genome.fa.s16.2.7.7.80.10.50.1000.20.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: Gbar_D03
Parameters: 2 7 7 80 10 50 1000
Length:  50986338

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   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   

This is table  20  of  170  ( 20315 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)
5298737--5298794	25	2.3	25	81	0	71	24	24	18	32	1.97
5298765--5298954	25	7.7	25	69	8	104	18	25	19	36	1.95
5298887--5298966	25	3.2	25	73	1	72	17	26	20	36	1.94
5302049--5302173	50	2.5	50	81	0	142	28	22	28	21	1.99
5302446--5302484	20	2.0	20	90	10	62	56	5	23	15	1.59
5302735--5302767	17	1.9	17	93	0	57	45	6	27	21	1.75
5307332--5307374	17	2.5	17	96	0	77	41	4	30	23	1.74
5309646--5309925	146	1.9	146	99	0	551	34	13	13	38	1.84
5317991--5318287	50	5.8	50	79	2	245	22	28	20	28	1.98
5334639--5334725	43	2.0	43	95	0	156	26	22	18	32	1.97
5339132--5339167	16	2.2	16	100	0	72	25	0	36	38	1.56
5339431--5339617	61	3.1	61	70	17	190	50	6	2	41	1.40
5339523--5339570	18	2.8	18	74	22	50	56	0	0	43	0.99
5339502--5339553	15	3.6	15	80	12	56	53	1	0	44	1.11
5339386--5339682	59	5.0	58	67	18	173	50	4	3	41	1.37
5339479--5339562	43	1.9	43	83	7	107	54	2	1	41	1.21
5339386--5339678	120	2.4	121	93	1	482	50	4	3	41	1.38
5342521--5342555	8	4.5	8	85	7	54	85	2	11	0	0.69
5342524--5342553	15	1.9	16	93	6	53	83	3	13	0	0.77
5345017--5345087	13	5.4	12	72	21	54	40	1	1	56	1.17
5353224--5353282	20	2.9	20	74	2	55	61	0	3	35	1.13
5359107--5359137	2	15.5	2	93	0	53	51	45	3	0	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5360689--5360716	3	9.3	3	100	0	56	0	35	0	64	0.94
5365502--5365594	46	2.0	47	82	2	116	30	18	25	25	1.98
5366297--5366334	12	3.2	12	96	0	67	36	44	7	10	1.68
5371330--5371390	6	10.0	6	94	3	104	16	19	0	63	1.30
5374455--5374518	28	2.2	30	83	8	87	14	4	12	68	1.35
5374454--5374516	6	10.8	6	77	13	60	15	4	12	66	1.40
5374513--5374550	11	3.3	11	89	10	58	0	13	0	86	0.56
5379796--5379829	3	11.0	3	87	6	50	67	2	0	29	1.05
5379794--5379838	22	2.0	22	86	0	63	68	6	0	24	1.13
5382129--5382177	22	2.2	23	82	10	66	30	8	18	42	1.79
5385077--5385105	2	15.0	2	92	7	51	48	0	0	51	1.00
5386392--5386429	17	2.1	18	85	9	51	47	2	2	47	1.30
5386599--5386651	20	2.7	19	80	8	61	28	5	5	60	1.42
5389982--5390006	13	1.9	13	100	0	50	32	0	20	48	1.50
5393024--5393075	11	4.6	11	80	15	54	69	0	3	26	1.06
5402961--5403020	26	2.1	29	85	11	81	40	1	5	53	1.33
5402993--5403036	19	2.2	21	88	8	65	43	0	2	54	1.12
5402991--5403038	20	2.5	19	78	18	55	43	0	2	54	1.12
5403661--5403696	18	2.1	18	89	5	56	41	0	25	33	1.55
5414027--5414051	6	4.2	6	100	0	50	52	0	0	48	1.00
5420243--5420416	85	2.0	85	91	0	276	35	4	12	47	1.62
5429822--5429851	8	3.8	8	90	0	51	90	10	0	0	0.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5430452--5430534	27	3.1	27	96	0	157	31	3	12	53	1.55
5436843--5436920	41	1.9	42	86	5	115	58	3	1	35	1.24
5438207--5438233	14	1.9	14	100	0	54	37	11	22	29	1.89
5441022--5441165	21	7.0	21	70	11	91	15	20	19	43	1.88
5440995--5441203	81	2.6	81	86	2	276	15	20	23	40	1.90
5449560--5449779	40	5.6	40	80	5	241	25	25	24	25	2.00
5456222--5456274	25	2.2	24	86	3	70	37	20	22	18	1.94
5472462--5472509	20	2.5	19	83	12	62	14	56	10	18	1.66
5479521--5479670	81	1.9	81	87	2	221	32	22	18	26	1.97
5481048--5481080	16	1.9	18	88	11	52	57	3	0	39	1.14
5483127--5483375	50	4.8	50	85	4	284	20	29	24	26	1.99
5483126--5483375	100	2.4	104	88	6	357	20	29	24	26	1.99
5483470--5483501	13	2.5	13	94	0	55	56	12	0	31	1.37
5483713--5483770	30	1.9	30	89	0	89	31	24	3	41	1.71
5484459--5484495	18	2.1	18	89	0	56	0	27	0	72	0.84
5484486--5484533	17	2.9	17	76	14	55	0	29	8	62	1.24
5484497--5484573	40	1.9	41	94	2	138	0	25	10	63	1.26
5484496--5484562	17	3.6	17	69	21	53	0	26	11	61	1.31
5484587--5484639	14	3.6	14	80	14	70	60	0	0	39	0.97
5484592--5484639	11	4.5	11	72	27	50	60	0	0	39	0.97
5484583--5484643	25	2.4	26	86	10	83	60	0	0	39	0.97
5484587--5484656	31	2.3	31	85	5	88	60	1	0	38	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5486611--5486638	13	2.2	13	100	0	56	46	25	7	21	1.76
5489112--5489309	50	3.9	50	86	5	247	20	30	23	25	1.98
5489112--5489309	106	1.9	98	88	8	288	20	30	23	25	1.98
5489404--5489435	13	2.5	13	94	0	55	56	12	0	31	1.37
5489646--5489704	31	1.9	31	89	3	93	30	23	3	42	1.71
5490388--5490462	17	4.3	18	73	13	59	0	26	5	68	1.11
5490406--5490505	42	2.3	43	86	11	134	0	27	9	64	1.23
5490515--5490572	2	33.5	2	72	27	53	56	0	0	43	0.99
5490523--5490572	20	2.5	20	93	6	84	58	0	0	42	0.98
5490521--5490581	14	4.5	14	72	15	56	59	1	0	39	1.08
5490523--5490581	20	2.9	19	82	5	64	59	1	0	38	1.08
5491842--5491927	45	1.9	45	85	0	118	23	22	12	41	1.88
5495809--5495873	27	2.4	27	92	0	103	38	3	4	53	1.37
5497483--5497539	3	19.0	3	79	0	60	63	5	3	28	1.33
5498748--5498819	33	2.0	33	84	12	90	45	6	16	30	1.74
5500202--5500230	14	2.0	15	93	6	51	27	0	20	51	1.47
5500424--5500482	28	2.1	29	87	9	86	59	0	5	35	1.20
5501549--5501724	64	2.8	64	86	5	227	32	7	17	42	1.76
5501844--5501946	41	2.5	41	95	0	179	24	18	22	34	1.96
5501844--5501962	41	2.9	41	89	2	150	23	18	23	34	1.96
5501876--5501997	41	3.0	41	84	2	120	20	19	23	36	1.95
5508287--5508315	14	2.0	15	93	6	51	27	0	20	51	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5508507--5508563	28	2.0	28	86	6	80	54	1	5	38	1.33
5509522--5509564	21	2.0	22	86	13	63	44	0	13	41	1.44
5509522--5509565	20	2.1	21	84	12	56	45	0	13	40	1.44
5509486--5509605	61	2.0	61	85	8	165	39	3	15	42	1.63
5509636--5509783	64	2.3	64	90	2	226	33	7	16	42	1.76
5510951--5511006	17	3.4	16	78	11	60	41	0	1	57	1.09
5510951--5511005	5	11.2	5	74	18	53	40	0	1	58	1.09
5510952--5511007	27	2.0	29	86	6	80	42	0	1	55	1.10
5511161--5511196	19	1.9	19	94	5	65	72	0	13	13	1.13
5511222--5511253	17	2.0	17	88	11	50	62	15	21	0	1.32
5511916--5511958	12	3.6	12	87	0	50	41	0	6	51	1.29
5511924--5511962	18	2.2	18	90	0	60	38	0	5	56	1.22
5514908--5514972	31	2.1	31	97	0	121	30	12	4	52	1.59
5519293--5519338	19	2.4	18	82	10	56	69	2	4	23	1.17
5519350--5519405	20	2.8	19	76	15	51	64	0	8	26	1.23
5519589--5519645	29	1.9	30	86	10	82	33	5	3	57	1.38
5519618--5519659	19	2.1	19	91	8	66	23	4	2	69	1.20
5519587--5519668	29	2.8	29	76	10	78	29	4	2	63	1.28
5522373--5522437	34	1.9	34	87	0	94	53	0	3	43	1.16
5522897--5522962	32	2.1	32	100	0	132	30	15	18	36	1.91
5524243--5524363	42	2.9	42	81	4	154	23	23	33	19	1.97
5527447--5527511	21	3.1	21	84	4	87	38	20	38	3	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5527949--5528082	42	3.1	42	78	4	135	28	17	17	36	1.93
5530411--5530442	5	6.4	5	100	0	64	18	0	0	81	0.70
5534110--5534151	9	4.6	9	77	16	50	85	4	0	9	0.72
5534109--5534152	18	2.6	18	82	10	56	81	6	0	11	0.86
5534110--5534151	19	2.2	19	86	0	57	85	4	0	9	0.72
5534109--5534152	16	2.6	17	82	17	56	81	6	0	11	0.86
5534196--5534249	25	2.2	25	80	6	58	48	3	7	40	1.49
5535747--5536713	50	19.3	50	69	5	561	25	23	20	30	1.98
5535762--5536717	100	9.5	100	90	2	1452	25	23	20	30	1.99
5535762--5536717	299	3.2	298	91	2	1468	25	23	20	30	1.99

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   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170