genome.fa.s26.2.7.7.80.10.50.1000.18.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_D13
Parameters: 2 7 7 80 10 50 1000
Length:  60343961

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   

This is table  18  of  204  ( 24404 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)
5311070--5311218	81	1.9	78	86	6	210	35	11	23	29	1.90
5311116--5311193	35	2.1	35	81	11	84	35	11	23	29	1.90
5310898--5311242	170	2.0	169	85	7	459	33	14	22	30	1.93
5312286--5312316	14	2.2	14	94	0	53	41	0	9	48	1.36
5312293--5312396	41	2.5	41	72	15	97	50	1	7	39	1.42
5312297--5312478	92	1.9	96	84	7	248	53	1	7	36	1.39
5312559--5312620	24	2.7	21	77	20	61	62	3	8	25	1.38
5312977--5313068	39	2.5	36	88	10	148	20	22	28	28	1.99
5312985--5313065	39	2.1	39	100	0	162	17	23	30	28	1.97
5317014--5317102	45	2.0	45	90	0	142	23	33	21	21	1.97
5319580--5319620	21	2.0	21	90	0	64	19	29	21	29	1.98
5327731--5327840	54	2.0	54	92	0	184	10	8	35	45	1.69
5333216--5333265	26	1.9	26	84	8	66	50	8	14	28	1.70
5335051--5335578	44	11.7	45	70	11	208	25	19	20	34	1.96
5335566--5336161	88	6.8	88	81	2	543	27	22	19	30	1.98
5335827--5335964	44	3.1	44	63	8	109	26	21	23	28	1.99
5335566--5336074	264	1.9	264	84	0	678	28	21	18	31	1.97
5335591--5336228	88	7.2	89	81	4	355	27	23	20	29	1.99
5336011--5336238	89	2.6	89	87	1	323	26	23	22	27	1.99
5337185--5337224	5	8.4	5	79	20	50	0	17	0	82	0.67
5337185--5337223	14	2.8	14	85	14	62	0	15	0	84	0.62
5339885--5339927	22	1.9	23	85	4	61	34	2	11	51	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5345241--5345271	9	3.4	9	90	0	53	25	12	22	38	1.90
5345325--5345361	9	4.1	9	92	0	65	45	13	10	29	1.77
5351940--5351986	18	2.7	18	80	9	53	23	2	2	72	1.06
5354624--5354755	45	3.0	45	87	2	160	23	16	26	33	1.96
5357469--5357511	19	2.2	20	80	12	54	34	18	0	46	1.50
5357693--5357837	42	3.5	41	66	16	109	35	22	20	21	1.96
5357684--5357838	83	1.9	83	95	0	283	36	21	21	20	1.96
5357776--5357837	21	3.0	21	75	0	70	35	25	19	19	1.95
5358004--5358060	29	2.0	29	96	0	105	38	21	0	40	1.53
5360145--5360191	24	2.0	24	91	0	76	23	12	8	55	1.64
5365449--5365511	27	2.4	27	94	2	110	42	11	0	46	1.39
5365504--5365537	17	2.0	17	88	0	50	79	8	2	8	1.03
5365568--5365670	27	3.8	26	77	12	109	24	22	33	19	1.97
5365893--5365924	3	10.7	3	93	0	55	31	0	3	65	1.08
5366773--5366815	18	2.4	18	80	0	50	25	6	48	18	1.73
5372482--5372600	4	30.0	4	74	21	83	0	28	0	71	0.86
5372457--5372590	41	3.3	40	80	13	177	0	29	0	70	0.87
5372428--5372601	35	4.9	34	76	18	142	0	29	0	70	0.87
5372641--5372692	27	1.9	27	88	0	77	17	30	25	26	1.97
5372751--5372813	26	2.4	27	97	2	119	47	0	11	41	1.39
5372961--5373008	24	2.0	24	100	0	96	45	8	4	41	1.53
5380487--5380537	26	2.0	26	92	3	86	33	21	21	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5380879--5380950	32	2.3	31	85	9	92	19	37	22	20	1.94
5389491--5389524	17	2.0	17	88	0	50	55	14	5	23	1.61
5394590--5394657	25	2.7	25	72	4	66	26	20	30	22	1.98
5394764--5394847	25	3.4	25	81	0	96	34	21	27	16	1.95
5395114--5395233	61	2.0	61	98	0	231	28	20	8	42	1.81
5400840--5400894	25	2.2	25	81	12	60	49	3	3	43	1.37
5400899--5400933	17	2.0	18	94	5	63	51	5	0	42	1.25
5410026--5410086	27	2.3	27	80	5	70	49	6	0	44	1.28
5416987--5417020	16	2.1	16	94	0	59	70	2	11	14	1.27
5418824--5418919	40	2.4	39	86	8	124	32	6	19	41	1.77
5418834--5418912	21	3.8	20	70	20	56	31	5	20	43	1.73
5419218--5419262	6	7.3	6	80	5	54	22	20	13	44	1.85
5419134--5419238	45	2.3	45	80	3	131	22	16	16	44	1.86
5432176--5432267	22	4.0	22	79	12	96	43	18	21	16	1.88
5432222--5432280	25	2.4	25	91	0	91	40	18	23	16	1.91
5449366--5449395	7	4.3	7	100	0	60	43	0	0	56	0.99
5449481--5449549	28	2.4	29	78	4	77	50	8	15	24	1.72
5449645--5449699	26	2.1	26	86	10	76	38	1	10	49	1.49
5453019--5453058	20	2.1	19	85	4	53	20	2	12	65	1.38
5457990--5458037	11	4.4	11	75	0	51	20	6	8	64	1.43
5459690--5459747	18	3.2	18	82	7	64	44	0	1	53	1.10
5463265--5463309	22	2.0	22	95	0	81	44	8	28	17	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5464754--5464785	12	2.7	12	90	0	55	34	15	50	0	1.45
5465530--5465560	9	3.4	9	90	0	53	25	12	22	38	1.90
5465614--5465641	9	3.1	9	100	0	56	46	10	10	32	1.73
5466995--5467218	43	5.3	43	86	1	290	26	29	19	24	1.98
5466995--5467216	85	2.6	85	85	2	302	26	30	19	23	1.98
5467433--5467458	9	2.9	9	100	0	52	30	11	11	46	1.76
5469474--5470097	282	2.2	276	87	4	838	41	19	17	22	1.91
5471574--5471628	21	2.5	22	76	2	67	38	36	0	25	1.56
5471691--5471720	7	4.3	7	100	0	60	26	60	0	13	1.34
5472259--5472414	41	3.8	41	88	0	240	30	24	20	25	1.99
5472470--5472583	40	2.9	39	86	3	149	21	22	22	32	1.98
5475703--5476687	44	22.4	44	65	9	308	26	23	18	30	1.98
5475611--5476767	132	8.8	132	94	0	1938	26	23	18	30	1.98
5475611--5476767	527	2.2	528	94	0	2001	26	23	18	30	1.98
5476784--5477027	89	2.8	88	83	4	301	29	24	14	32	1.94
5476757--5477027	44	6.1	44	72	8	199	28	25	13	32	1.94
5478206--5478236	14	2.3	13	94	5	53	12	16	0	70	1.16
5478206--5478253	16	3.2	16	85	8	57	12	18	2	66	1.33
5480640--5480682	3	14.3	3	90	0	68	32	4	0	62	1.15
5480952--5481003	26	2.0	27	85	10	74	19	5	11	63	1.47
5481126--5481434	109	2.8	107	87	6	460	30	16	19	33	1.94
5483444--5483482	19	2.0	20	85	5	53	46	7	20	25	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5486648--5486686	14	2.8	14	88	11	62	30	20	10	38	1.86
5487079--5487126	15	3.3	14	85	8	60	14	0	20	64	1.28
5487079--5487127	14	3.3	15	88	5	64	14	0	20	65	1.27
5487837--5487896	29	2.0	31	87	6	88	30	11	13	45	1.79
5491935--5491999	24	2.7	24	82	2	85	0	29	0	70	0.87
5491946--5492015	29	2.4	30	84	13	101	0	25	1	72	0.92
5492383--5492500	28	4.1	28	81	4	119	47	3	15	33	1.62
5492402--5492500	29	3.4	28	84	8	119	47	3	15	34	1.61
5492503--5492543	14	2.7	15	88	7	57	26	4	2	65	1.25
5504275--5504312	19	2.0	20	84	5	51	57	13	2	26	1.49
5506727--5506956	114	2.0	114	96	0	424	39	18	20	21	1.93
5517373--5518441	516	2.1	505	87	4	1520	38	18	14	27	1.90
5518372--5518580	70	3.0	70	90	2	314	41	13	16	27	1.87
5521142--5521185	21	2.1	21	91	0	70	29	36	11	22	1.89
5522856--5522916	32	1.9	31	87	9	88	45	6	6	40	1.56
5524363--5524406	18	2.4	18	82	17	56	22	0	4	72	1.02
5524370--5524404	17	1.9	19	88	11	56	22	0	5	71	1.07
5525530--5525615	25	3.3	27	73	12	81	30	6	27	34	1.83
5532172--5532217	3	15.3	3	81	0	56	30	34	0	34	1.58
5535483--5535507	13	1.9	13	100	0	50	80	0	12	8	0.92
5538529--5538681	43	3.6	43	85	0	200	30	16	25	26	1.97
5542200--5542319	43	2.8	42	85	7	127	30	25	17	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5542216--5542319	43	2.4	43	88	1	145	31	24	17	26	1.97
5542438--5542565	31	4.1	31	87	4	177	44	17	9	28	1.80
5544106--5544177	26	2.8	24	74	12	72	38	22	23	15	1.92
5544114--5544177	26	2.5	25	79	2	74	40	21	23	14	1.90
5553114--5553189	26	2.9	27	80	7	68	35	21	21	22	1.96
5555478--5555502	11	2.3	11	100	0	50	52	0	20	28	1.47
5556188--5556294	23	4.9	23	80	10	75	18	21	25	34	1.96
5556235--5556297	21	3.0	21	88	2	92	15	23	26	33	1.95
5556210--5556297	44	2.1	41	83	10	106	17	22	25	35	1.95
5558797--5558821	13	1.9	13	100	0	50	36	16	0	48	1.46

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