genome.fa.s176.2.7.7.80.10.50.1000.4.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: Scaffold176
Parameters: 2 7 7 80 10 50 1000
Length:  960511

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 647 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)
512420--512532	51	2.3	48	85	13	142	32	12	24	30	1.92
514875--514941	34	2.0	33	88	2	98	46	13	13	26	1.80
514983--515071	13	5.9	13	72	27	70	34	15	13	35	1.87
514964--515090	32	4.0	32	94	0	200	35	14	12	37	1.85
514965--515091	19	7.7	18	70	28	68	36	14	12	36	1.85
515128--515204	21	3.7	21	85	3	102	36	16	11	35	1.86
515904--515929	13	2.0	13	100	0	52	38	15	15	30	1.88
515884--515949	33	2.0	33	84	0	87	42	18	13	25	1.87
515991--516015	13	1.9	13	100	0	50	32	16	16	36	1.90
515972--516034	32	2.0	32	87	0	90	38	17	9	34	1.82
516072--516129	21	2.7	22	86	7	84	32	13	15	37	1.87
516917--517062	28	5.2	28	62	21	83	22	19	30	28	1.98
516847--517725	59	15.2	59	89	3	992	25	20	27	26	1.99
516843--517729	177	5.1	179	87	5	1099	26	20	27	26	1.99
518711--518754	15	3.0	14	87	9	61	0	4	11	84	0.77
518717--518754	20	1.9	20	94	0	67	0	2	13	84	0.73
520630--520685	21	2.7	21	100	0	112	32	10	21	35	1.88
520741--520765	13	1.9	13	100	0	50	36	16	16	32	1.90
520723--520784	32	2.0	31	93	3	106	35	11	16	37	1.84
520722--520787	19	3.8	19	74	24	74	36	10	15	37	1.82
520827--520852	13	2.0	13	100	0	52	30	15	15	38	1.88
520807--520873	33	2.0	33	88	0	98	25	14	16	43	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
520971--521199	59	3.9	59	86	5	306	24	27	21	27	1.99
520974--521199	55	3.9	55	79	13	249	24	27	21	26	1.99
522005--522072	19	3.9	19	78	21	85	35	11	14	38	1.83
522026--522050	13	1.9	13	100	0	50	36	16	16	32	1.90
522007--522069	32	2.0	32	96	0	117	34	12	15	36	1.86
522112--522137	13	2.0	13	100	0	52	30	15	15	38	1.88
522092--522158	33	2.0	33	88	0	98	25	14	16	43	1.86
524607--524682	27	2.8	27	86	6	91	25	34	19	21	1.96
524665--524834	52	3.3	51	82	2	214	30	25	11	31	1.92
524817--524898	28	2.9	28	83	7	96	24	32	17	25	1.96
524502--524923	211	2.0	211	86	4	593	29	26	12	31	1.92
526564--526589	13	2.0	13	100	0	52	38	15	15	30	1.88
526546--526609	32	2.0	33	87	3	94	40	17	14	28	1.88
537759--537940	79	2.3	77	79	5	177	29	17	30	23	1.97
537895--537972	27	2.8	28	86	1	104	20	20	35	23	1.96
540397--540457	21	2.9	21	97	0	113	42	9	19	27	1.83
540442--540467	13	2.0	13	100	0	52	38	15	15	30	1.88
540507--540572	19	3.8	19	73	22	81	36	13	12	37	1.82
540510--540604	32	3.0	32	92	0	154	35	13	12	37	1.83
540506--540605	19	5.9	18	68	26	67	37	13	12	38	1.81
540642--540718	21	3.7	21	85	3	102	36	16	12	33	1.88
541451--541896	42	11.2	42	67	19	170	18	23	14	43	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
541457--541575	35	3.4	34	79	9	132	17	23	14	44	1.85
541525--541700	43	4.1	43	72	13	148	17	22	13	46	1.83
541403--541906	199	2.5	199	82	4	556	19	22	14	43	1.87
541733--541880	42	3.5	42	82	0	179	18	24	15	41	1.89
542076--542566	31	15.1	31	71	11	277	27	29	24	18	1.98
542012--542196	68	2.7	67	78	9	176	30	29	22	17	1.96
542274--542579	62	4.7	68	80	9	316	28	28	25	17	1.97
542108--542442	167	2.0	167	80	5	383	27	28	24	20	1.99
543155--543208	21	2.5	22	82	14	69	33	14	18	33	1.92
551246--551642	195	2.0	195	99	0	785	29	18	26	25	1.98
562516--562540	13	1.9	13	100	0	50	32	16	16	36	1.90
562495--562560	32	2.0	33	88	2	98	39	15	12	33	1.84
562879--563096	49	4.8	45	81	13	250	31	18	25	24	1.97
562908--563080	49	3.7	49	85	9	268	32	19	24	23	1.97
562879--563084	92	2.2	92	98	0	394	31	18	24	25	1.98
563089--563253	32	5.2	32	85	4	228	18	16	33	30	1.94
563091--563285	32	5.9	33	80	10	161	21	16	33	28	1.95
563257--563317	28	2.2	27	85	8	79	31	13	32	22	1.92
564845--565097	87	2.9	86	84	5	294	21	21	15	41	1.90
564827--565105	43	6.3	43	77	9	251	22	21	14	42	1.88
564865--565141	87	3.2	86	80	8	249	22	23	14	39	1.91
565182--565359	83	2.1	84	83	3	216	17	22	14	44	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
565646--565794	19	8.8	18	73	25	130	34	12	16	36	1.86
565687--565775	13	5.9	13	72	27	70	34	13	15	35	1.87
565668--565807	32	4.4	32	97	0	253	34	13	15	36	1.87
565668--565891	96	2.3	96	81	8	242	34	15	15	34	1.89
565847--565871	13	1.9	13	100	0	50	32	16	16	36	1.90
569618--569951	166	2.0	167	80	5	383	30	11	9	48	1.72
570439--570477	10	3.9	10	79	0	51	82	2	12	2	0.89
570914--571038	40	3.1	40	96	0	223	23	4	26	46	1.70
578557--578620	31	2.1	31	100	0	128	34	15	18	31	1.93
578600--578740	54	2.7	51	82	3	165	39	14	16	29	1.88
578800--578838	20	2.0	20	94	0	69	35	20	5	38	1.75
579602--579838	52	4.5	51	73	6	172	37	14	21	26	1.92
579931--580045	32	3.6	32	80	2	113	26	12	26	33	1.92
579966--580055	32	2.8	32	81	1	99	30	15	24	30	1.96
580037--580223	30	6.4	30	74	11	102	35	12	25	26	1.91
580056--580162	56	1.9	57	84	1	144	37	8	26	28	1.85
580037--580866	29	28.1	29	75	8	508	32	13	27	27	1.93
580274--580373	34	3.0	33	84	7	123	39	12	26	23	1.89
580340--580866	148	3.6	147	83	4	577	31	13	28	26	1.94
588094--588145	21	2.6	20	93	6	88	46	15	11	26	1.80
592190--592220	15	2.1	15	93	0	53	48	16	22	12	1.80
594078--594107	8	3.8	8	100	0	60	10	0	26	63	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
594310--594347	13	2.9	13	96	0	67	34	18	15	31	1.92
594459--594504	21	2.2	20	81	11	58	32	19	4	43	1.71
596876--596927	21	2.6	20	93	6	88	46	15	11	26	1.80
599419--600031	29	20.6	29	76	7	410	30	13	28	26	1.94
599419--599756	90	3.8	90	73	13	209	31	13	27	27	1.94
599419--600031	119	5.2	119	74	11	303	30	13	28	26	1.94
599444--600031	148	4.0	146	77	9	514	30	13	29	26	1.94
599772--599955	59	3.1	56	82	7	199	28	12	30	27	1.93
600324--600352	11	2.6	11	100	0	58	27	17	27	27	1.97
607511--607551	21	2.1	19	86	13	57	41	17	19	21	1.90
608418--608556	53	2.7	53	82	4	158	42	10	15	31	1.81
617992--618119	63	2.0	63	90	0	202	16	19	14	49	1.80
619127--619154	13	2.2	13	100	0	56	42	0	7	50	1.30
619397--619430	5	6.4	5	90	6	50	76	2	0	20	0.92
620232--620286	28	2.0	27	82	3	65	40	0	1	58	1.09
626905--627033	48	2.7	46	79	10	143	48	17	8	25	1.76
626953--627158	58	3.5	58	85	4	254	46	21	7	25	1.77
626953--627171	59	3.7	59	81	7	243	45	21	7	26	1.77
628018--628050	11	3.1	11	86	4	50	9	12	0	78	0.95
628971--629003	17	1.9	17	93	0	57	21	3	0	75	0.93
630345--630504	32	5.0	31	74	4	113	37	9	15	38	1.79
630345--630545	64	3.1	64	75	6	181	37	9	15	36	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
644088--644124	19	2.0	19	89	5	58	45	5	8	40	1.56
646438--646478	20	2.0	20	86	9	57	53	0	0	46	1.00
652094--652214	53	2.3	54	81	7	149	29	14	19	37	1.90
652877--652928	16	3.3	15	79	15	52	19	13	23	44	1.86
652869--652944	32	2.4	32	84	4	91	18	13	23	44	1.85
652898--652954	16	3.5	17	73	9	55	17	12	28	42	1.85
663503--663527	13	1.9	13	100	0	50	40	16	8	36	1.77
663478--663546	33	2.1	33	89	5	104	37	18	11	31	1.87
663575--663630	21	2.8	19	82	12	67	37	17	14	30	1.90
672310--672340	13	2.4	13	94	0	53	35	16	16	32	1.91

Tables:   1   2   3   4   5   6