genome.fa.s25.2.7.7.80.10.50.1000.23.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: D12
Parameters: 2 7 7 80 10 50 1000
Length:  63843421

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   
          209   210   211   212   213   214   

This is table  23  of  214  ( 25680 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)
6457517--6457594	13	6.3	13	73	19	60	28	7	1	62	1.30
6457516--6457566	23	2.3	23	82	3	68	29	5	1	62	1.29
6457780--6457809	16	1.9	15	93	6	51	20	6	3	70	1.25
6461331--6461365	6	5.7	6	89	3	52	0	11	2	85	0.69
6461328--6461365	12	3.1	12	88	3	58	0	10	2	86	0.66
6463149--6463190	9	4.9	9	88	11	70	57	9	0	33	1.31
6463156--6463193	16	2.4	16	95	0	67	55	10	0	34	1.34
6470033--6470135	44	2.3	44	81	0	134	34	17	23	24	1.96
6471443--6471509	31	2.2	28	80	12	71	13	10	1	74	1.14
6472664--6472716	27	2.0	27	96	0	97	18	13	35	32	1.90
6472975--6473066	45	2.0	45	100	0	184	30	8	15	45	1.76
6479073--6479118	18	2.6	18	96	0	83	26	4	2	67	1.21
6479093--6479138	23	2.0	23	86	0	65	21	2	6	69	1.22
6483026--6483092	6	11.3	6	85	6	59	17	1	11	68	1.27
6484692--6484738	23	2.1	23	88	4	69	17	29	21	31	1.96
6487942--6488030	30	3.0	30	91	0	142	20	33	30	15	1.94
6498148--6498174	14	1.9	14	100	0	54	51	0	14	33	1.43
6499695--6499728	14	2.5	14	95	4	61	14	0	35	50	1.44
6509020--6509053	9	3.4	10	88	12	52	73	0	2	23	0.97
6509023--6509078	27	2.1	27	86	0	76	64	1	1	32	1.14
6509901--6509960	19	3.0	20	85	9	79	31	5	0	63	1.16
6509901--6509960	10	6.0	10	82	7	68	31	5	0	63	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6513262--6513317	27	2.1	26	83	9	69	28	26	10	33	1.90
6514266--6514393	61	2.1	61	100	0	256	35	22	3	39	1.70
6517443--6517486	22	2.0	22	81	0	52	38	9	18	34	1.82
6520870--6520912	12	3.6	12	93	0	77	32	32	25	9	1.88
6520870--6520918	24	2.0	24	96	0	89	30	28	28	12	1.93
6527436--6527484	20	2.4	22	83	12	61	36	10	4	48	1.56
6530011--6530043	17	1.9	17	88	11	50	39	0	12	48	1.40
6530024--6530065	13	3.3	13	86	3	50	45	0	7	47	1.30
6530033--6530067	13	2.7	13	90	0	52	48	0	2	48	1.16
6531458--6531491	15	2.2	16	89	5	52	67	5	0	26	1.13
6533632--6533681	19	2.6	19	84	12	66	72	4	14	10	1.26
6540278--6540336	27	2.2	27	87	0	91	37	15	22	25	1.93
6540386--6540452	27	2.4	28	73	14	68	31	14	26	26	1.95
6542517--6542542	11	2.4	11	100	0	52	50	7	42	0	1.31
6543198--6543233	3	12.0	3	87	0	54	36	0	2	61	1.11
6549496--6549528	10	3.3	10	100	0	66	72	0	9	18	1.10
6549568--6549595	11	2.5	11	100	0	56	50	10	39	0	1.37
6550622--6550713	39	2.4	39	82	7	109	21	22	27	28	1.99
6556014--6556580	126	4.5	125	83	2	645	30	15	22	30	1.95
6556012--6556580	251	2.3	251	84	2	714	30	15	22	30	1.95
6559721--6560967	21	57.8	21	80	7	1176	25	1	29	44	1.61
6559726--6559792	29	2.3	29	87	7	93	26	1	34	37	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6559754--6560968	22	56.5	22	80	9	981	25	1	29	44	1.61
6559721--6560967	43	28.9	42	81	6	1176	25	1	29	44	1.61
6560037--6560135	7	14.3	7	68	17	55	24	1	29	45	1.60
6561250--6561312	21	3.0	21	85	0	81	6	23	36	33	1.80
6561569--6561611	18	2.4	18	84	0	59	46	9	27	16	1.77
6562379--6562416	20	1.9	20	84	10	51	55	7	2	34	1.43
6569804--6569855	26	2.0	26	96	0	95	28	34	23	13	1.92
6569782--6570141	104	3.5	103	91	2	580	31	30	19	19	1.96
6570475--6570532	30	1.9	30	82	0	71	31	22	6	39	1.80
6576085--6576129	15	3.0	15	93	0	72	37	26	0	35	1.57
6576085--6576129	5	9.0	5	85	0	63	37	26	0	35	1.57
6577394--6577738	37	9.2	36	80	8	336	31	14	15	38	1.88
6577385--6577738	75	4.7	75	87	0	458	31	14	15	37	1.88
6577398--6577738	112	3.0	110	81	7	353	31	14	15	37	1.88
6581526--6581642	62	1.9	59	86	5	162	42	3	3	50	1.36
6581589--6581647	17	3.6	17	73	15	52	49	3	0	47	1.18
6584983--6585082	45	2.2	45	90	0	155	35	20	17	28	1.94
6585661--6585717	25	2.2	25	81	9	62	63	3	3	29	1.28
6585700--6585754	17	3.1	18	74	12	51	61	1	1	34	1.17
6586523--6586562	21	1.9	21	100	0	80	57	0	0	42	0.98
6586551--6586611	11	5.9	11	71	21	51	59	0	1	39	1.08
6586536--6586616	40	2.0	41	95	2	146	61	0	1	37	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6593791--6593823	11	3.0	11	91	8	50	57	0	0	42	0.98
6593768--6593879	22	5.1	21	69	23	79	54	0	0	43	1.12
6593786--6593902	55	2.1	55	84	7	148	53	2	0	43	1.14
6593786--6593918	55	2.4	56	81	10	132	54	3	0	42	1.16
6594202--6594362	77	2.1	76	96	1	295	42	9	6	40	1.63
6609287--6609333	21	2.2	21	85	7	60	42	0	0	57	0.98
6609516--6609580	31	2.2	31	83	5	80	43	10	9	36	1.72
6609620--6609663	20	2.1	21	83	4	54	43	6	2	47	1.42
6612434--6612466	16	2.1	16	100	0	66	24	24	6	45	1.75
6629827--6629864	10	3.6	11	86	6	53	0	18	0	81	0.69
6629828--6629870	14	3.1	13	83	12	50	0	18	0	81	0.69
6632192--6632221	12	2.5	12	94	0	51	36	10	0	53	1.35
6637280--6637312	12	2.8	12	95	0	57	36	9	0	54	1.32
6637725--6637749	6	4.2	6	100	0	50	48	0	0	52	1.00
6637751--6637775	6	4.2	6	100	0	50	52	0	0	48	1.00
6638006--6638069	29	2.2	29	82	2	74	39	10	18	31	1.86
6638703--6638728	13	2.0	13	100	0	52	30	7	38	23	1.83
6639515--6639549	18	1.9	18	88	0	52	5	48	0	45	1.26
6644413--6644444	14	2.1	16	88	11	50	46	0	0	53	1.00
6644922--6644992	21	3.4	21	68	14	65	30	0	22	46	1.52
6645037--6645142	34	3.2	33	82	5	133	33	0	15	50	1.44
6647032--6647551	126	4.1	127	89	1	755	37	17	16	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6647712--6647773	28	2.2	28	91	0	97	37	14	14	33	1.87
6650131--6650168	20	1.9	20	100	0	76	36	18	15	28	1.92
6651053--6651096	18	2.4	18	80	0	52	40	9	27	22	1.84
6652830--6652898	30	2.3	30	89	0	111	37	1	27	33	1.66
6653950--6654011	20	3.2	20	63	9	56	29	6	12	51	1.65
6653938--6654013	38	2.0	38	100	0	152	26	7	10	55	1.61
6668243--6668388	49	3.0	49	88	3	222	31	29	14	24	1.94
6669314--6669422	37	3.0	37	91	2	168	25	22	15	36	1.93
6669386--6669594	52	4.1	52	84	10	279	27	22	13	35	1.93
6669386--6669697	98	3.3	98	88	8	489	27	24	14	33	1.94
6669562--6669635	37	2.0	37	97	0	139	29	28	13	28	1.94
6669510--6669683	89	2.0	89	96	0	321	28	25	14	31	1.95
6672920--6672953	17	2.0	17	88	0	50	50	11	20	17	1.77
6673888--6674007	41	2.9	41	87	0	150	27	20	25	27	1.99
6674361--6674435	25	3.2	25	78	18	106	30	8	16	45	1.75
6674346--6674435	45	2.0	45	97	0	171	33	7	15	43	1.76
6674346--6674414	20	3.2	20	75	18	75	36	7	14	42	1.73
6678727--6678800	37	2.0	37	100	0	148	35	18	21	24	1.96
6680120--6680147	14	2.0	14	100	0	56	64	7	7	21	1.43
6685756--6685803	17	2.8	17	93	0	78	60	6	14	18	1.55
6692276--6692352	38	2.0	38	89	0	118	25	12	10	50	1.72
6694270--6694306	17	2.1	18	95	5	67	10	13	24	51	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6705112--6705333	77	2.9	76	80	11	245	15	16	17	50	1.78
6707571--6707604	4	8.0	4	90	9	50	23	0	2	73	0.97
6707554--6707613	22	2.7	22	73	19	61	26	0	6	66	1.16
6709943--6709981	18	2.2	18	85	0	51	61	2	23	12	1.43
6711341--6711374	17	2.0	17	88	11	52	35	11	26	26	1.91
6711381--6711414	4	8.0	4	90	9	50	23	0	2	73	0.97
6711364--6711423	22	2.7	22	73	19	61	26	0	6	66	1.16
6723576--6723635	30	2.0	30	96	0	111	43	5	6	45	1.52
6723677--6723738	28	2.1	27	82	11	70	29	12	8	50	1.69
6728221--6728246	2	13.0	2	100	0	52	50	0	0	50	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   
          209   210   211   212   213   214