genome.fa.s18.2.7.7.80.10.50.1000.13.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: D05
Parameters: 2 7 7 80 10 50 1000
Length:  64368997

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   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   

This is table  13  of  208  ( 24943 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)
5221735--5221807	5	14.4	5	76	18	71	56	0	1	42	1.08
5221735--5221817	22	3.9	22	75	15	77	56	2	1	39	1.20
5221735--5221807	17	4.1	19	79	11	84	56	0	1	42	1.08
5241066--5241099	15	2.3	15	94	0	59	35	8	0	55	1.31
5254988--5255053	24	2.8	24	71	13	64	54	1	0	43	1.09
5260915--5260949	18	1.9	18	88	0	52	22	0	5	71	1.07
5281157--5281280	46	2.8	46	91	3	200	27	22	16	33	1.96
5281157--5281354	37	4.8	45	84	10	207	26	21	16	35	1.94
5281243--5281381	37	3.8	37	95	0	233	25	21	13	38	1.90
5292522--5292571	17	2.7	20	78	18	70	10	0	44	46	1.37
5297161--5297210	17	2.7	20	78	18	70	10	0	44	46	1.37
5318608--5318639	16	1.9	17	93	6	57	50	0	3	46	1.17
5324645--5324678	15	2.3	15	94	0	59	55	0	8	35	1.31
5339834--5340001	85	2.0	85	92	0	282	33	17	22	27	1.96
5340043--5340111	30	2.3	30	84	0	84	30	13	11	44	1.78
5344788--5344849	33	1.9	32	87	9	90	70	0	1	27	0.96
5344841--5344896	24	2.3	23	85	11	69	76	3	0	19	0.93
5344825--5344896	15	4.8	15	78	14	69	73	2	0	23	0.96
5344825--5344892	21	3.1	21	71	22	59	73	2	0	23	0.97
5380258--5380296	20	2.0	20	85	10	53	64	0	2	33	1.08
5381786--5381837	21	2.5	21	90	0	77	32	38	9	19	1.84
5386906--5386988	29	2.9	28	77	12	78	43	8	8	39	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5394887--5394931	23	2.0	23	90	0	72	57	4	6	31	1.44
5394980--5395231	24	10.8	24	69	15	143	55	5	5	33	1.45
5395002--5395229	69	3.3	69	78	7	180	55	5	6	33	1.47
5396066--5396113	22	2.2	21	78	10	51	33	18	4	43	1.69
5397575--5397736	79	2.1	78	87	2	227	41	18	9	30	1.82
5408586--5408616	14	2.2	14	100	0	62	38	22	12	25	1.90
5428280--5428327	24	2.1	22	84	7	60	45	2	2	50	1.25
5433544--5433583	18	2.2	19	95	4	73	40	0	0	60	0.97
5433550--5433592	18	2.3	18	84	4	59	34	2	0	62	1.08
5436146--5436189	14	3.1	14	77	6	52	40	6	15	36	1.74
5436133--5436184	14	3.7	13	80	10	50	48	7	9	34	1.65
5447033--5447111	22	3.6	21	73	13	61	65	8	2	22	1.33
5452846--5452879	16	2.3	14	90	10	50	0	14	0	85	0.60
5458574--5458614	16	2.5	17	92	8	75	29	14	19	36	1.92
5465513--5466340	411	2.0	411	93	1	1410	25	24	15	34	1.94
5484230--5484285	25	2.2	25	93	0	94	19	25	17	37	1.94
5484240--5484307	22	3.0	22	82	6	73	20	25	16	38	1.92
5498182--5498208	4	6.8	4	100	0	54	0	22	0	77	0.76
5513477--5513509	2	16.5	2	100	0	66	51	0	48	0	1.00
5521525--5521604	6	13.3	6	71	5	63	2	30	12	55	1.50
5521513--5521664	24	6.3	24	81	3	153	1	32	16	48	1.57
5521621--5521686	12	5.5	12	72	5	53	1	36	18	43	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5521620--5521691	36	2.0	36	88	0	108	2	34	18	44	1.64
5522039--5522067	6	4.8	6	100	0	58	0	34	48	17	1.47
5528213--5528299	42	2.1	42	97	0	165	31	8	21	39	1.83
5545889--5545947	22	2.8	21	76	7	57	49	10	1	38	1.47
5565517--5565552	12	3.0	12	87	0	54	44	27	0	27	1.55
5567106--5567148	21	2.0	23	81	9	54	34	0	6	58	1.25
5568884--5568932	20	2.4	20	83	10	55	63	4	4	28	1.31
5572221--5572265	21	2.1	21	83	0	54	42	11	28	17	1.84
5577915--5578036	63	1.9	63	94	0	217	27	9	33	28	1.89
5585757--5585812	21	2.7	21	75	5	60	30	5	0	64	1.16
5585939--5585967	14	2.1	14	93	6	51	31	3	0	65	1.09
5586036--5586070	18	1.9	18	88	0	52	51	2	0	45	1.16
5586044--5586135	48	2.0	47	87	6	134	41	5	3	50	1.42
5586210--5586252	19	2.3	20	80	15	56	58	2	0	39	1.11
5587075--5587422	124	2.8	124	92	0	583	29	17	21	31	1.96
5590526--5590550	10	2.5	10	100	0	50	48	0	8	44	1.32
5590599--5591050	29	15.6	29	83	11	568	28	1	26	43	1.63
5590599--5591045	59	7.7	57	84	10	552	28	1	26	43	1.62
5590791--5590842	23	2.3	21	100	0	68	28	0	25	46	1.53
5591020--5591070	23	2.6	18	73	26	57	27	1	19	50	1.58
5591539--5591569	9	3.4	9	90	0	53	25	12	22	38	1.90
5591623--5591659	9	4.1	9	85	0	56	48	13	8	29	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5591872--5591931	30	2.0	31	86	3	86	20	40	0	40	1.52
5593328--5593352	7	3.6	7	100	0	50	60	12	0	28	1.32
5593434--5593825	195	2.0	195	95	0	712	35	15	16	32	1.90
5594611--5594675	10	6.5	10	71	7	51	69	0	0	30	0.89
5594611--5594675	30	2.2	30	91	5	105	69	0	0	30	0.89
5594699--5594782	29	3.1	29	62	22	74	41	0	28	29	1.56
5594676--5594794	51	2.3	51	94	1	202	42	0	28	28	1.56
5594784--5594816	10	3.2	11	87	12	52	57	0	33	9	1.30
5594933--5594993	29	2.1	29	84	3	79	54	13	6	26	1.63
5598851--5598950	50	2.0	50	100	0	200	38	14	10	38	1.79
5605838--5605954	43	2.8	43	71	13	100	41	26	11	20	1.87
5605893--5605985	42	2.2	41	79	7	96	35	27	13	22	1.93
5605959--5606011	26	2.0	26	89	7	81	24	33	20	20	1.97
5612412--5612450	19	2.1	19	85	9	53	33	5	10	51	1.58
5617056--5617092	7	5.4	7	93	6	67	72	0	0	27	0.84
5624087--5624123	19	1.9	19	89	10	58	64	16	0	18	1.29
5631245--5631281	3	12.3	3	100	0	74	32	32	0	35	1.58
5634640--5634671	16	2.0	16	93	0	55	46	12	12	28	1.78
5639199--5639319	64	1.9	64	89	0	188	28	9	28	33	1.89
5645345--5645405	30	2.0	30	96	0	113	40	11	21	26	1.87
5647766--5647802	12	3.2	12	92	3	58	54	8	0	37	1.30
5651495--5651555	23	2.7	23	95	5	108	36	0	8	55	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5651579--5651983	31	13.5	30	64	22	92	43	0	3	53	1.21
5651596--5651751	18	8.9	18	66	18	87	41	0	3	55	1.21
5651535--5652009	118	4.0	120	94	3	830	42	0	3	52	1.23
5652146--5652242	45	2.2	45	87	5	135	32	29	5	31	1.80
5652222--5652254	16	2.1	16	100	0	66	21	36	6	36	1.78
5652748--5652777	14	2.1	14	100	0	60	66	13	6	13	1.43
5653173--5653214	20	2.1	20	90	0	66	50	14	9	26	1.73
5654228--5654252	10	2.5	10	100	0	50	0	8	0	92	0.40
5672129--5672188	25	2.4	25	77	5	68	58	0	1	40	1.08
5679036--5679061	12	2.2	12	100	0	52	11	23	0	65	1.25
5683172--5683275	35	3.0	35	91	0	172	38	21	3	36	1.72
5696515--5696559	24	1.9	23	81	4	54	71	4	15	8	1.28
5696589--5696625	19	1.9	19	88	0	56	56	2	8	32	1.43
5700954--5701019	33	2.0	33	93	0	114	33	3	9	54	1.47
5700965--5701020	16	3.4	16	71	22	53	35	1	8	53	1.43
5703391--5703447	2	28.5	2	100	0	114	0	49	0	50	1.00
5703907--5703961	29	1.9	28	96	3	101	41	3	16	38	1.66
5710791--5710840	25	2.0	25	88	0	73	4	34	4	58	1.36
5714798--5714842	18	2.5	18	81	0	54	37	2	2	57	1.23
5714957--5715009	21	2.5	21	90	0	79	30	35	9	24	1.87
5716168--5716234	31	2.3	29	82	14	84	47	0	4	47	1.22
5716583--5716646	29	2.2	29	80	8	76	10	0	34	54	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5716841--5717385	126	4.3	126	87	2	765	35	18	19	26	1.95
5723227--5723436	116	1.8	117	85	1	296	47	4	5	41	1.48
5724522--5724553	7	4.6	7	100	0	64	56	15	0	28	1.40
5725768--5725815	11	4.4	11	80	17	55	43	0	35	20	1.52
5725768--5725815	22	2.2	23	82	17	66	43	0	35	20	1.52
5725776--5725818	11	4.0	10	85	14	59	46	0	32	20	1.51
5735907--5735992	29	3.0	28	75	13	75	18	12	18	50	1.78
5736108--5736157	24	2.1	24	96	0	91	36	6	30	28	1.81
5737781--5737833	26	2.0	26	85	3	70	18	1	16	62	1.42
5740595--5740620	6	4.3	6	100	0	52	50	0	50	0	1.00

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   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208