length:  1263769

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 557 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)
302470--302501	16	1.9	17	93	6	57	62	6	0	31	1.20
302634--302702	29	2.3	30	80	7	79	49	2	2	44	1.32
303123--303156	2	17.0	2	100	0	68	50	0	0	50	1.00
305482--305656	87	2.0	87	87	2	253	29	24	16	30	1.96
313240--313296	23	2.5	21	76	18	51	63	1	5	29	1.27
316484--316522	20	2.0	20	90	10	62	41	0	7	51	1.31
323134--323206	28	2.7	25	79	12	74	52	1	0	46	1.09
326430--326472	17	2.5	17	80	3	50	67	0	0	32	0.91
330315--330355	20	2.0	20	100	0	82	60	4	19	14	1.51
331940--331986	13	3.7	13	81	13	53	57	0	0	42	0.98
336965--336995	6	5.2	6	92	0	53	32	29	19	19	1.96
337461--337486	3	8.7	3	100	0	52	30	0	0	69	0.89
340370--340401	2	16.0	2	93	0	55	46	0	50	3	1.17
341399--341446	25	1.9	25	87	8	71	50	0	0	50	1.00
341781--341881	51	2.0	51	86	3	141	50	1	0	47	1.12
341823--341944	61	2.0	61	84	6	158	52	2	0	45	1.14
341850--341944	31	3.1	30	75	20	97	53	3	0	43	1.16
341818--341904	6	15.0	6	73	17	51	52	1	0	45	1.08
342065--342145	22	3.6	22	77	9	74	58	2	4	34	1.33
343305--343350	21	2.1	22	84	4	58	56	0	2	41	1.11
343915--343957	23	1.9	23	90	4	70	34	0	0	65	0.93
345152--345180	2	14.5	2	100	0	58	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)
346382--346411	2	15.0	2	100	0	60	50	0	0	50	1.00
346844--346870	2	13.5	2	100	0	54	51	0	0	48	1.00
349626--349655	2	15.0	2	100	0	60	0	50	0	50	1.00
352384--352425	2	21.0	2	100	0	84	50	0	0	50	1.00
356512--356597	35	2.4	36	73	9	86	40	0	4	54	1.21
356583--356662	29	2.8	29	75	11	83	42	0	0	57	0.98
356558--356631	14	5.5	14	73	12	66	40	0	0	59	0.97
356567--356653	21	4.2	20	72	17	72	41	0	0	58	0.98
356603--356667	33	2.0	31	82	14	78	44	0	0	55	0.99
356605--356670	21	2.9	22	78	17	57	42	0	0	57	0.98
356763--356814	26	2.0	26	85	10	72	53	0	0	46	1.00
356781--356823	14	2.9	14	79	6	50	58	0	0	41	0.98
357284--357315	2	16.0	2	100	0	64	0	50	0	50	1.00
365155--365183	12	2.4	12	100	0	58	41	0	58	0	0.98
366661--366725	33	2.0	33	84	6	87	56	6	3	33	1.39
367321--367389	28	2.5	27	81	11	77	43	1	2	52	1.25
367322--367389	14	4.9	13	76	16	57	44	1	1	52	1.19
371252--371284	13	2.5	13	95	0	57	60	0	9	30	1.27
372373--372407	13	2.8	12	87	8	52	85	0	11	2	0.69
377834--377904	27	2.6	27	82	6	81	25	5	22	46	1.73
377999--378039	20	2.0	20	95	0	73	12	46	2	39	1.54
382198--382224	12	2.2	12	100	0	54	77	0	0	22	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
385230--385317	43	2.0	43	97	0	167	29	21	13	35	1.92
390063--390098	17	2.1	17	100	0	72	5	16	30	47	1.70
394043--394105	29	2.2	29	91	0	99	49	1	0	49	1.10
394605--394652	21	2.2	21	85	3	60	41	2	2	54	1.24
394223--394742	174	3.0	174	77	11	501	40	7	5	47	1.53
394893--394952	30	2.1	28	81	6	66	46	0	8	45	1.33
395283--395344	29	2.1	29	90	0	97	46	1	3	48	1.28
397437--397493	24	2.3	25	82	14	73	43	0	1	54	1.10
398371--398415	2	22.5	2	95	0	81	0	46	0	53	1.00
399785--399815	13	2.4	13	94	0	53	54	6	3	35	1.42
404488--404520	2	16.5	2	100	0	66	0	0	48	51	1.00
404830--404860	2	15.5	2	100	0	62	48	0	0	51	1.00
418705--418954	50	5.0	50	81	4	247	30	16	17	35	1.93
418705--418932	100	2.3	99	85	2	287	31	17	16	35	1.92
421720--421880	50	3.2	50	90	0	241	31	17	18	32	1.94
426667--426704	20	1.9	20	88	0	58	78	0	10	10	0.95
428038--428076	2	19.5	2	94	0	69	51	0	0	48	1.00
429665--429712	20	2.4	20	96	0	87	37	8	20	33	1.83
433396--433420	2	12.5	2	100	0	50	52	0	0	48	1.00
433444--433483	3	13.3	3	100	0	80	67	0	0	32	0.91
448438--448479	21	2.0	21	90	0	66	21	40	21	16	1.91
448706--448846	69	2.0	69	91	0	228	37	17	11	34	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
452028--452058	4	7.8	4	92	0	53	22	3	0	74	0.96
456612--456827	106	2.0	106	96	0	396	37	14	19	29	1.91
459282--459312	5	6.2	5	100	0	62	61	19	0	19	1.35
460016--460058	18	2.4	18	84	7	52	27	0	0	72	0.85
460518--460550	10	3.4	10	87	8	50	42	0	0	57	0.98
461500--461538	12	3.1	12	85	10	51	48	0	0	51	1.00
465499--465543	21	2.1	22	83	4	56	35	0	4	60	1.17
473534--473560	2	13.5	2	100	0	54	0	48	0	51	1.00
475672--475732	30	2.0	30	100	0	122	26	22	13	37	1.91
482114--482188	32	2.2	33	86	13	109	44	0	0	56	0.99
482113--482205	27	3.0	32	72	26	92	45	0	0	54	0.99
482929--482960	2	16.0	2	100	0	64	50	0	0	50	1.00
483250--483325	12	6.6	11	78	13	64	35	2	0	61	1.10
488760--488818	20	3.0	20	87	0	82	38	0	10	50	1.36
488760--488822	2	31.5	2	83	0	72	39	0	9	50	1.35
490987--491011	13	1.9	13	100	0	50	64	0	0	36	0.94
490999--491064	33	2.0	32	82	11	80	59	3	1	36	1.22
491814--491884	15	4.7	15	76	20	69	52	0	0	47	1.00
492419--492456	13	2.9	13	77	14	51	68	0	0	31	0.90
492471--492519	25	1.9	25	87	4	71	53	0	0	46	1.00
492482--492548	34	2.0	33	83	13	84	55	0	0	44	0.99
492890--492924	17	2.2	16	90	10	54	71	0	5	22	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
494558--494592	3	11.7	3	93	0	61	28	0	0	71	0.86
495280--495319	2	21.5	2	80	14	50	42	0	0	57	0.98
496889--496923	18	1.9	18	88	0	52	45	25	17	11	1.81
510344--510418	36	2.1	37	89	2	116	38	0	0	61	0.96
510346--510395	20	2.4	22	76	10	59	36	0	0	64	0.94
515169--515280	56	2.0	56	96	0	206	35	17	18	27	1.94
516545--516606	20	3.1	20	88	6	90	33	1	0	64	1.03
516776--516805	12	2.6	11	90	10	51	0	33	0	66	0.92
518575--518630	21	2.8	21	75	24	66	58	0	0	41	0.98
518575--518629	18	2.9	18	81	8	56	60	0	0	40	0.97
520515--520632	58	2.0	58	98	0	227	27	16	7	47	1.74
521573--521623	23	2.2	24	92	3	86	23	15	3	56	1.56
525586--525635	19	2.6	19	78	12	57	40	0	2	58	1.10
527766--527800	2	17.5	2	100	0	70	48	0	0	51	1.00
528709--528733	3	8.3	3	100	0	50	68	0	32	0	0.90
529840--529883	21	2.1	22	79	12	56	47	0	4	47	1.22
532525--532568	2	22.0	2	95	0	79	47	2	0	50	1.13
534032--534080	19	2.5	20	80	6	55	59	0	0	40	0.98
534020--534086	28	2.4	28	85	5	82	59	1	0	38	1.06
535179--535212	2	17.0	2	87	0	50	55	0	0	44	0.99
535200--535233	4	8.2	4	87	6	50	73	2	0	23	0.97
535190--535225	17	2.1	18	89	5	56	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
540591--540646	18	2.8	20	86	13	89	46	0	3	50	1.19
540591--540653	19	3.3	19	75	20	60	47	0	3	49	1.17
545871--545910	2	20.0	2	100	0	80	50	0	0	50	1.00
546248--546300	22	2.5	22	84	9	74	45	1	0	52	1.11
554418--554625	104	2.0	104	82	3	249	41	11	12	35	1.78
554643--554670	14	2.0	14	100	0	56	42	0	0	57	0.99
555059--555107	17	2.9	16	81	9	53	46	4	0	48	1.20
555390--555458	34	2.0	34	97	0	129	23	24	27	24	2.00
559492--559544	2	26.5	2	100	0	106	49	0	0	50	1.00
560318--560351	12	2.8	12	90	0	59	41	0	8	50	1.34

Tables:   1   2   3   4   5