genome.fa.s36.2.7.7.80.10.50.1000.3.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: Scaffold36
Parameters: 2 7 7 80 10 50 1000
Length:  4808052

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   

This is table  3  of  28  ( 3342 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)
396953--396983	4	7.8	4	92	0	53	74	0	0	25	0.82
398564--398750	79	2.4	79	80	2	196	33	17	26	22	1.96
398702--398773	28	2.6	28	88	0	99	23	19	34	22	1.96
398628--399040	107	3.9	106	73	8	338	30	14	27	27	1.95
398762--399098	52	6.4	51	72	13	227	31	12	26	30	1.92
398651--399100	212	2.1	212	88	2	663	30	13	27	28	1.94
401460--401485	13	2.0	13	100	0	52	38	15	15	30	1.88
401439--401505	33	2.0	33	88	0	98	43	16	14	25	1.86
401528--401590	32	2.0	32	93	0	108	38	15	11	34	1.83
401525--401592	19	3.9	19	74	21	76	39	14	10	35	1.80
402973--403047	20	3.8	20	78	0	87	36	13	10	40	1.79
408532--408569	15	2.4	16	91	8	60	42	5	0	52	1.24
411120--411273	81	1.9	80	85	6	213	31	7	16	43	1.77
416122--416181	22	2.7	23	77	12	63	26	1	1	70	1.07
416148--416186	15	2.7	15	84	4	53	25	2	0	71	0.98
418219--418252	14	2.5	14	95	4	61	14	0	0	85	0.60
418906--418952	22	2.1	22	84	7	60	57	8	4	29	1.48
418916--418960	22	2.0	22	95	4	81	51	8	4	35	1.54
419296--419329	17	2.0	17	88	0	50	44	14	2	38	1.61
420479--420548	28	2.5	28	88	0	95	24	18	34	22	1.96
420537--420873	52	6.4	52	68	17	185	31	12	26	29	1.93
420689--420764	27	2.8	28	89	2	109	21	21	34	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
420470--420875	212	1.9	212	89	3	638	31	13	27	27	1.94
420752--420870	51	2.3	52	84	10	145	34	11	21	31	1.90
423226--423251	13	2.0	13	100	0	52	38	15	15	30	1.88
423205--423271	33	2.0	33	88	0	98	43	16	14	25	1.86
423291--423358	19	3.9	18	76	23	83	38	14	11	35	1.83
423313--423337	13	1.9	13	100	0	50	32	16	16	36	1.90
423294--423356	32	2.0	32	96	0	117	36	15	12	34	1.86
424177--425164	55	18.0	55	95	2	1645	21	20	29	28	1.98
438625--438694	28	2.5	28	88	0	95	24	18	34	22	1.96
438829--438904	27	2.8	28	88	9	104	21	19	34	25	1.96
438616--438987	206	1.8	206	90	2	604	31	12	27	27	1.93
438892--439010	51	2.3	53	85	7	154	33	11	22	31	1.90
441368--441393	13	2.0	13	100	0	52	38	15	15	30	1.88
441347--441413	33	2.0	33	88	0	98	43	16	14	25	1.86
441433--441500	19	3.9	18	76	23	83	38	14	11	35	1.83
441455--441479	13	1.9	13	100	0	50	32	16	16	36	1.90
441436--441498	32	2.0	32	96	0	117	36	15	12	34	1.86
441536--441613	21	3.8	21	86	8	115	32	12	16	38	1.87
441536--441617	41	2.0	40	88	6	121	32	12	17	37	1.86
442296--442363	28	2.4	28	92	2	109	64	1	0	33	1.02
442309--442387	28	2.8	28	90	7	117	62	1	0	36	1.04
442336--442383	17	3.0	16	78	6	53	58	2	0	39	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
443461--443485	10	2.5	10	100	0	50	28	0	0	72	0.86
443471--443553	44	1.9	42	83	9	105	39	2	2	55	1.26
443516--443597	27	3.0	27	77	10	85	39	1	1	58	1.14
443622--443668	24	2.0	24	84	8	62	42	0	4	53	1.20
443633--443684	16	3.3	15	73	10	50	46	0	3	50	1.20
447051--447106	29	2.0	28	82	3	67	10	16	5	67	1.37
447623--447653	2	15.5	2	93	0	53	54	0	45	0	0.99
447611--447651	12	3.4	12	89	0	55	60	0	39	0	0.96
447859--448074	34	6.4	33	82	3	234	26	6	25	41	1.80
447859--448075	102	2.1	102	87	0	301	26	6	24	41	1.80
452498--452701	34	6.0	34	85	1	266	24	8	26	40	1.83
452502--452702	102	2.0	102	92	0	339	25	8	25	40	1.84
453535--453591	28	2.0	28	96	0	105	29	31	5	33	1.80
458477--458503	13	2.1	13	100	0	54	37	0	0	62	0.95
458659--458718	25	2.3	25	83	11	68	58	1	3	36	1.25
458744--458770	13	2.1	13	100	0	54	37	0	0	62	0.95
458906--458965	25	2.3	25	83	11	68	58	1	3	36	1.25
463173--463242	23	3.0	23	71	19	72	57	10	0	32	1.32
465813--465888	29	3.0	25	71	23	68	55	0	0	44	0.99
465816--465880	31	2.0	33	85	5	89	55	0	0	44	0.99
467090--467134	18	2.4	18	81	3	54	35	0	2	62	1.08
468110--468153	2	22.5	2	95	4	81	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
472290--472375	43	2.0	43	95	0	154	25	18	15	40	1.89
475585--475675	45	2.0	45	97	0	173	35	21	7	35	1.83
475794--475960	90	1.9	90	82	2	210	37	17	14	31	1.90
479397--479442	24	1.9	24	86	0	65	21	6	36	34	1.80
480201--480319	63	1.9	63	91	1	195	28	7	16	47	1.74
480324--480389	33	2.0	34	87	3	98	19	7	18	54	1.67
480489--480545	28	2.0	29	83	16	75	45	0	0	54	0.99
481972--482041	6	10.8	6	74	19	52	40	1	1	57	1.17
481991--482073	18	4.6	19	70	21	63	44	0	1	54	1.08
481998--482069	17	4.4	15	75	21	56	45	0	1	52	1.09
482025--482076	17	3.1	17	76	23	56	48	0	1	50	1.12
482127--482165	12	3.3	12	78	7	53	33	5	0	61	1.18
482814--482850	2	18.5	2	100	0	74	48	0	0	51	1.00
483673--483746	27	2.7	27	87	0	103	47	21	6	24	1.75
488133--488166	13	2.5	13	90	4	50	32	5	44	17	1.73
488250--488309	27	2.2	27	82	5	68	46	11	6	35	1.67
488570--488622	18	2.9	18	82	2	52	28	3	1	66	1.20
488570--488607	19	2.1	19	85	5	51	23	2	0	73	0.95
489003--489044	3	14.0	3	94	0	75	66	2	0	30	1.04
489879--489916	20	2.0	20	89	5	60	60	13	2	23	1.45
490354--490399	20	2.3	20	80	0	56	41	6	17	34	1.75
490687--490721	2	17.5	2	100	0	70	0	48	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
491769--491802	2	17.0	2	93	0	59	0	47	2	50	1.16
497498--497534	2	18.5	2	100	0	74	51	0	0	48	1.00
500580--500685	54	2.0	54	96	0	194	30	17	23	28	1.97
508772--508813	22	1.9	22	85	0	57	40	4	0	54	1.21
509531--509590	14	3.9	14	73	23	50	63	1	0	35	1.05
509576--509638	18	3.5	18	75	14	67	55	0	0	44	0.99
509524--509684	43	3.7	43	69	17	118	59	0	0	40	1.02
513157--513212	16	3.5	16	78	4	60	35	39	19	5	1.75
513189--513249	16	3.8	16	79	12	63	37	34	21	6	1.79
514395--514485	16	5.8	16	84	5	105	36	37	19	6	1.78
516509--516537	2	14.5	2	100	0	58	0	48	0	51	1.00
518380--518434	28	1.9	29	85	10	78	67	5	1	25	1.22
520444--520710	50	5.3	50	81	1	302	32	17	16	32	1.93
520442--520707	100	2.7	100	84	3	374	33	17	16	32	1.93
525082--525346	50	5.3	50	82	1	289	30	20	15	33	1.94
525803--525841	18	2.2	18	90	0	60	41	0	0	58	0.98
525811--525850	18	2.2	18	86	0	53	42	2	0	55	1.13
525876--525935	28	2.1	28	84	3	75	46	1	6	45	1.39
527079--527126	21	2.2	22	85	3	62	47	0	2	50	1.12
528516--528541	2	13.0	2	100	0	52	50	0	0	50	1.00
531135--531171	17	2.2	17	90	0	56	2	16	2	78	0.98
533818--533853	2	18.0	2	94	0	63	50	2	0	47	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
535012--535037	2	13.0	2	100	0	52	50	0	0	50	1.00
536298--536359	22	2.9	21	75	15	63	54	3	4	37	1.38
536392--536431	17	2.3	18	86	4	55	17	0	2	80	0.83
536383--536436	24	2.2	24	80	6	65	24	0	1	74	0.92
538060--538101	18	2.3	18	91	0	66	42	4	0	52	1.22
539313--539354	18	2.3	19	80	16	52	57	4	0	38	1.20
539589--539625	3	12.3	3	100	0	74	67	0	0	32	0.91
541700--541728	15	1.9	15	100	0	58	37	6	13	41	1.72
541799--541842	13	3.3	13	87	3	61	36	0	0	63	0.95
541799--541839	12	3.2	12	89	6	55	36	0	0	63	0.95

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28