genome.fa.s405.2.7.7.80.10.50.1000.3.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: Scaffold405
Parameters: 2 7 7 80 10 50 1000
Length:  752937

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 486 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)
349622--349684	11	5.8	11	75	15	60	49	1	0	49	1.10
354411--354456	13	3.7	13	88	8	51	23	0	2	73	0.94
354415--354453	18	2.2	18	86	9	53	20	0	2	76	0.90
355273--355301	11	2.5	12	94	5	51	68	13	10	6	1.37
355501--355539	17	2.4	16	83	8	51	0	20	0	79	0.73
356139--356457	165	1.9	164	80	1	361	48	9	10	31	1.70
357413--357703	84	3.5	83	78	6	279	45	15	22	16	1.85
357576--357696	42	2.9	43	71	14	126	43	13	25	17	1.85
358113--358729	132	4.7	132	82	3	647	38	14	24	21	1.91
357936--358704	44	17.5	44	68	10	304	39	15	24	21	1.91
358742--358846	54	1.9	54	96	0	192	42	10	26	20	1.84
358852--358968	35	3.3	35	80	7	130	42	11	18	26	1.85
358812--358972	70	2.4	67	79	13	161	41	11	19	27	1.86
359683--359865	75	2.4	75	81	8	203	45	13	15	25	1.82
360506--360771	88	3.0	87	74	9	234	45	14	16	22	1.84
362062--362105	21	2.2	20	83	4	52	0	11	4	84	0.77
362075--362117	10	4.4	10	82	11	54	0	4	6	88	0.63
362068--362116	11	4.5	11	89	5	64	0	8	4	87	0.65
362062--362115	28	1.9	28	84	0	72	0	11	3	85	0.73
362079--362116	18	2.2	17	90	4	58	0	5	2	92	0.47
362068--362116	21	2.3	21	85	3	62	0	8	4	87	0.65
372014--372067	26	2.1	25	86	3	72	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
377034--377086	14	3.7	14	76	14	63	81	3	13	1	0.92
377034--377096	26	2.3	28	81	10	69	77	3	17	1	0.97
378046--378329	32	8.9	32	87	7	278	21	31	14	31	1.94
378043--378357	64	5.0	63	82	8	306	21	31	14	31	1.94
378046--378421	93	3.9	95	80	8	311	21	31	14	32	1.93
378325--378421	34	2.8	35	82	6	117	18	31	13	36	1.90
378046--378421	32	11.8	32	82	9	265	21	31	14	32	1.93
378179--378467	97	3.0	97	81	9	321	20	34	13	31	1.91
378461--378556	33	2.9	34	85	6	142	28	35	18	17	1.94
378556--379253	49	14.7	49	83	7	847	25	25	18	30	1.98
378551--379262	140	5.0	141	83	8	885	25	26	17	31	1.97
378889--379209	43	7.1	43	83	10	365	25	25	18	31	1.97
379163--379316	52	2.9	53	81	4	193	25	24	14	35	1.94
379266--379392	67	1.9	68	86	1	184	25	25	11	37	1.90
380203--380227	13	1.9	13	100	0	50	36	16	16	32	1.90
380183--380249	33	2.0	33	85	0	89	34	11	13	40	1.81
380290--380317	13	2.2	13	100	0	56	28	14	17	39	1.89
380323--380452	51	2.5	51	91	1	206	33	19	16	30	1.93
388813--388865	19	2.7	20	82	2	63	37	16	13	32	1.88
392343--392370	3	9.3	3	100	0	56	32	0	0	67	0.91
393408--393455	8	5.6	8	78	11	51	0	29	0	70	0.87
397057--397099	20	2.2	20	100	0	86	32	9	25	32	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
401456--401536	39	2.0	40	83	6	103	33	24	6	35	1.81
402700--402742	20	2.1	20	82	4	50	9	27	44	18	1.80
403183--403221	13	3.0	13	88	0	60	35	12	15	35	1.86
409398--409423	13	2.0	13	100	0	52	30	15	15	38	1.88
409378--409441	32	2.0	33	90	9	105	29	15	15	39	1.89
416649--417101	151	3.0	149	77	10	364	41	17	13	27	1.87
416786--417106	154	2.1	151	79	9	357	42	17	13	25	1.86
417715--417784	21	3.3	21	87	0	104	35	8	21	34	1.84
417596--417859	134	2.0	135	80	5	302	37	15	15	32	1.89
425301--425420	38	3.2	38	93	0	204	29	10	15	45	1.79
429392--429624	79	2.9	78	75	9	211	33	12	26	27	1.92
429472--429671	79	2.5	78	81	2	211	31	14	28	26	1.94
429316--429624	159	1.9	160	81	3	374	34	11	26	27	1.91
429383--429668	158	1.8	159	79	2	342	32	12	27	27	1.93
429383--429714	80	4.2	79	76	3	229	34	11	26	28	1.91
432133--432191	21	2.8	22	87	7	79	33	15	13	37	1.86
432138--432191	20	2.7	20	88	8	74	33	14	12	38	1.85
433046--433088	18	2.3	19	80	4	52	39	9	2	48	1.48
435520--435651	58	2.3	58	77	6	142	24	15	18	41	1.89
435780--435992	78	2.7	78	75	7	184	32	14	19	34	1.91
437253--437387	50	2.7	50	89	0	189	25	17	13	43	1.85
439568--439685	51	2.3	51	88	2	166	33	23	9	33	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
439652--440211	79	7.1	78	79	6	468	28	23	12	35	1.92
439940--439996	28	1.9	29	89	10	89	26	28	12	33	1.92
439654--440211	236	2.4	235	78	9	566	28	24	12	35	1.91
441767--441817	20	2.5	20	87	3	66	43	5	19	31	1.75
441782--441819	20	1.9	20	100	0	76	39	10	21	28	1.86
441876--442014	51	2.7	51	84	1	161	32	13	12	41	1.82
447325--447387	19	3.6	19	76	24	84	36	15	19	28	1.92
447343--447400	13	4.0	13	76	23	62	37	15	17	29	1.90
447325--447400	32	2.4	32	100	0	152	36	15	18	28	1.92
449617--449661	21	2.1	21	84	8	56	53	4	20	22	1.63
451465--451495	15	2.1	15	93	0	53	48	16	22	12	1.80
453571--453609	13	3.0	13	100	0	78	30	15	15	38	1.88
453730--453775	21	2.2	20	81	11	58	32	19	4	43	1.71
455410--455471	30	2.1	30	100	0	124	37	3	25	33	1.72
456195--456220	13	2.0	13	100	0	52	38	15	15	30	1.88
457278--457333	24	2.3	24	87	9	87	55	10	23	10	1.65
462444--462513	28	2.5	28	90	0	104	30	22	25	21	1.99
462389--462591	106	1.9	107	85	1	282	33	17	24	24	1.96
462471--462877	79	5.3	77	76	10	350	34	14	24	26	1.94
462534--462669	68	2.0	68	84	5	177	40	13	20	25	1.89
462472--462878	147	2.7	150	79	7	405	34	14	24	26	1.94
465841--465877	13	2.8	13	95	0	65	32	10	16	40	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
466123--466166	21	2.1	21	83	8	54	13	13	18	54	1.71
468498--468549	19	2.7	19	84	3	59	30	17	13	38	1.88
468612--468658	20	2.3	20	100	0	94	40	8	19	31	1.81
469962--470122	66	2.5	63	82	11	209	31	25	13	29	1.94
469965--470124	32	5.0	31	78	16	168	30	25	13	30	1.94
472824--472862	13	3.0	13	88	0	60	38	17	12	30	1.88
472940--472980	21	2.0	21	100	0	82	34	9	26	29	1.88
472976--473006	10	3.1	10	90	0	53	41	6	29	22	1.78
473030--473166	53	2.6	53	94	1	238	27	17	17	37	1.92
473136--473206	20	3.5	20	77	11	74	29	14	16	39	1.88
474598--474765	34	4.9	34	94	2	284	22	33	12	31	1.91
474794--475083	48	5.9	49	83	6	352	25	25	17	31	1.97
474794--475083	149	2.0	146	85	4	395	25	25	17	31	1.97
474796--475119	49	6.5	50	78	12	285	25	25	17	31	1.97
475865--475928	19	3.7	19	68	23	59	32	10	18	37	1.86
475866--476000	32	4.2	32	90	0	198	33	10	19	37	1.86
475898--475960	19	3.6	19	66	24	57	33	11	19	36	1.87
475949--475973	13	1.9	13	100	0	50	36	16	16	32	1.90
567272--567332	2	30.0	2	96	3	113	49	1	49	0	1.10
569226--569273	25	2.0	24	87	4	69	27	2	0	70	0.98
569223--569292	17	4.2	17	80	7	81	27	1	0	71	0.94
569941--570053	29	3.8	30	84	3	124	30	2	11	54	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
570999--571138	69	2.0	69	84	2	183	44	6	16	32	1.73
571023--571152	69	1.9	69	84	6	174	43	6	16	33	1.72
571073--571274	96	2.1	97	85	6	268	37	9	20	32	1.86
576309--576334	13	2.0	13	100	0	52	38	15	15	30	1.88
577181--578369	49	24.8	49	78	9	1074	31	17	26	23	1.97
577181--578369	247	5.0	245	82	8	1294	31	17	26	23	1.97
577181--578274	336	3.2	338	87	5	1434	31	17	26	23	1.97
578061--578126	19	3.2	19	67	19	51	30	19	24	25	1.98
577622--578372	92	8.1	92	84	7	708	30	17	27	24	1.97
578151--578312	39	3.9	39	78	15	180	23	20	30	25	1.99

Tables:   1   2   3   4   5