genome.fa.s400.2.7.7.80.10.50.1000.4.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: Scaffold400
Parameters: 2 7 7 80 10 50 1000
Length:  2847997

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

This is table  4  of  17  ( 1977 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)
416657--417042	79	4.9	79	94	0	637	27	23	15	33	1.95
416974--417121	53	2.9	50	78	10	163	26	22	13	37	1.92
422333--422372	12	3.6	12	80	12	50	17	10	2	70	1.27
425577--425648	30	2.4	30	78	0	81	47	4	12	36	1.61
436086--436155	24	2.8	24	77	14	70	45	22	10	21	1.81
436088--436184	27	3.7	27	80	4	101	45	23	9	21	1.81
436172--436229	26	2.3	25	91	5	91	25	15	25	32	1.95
438093--438138	21	2.1	22	84	4	58	19	30	19	30	1.97
440682--440750	24	2.8	24	77	16	70	46	23	10	20	1.80
440715--440779	26	2.5	26	87	2	94	46	21	10	21	1.82
440767--440824	26	2.3	25	91	5	91	25	15	25	32	1.95
444768--445641	167	5.2	168	86	4	1203	43	15	7	34	1.74
444768--445647	336	2.6	332	86	4	1207	43	15	7	34	1.74
445289--446104	429	1.9	430	86	4	1097	45	15	6	32	1.73
445704--447334	169	9.7	168	88	2	2257	42	16	7	33	1.76
445704--447334	337	4.9	337	87	2	2297	42	16	7	33	1.76
452143--452169	2	13.5	2	100	0	54	48	0	0	51	1.00
453720--453785	27	2.5	26	75	5	69	43	1	3	51	1.26
456165--456193	2	14.5	2	100	0	58	51	0	0	48	1.00
458918--458963	21	2.1	22	84	4	58	19	30	19	30	1.97
462515--462551	18	2.1	18	90	5	58	37	5	0	56	1.22
468163--468200	13	2.9	13	84	11	51	26	0	2	71	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
468740--468773	3	11.0	3	93	6	59	35	0	0	64	0.94
470338--470462	59	2.1	59	100	0	250	40	11	11	36	1.77
470839--470932	20	4.7	19	76	15	66	40	2	8	48	1.45
470846--470908	19	3.3	19	79	14	76	39	3	7	49	1.48
473387--473430	19	2.4	19	85	11	56	29	9	0	61	1.27
474876--474917	22	1.9	22	85	9	59	47	2	4	45	1.36
475177--475204	2	14.0	2	100	0	56	50	0	0	50	1.00
476908--476932	10	2.5	10	100	0	50	28	0	0	72	0.86
477741--477779	21	2.0	18	85	14	51	41	0	0	58	0.98
479045--479075	16	1.9	16	93	0	53	58	19	0	22	1.40
479279--479310	8	3.9	8	92	8	55	71	0	0	28	0.86
479286--479335	16	3.2	16	75	11	50	60	0	0	40	0.97
479285--479354	23	3.0	23	77	12	63	58	1	0	40	1.07
479655--479708	3	18.0	3	92	0	90	64	1	1	31	1.14
487051--487312	38	6.9	37	79	8	246	30	15	19	35	1.93
487036--487312	76	3.7	75	83	4	326	29	16	19	34	1.94
487035--487312	114	2.4	114	79	5	305	30	16	19	34	1.94
487036--487336	38	7.9	37	80	6	195	29	15	18	35	1.92
487359--487388	2	15.0	2	100	0	60	50	0	0	50	1.00
489532--489562	8	3.8	8	91	8	53	0	12	0	87	0.55
493104--493154	20	2.5	21	93	3	86	43	7	15	33	1.76
493147--493198	20	2.6	20	96	0	95	34	19	1	44	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
520182--521478	167	7.7	167	84	4	1646	33	7	16	41	1.77
520182--521478	335	3.9	334	84	4	1637	33	7	16	41	1.77
520932--521281	180	2.0	176	88	3	522	33	8	16	41	1.78
521545--523085	167	9.2	165	85	5	1902	33	7	16	42	1.77
523155--524016	167	5.2	167	85	3	1100	34	7	15	43	1.74
523167--524015	332	2.6	333	85	2	1183	34	7	15	42	1.75
530173--531605	166	8.6	167	87	2	1961	41	16	8	33	1.78
530173--531605	335	4.3	335	87	2	1965	41	16	8	33	1.78
532832--532858	2	13.5	2	100	0	54	48	0	0	51	1.00
536742--536774	2	16.5	2	93	0	57	45	0	3	51	1.16
538304--538370	27	2.4	27	75	2	71	43	4	2	49	1.38
542204--542240	18	2.1	18	90	5	58	37	5	0	56	1.22
544772--544826	28	2.0	28	100	0	110	18	10	21	49	1.78
544831--544876	24	1.9	24	95	0	83	19	6	28	45	1.75
545323--545368	24	1.9	24	95	0	83	45	28	6	19	1.75
545365--545426	28	2.2	28	91	5	99	53	20	8	17	1.69
545373--545427	28	2.0	28	100	0	110	49	21	10	18	1.78
547330--547375	21	2.1	22	84	4	58	19	30	19	30	1.97
549932--549977	24	1.9	24	90	0	74	45	26	6	21	1.76
549974--550035	28	2.2	28	91	5	99	53	20	8	17	1.69
549982--550036	28	2.0	28	100	0	110	49	21	10	18	1.78
551475--551503	11	2.5	12	94	5	51	0	10	3	86	0.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
553320--553350	16	2.0	16	93	6	55	25	0	3	70	1.02
553601--553642	21	2.0	21	85	0	57	50	4	0	45	1.23
553884--553938	2	27.5	2	100	0	110	50	0	0	49	1.00
554288--554346	28	2.1	27	81	12	66	49	5	1	44	1.34
554363--554394	16	2.1	16	94	5	57	34	0	6	59	1.23
558013--558056	23	1.9	23	85	0	61	18	4	11	65	1.40
558218--558269	14	3.4	14	71	19	50	44	1	0	53	1.11
558232--558279	20	2.4	20	80	16	55	43	4	0	52	1.20
558386--558470	14	6.0	14	73	15	77	41	1	0	57	1.06
558518--558558	3	13.7	3	100	0	82	31	0	0	68	0.90
559052--559149	34	2.9	33	81	6	124	22	5	28	43	1.74
559333--559396	31	2.1	31	100	0	128	6	12	15	65	1.44
559344--559397	14	3.3	18	70	24	64	7	12	14	64	1.47
559480--559534	19	2.9	19	88	0	74	27	21	20	30	1.98
563620--563668	22	2.2	22	96	0	89	16	8	24	51	1.71
563642--563757	34	3.4	34	86	0	169	20	5	29	44	1.73
563944--564004	31	2.0	31	100	0	122	6	13	14	65	1.45
563952--564005	14	3.3	18	70	24	64	7	12	14	64	1.47
568036--568060	11	2.3	11	100	0	50	36	0	0	64	0.94
568034--568065	15	2.0	17	88	11	50	37	0	0	62	0.95
568860--568885	2	13.0	2	100	0	52	50	0	0	50	1.00
573833--573870	20	1.9	20	84	10	51	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
581733--581778	23	2.0	24	84	12	62	63	8	2	26	1.35
587882--587964	32	2.5	33	81	16	102	55	1	4	38	1.29
595827--595876	24	2.2	24	85	7	68	40	10	0	50	1.36
597049--597669	167	3.7	168	85	3	763	44	14	6	34	1.72
597049--597681	335	1.9	335	85	2	869	44	14	6	34	1.72
598341--598403	33	1.9	33	86	0	90	17	20	26	34	1.95
598685--598726	19	2.2	19	87	8	59	57	4	4	33	1.41
602488--602522	13	2.7	13	90	0	61	48	5	37	8	1.58
602588--602692	27	4.0	27	82	6	117	46	21	9	21	1.80
604570--604615	21	2.1	22	84	4	58	19	30	19	30	1.97
607067--607101	13	2.7	13	90	0	61	48	5	37	8	1.58
607167--607236	24	2.8	25	83	14	83	45	24	10	20	1.81
607169--607271	27	3.9	27	84	3	122	45	24	9	20	1.81
610720--610797	20	3.9	19	78	6	75	41	14	11	33	1.81
610720--610797	40	2.0	39	84	2	102	41	14	11	33	1.81
611352--612847	28	52.1	28	84	9	1580	22	18	31	27	1.97
611403--612850	139	10.1	140	84	8	1642	22	18	31	27	1.97
628095--628172	20	3.9	19	78	6	75	41	14	11	33	1.81
628095--628172	40	2.0	39	84	2	102	41	14	11	33	1.81
632104--632133	16	1.9	16	93	6	53	36	6	6	50	1.55
633486--633555	28	2.4	29	75	13	74	45	1	2	50	1.25
633580--633609	15	2.0	15	93	0	51	76	0	0	23	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
635828--636303	238	2.0	236	99	0	934	43	9	7	39	1.66
637677--637721	21	2.1	21	83	4	54	26	0	4	68	1.08
637695--637727	17	1.9	18	88	11	52	24	3	0	72	0.98
639099--639145	20	2.6	18	86	10	60	82	2	6	8	0.90
639659--639729	20	3.6	19	86	5	97	32	14	12	40	1.83
648091--648440	27	12.8	28	84	6	466	25	33	15	26	1.95
648091--648445	82	4.3	82	89	1	505	25	33	14	26	1.95
648416--649416	32	31.2	32	85	3	1246	31	30	17	20	1.96
649027--649109	41	2.0	41	92	0	139	33	36	15	14	1.88
649068--649352	92	3.0	95	83	6	362	31	30	18	19	1.96

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