genome.fa.s26.2.7.7.80.10.50.1000.16.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: D13
Parameters: 2 7 7 80 10 50 1000
Length:  64892201

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   215   216   217   218   219   220   221   

This is table  16  of  221  ( 26413 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)
4871924--4871973	3	16.3	3	88	12	75	68	0	0	32	0.90
4872881--4872920	14	2.6	16	80	15	57	10	20	27	42	1.83
4873674--4873807	60	2.2	60	84	4	180	38	6	16	38	1.75
4882319--4882349	12	2.6	12	89	0	53	29	0	0	70	0.87
4885061--4885124	34	2.0	32	82	14	78	40	6	4	48	1.49
4896731--4896760	10	3.0	10	90	0	51	30	3	10	56	1.48
4906383--4906436	19	3.1	18	76	10	58	48	0	5	46	1.25
4907703--4908013	55	5.7	54	77	7	207	31	18	8	41	1.80
4907649--4908013	55	6.7	54	75	6	204	30	18	9	41	1.82
4910788--4911090	54	5.6	54	77	0	237	27	20	14	37	1.91
4911077--4911103	13	2.1	13	100	0	54	18	29	14	37	1.91
4911096--4911285	54	3.5	54	76	10	192	30	20	11	37	1.88
4910972--4911201	121	1.9	121	80	5	268	29	19	13	37	1.90
4911236--4911741	55	9.3	55	74	7	300	29	18	11	40	1.85
4912752--4912798	21	2.2	21	96	0	85	34	4	21	40	1.73
4916220--4916273	27	1.9	28	81	7	65	37	0	0	62	0.95
4918111--4918251	54	2.6	54	87	2	192	28	20	21	29	1.98
4924210--4924250	22	1.9	22	85	5	57	7	12	12	68	1.39
4925631--4925676	24	2.0	24	83	8	60	60	0	4	34	1.16
4926942--4927037	31	3.1	31	92	3	165	30	10	13	45	1.77
4927340--4927369	15	2.0	15	100	0	60	26	0	0	73	0.84
4932526--4932621	31	3.1	31	92	7	167	31	8	13	46	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4946189--4946367	36	4.7	36	81	13	223	29	21	11	37	1.89
4946261--4946415	46	3.6	46	75	16	186	28	21	12	36	1.91
4946225--4946415	82	2.3	82	93	0	319	29	21	12	37	1.89
4946146--4946367	118	1.9	115	93	2	381	29	21	12	36	1.90
4946307--4946379	36	2.0	36	89	0	110	26	20	15	38	1.92
4950447--4950554	44	2.4	44	87	3	144	29	23	13	33	1.93
4951490--4951523	9	3.9	9	84	7	52	2	17	0	79	0.86
4951490--4951523	17	2.0	17	94	0	59	2	17	0	79	0.86
4951532--4951604	5	14.6	5	76	20	64	54	4	1	39	1.28
4951533--4951575	19	2.3	19	92	8	70	55	0	2	41	1.12
4951539--4951603	24	2.7	24	80	9	69	56	4	1	36	1.29
4956127--4956166	21	1.9	21	89	0	62	32	22	30	15	1.94
4958876--4958900	13	1.9	13	100	0	50	64	12	0	24	1.27
4968834--4969557	359	2.0	359	99	0	1421	30	9	21	39	1.84
4970436--4970496	30	2.1	30	81	9	72	34	1	1	62	1.15
4971998--4972032	15	2.3	16	85	14	56	28	0	0	71	0.86
4972154--4972216	20	3.2	20	74	14	69	49	0	1	49	1.10
4972169--4972223	29	2.0	27	82	13	67	45	0	1	52	1.11
4979870--4979920	14	3.6	14	84	5	75	52	11	0	35	1.38
4979861--4979940	15	5.5	15	79	5	92	53	10	0	36	1.34
4979861--4979935	29	2.6	29	95	0	141	53	10	0	36	1.36
4986978--4987058	31	2.5	33	84	9	105	56	4	1	37	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4987069--4987150	9	8.8	9	71	17	51	30	2	1	65	1.13
4990580--4990666	3	28.3	3	77	17	81	33	3	2	60	1.26
5003552--5003621	28	2.5	28	93	4	115	38	10	1	50	1.45
5003671--5003749	27	2.9	27	88	7	108	27	25	29	17	1.98
5003798--5003935	10	13.1	10	67	17	57	68	0	31	0	0.95
5003817--5003908	5	19.0	5	72	9	50	65	0	33	1	1.00
5003804--5003963	38	4.4	36	80	11	152	66	0	32	1	1.00
5003797--5003934	21	6.4	22	69	21	71	67	0	31	0	0.96
5004628--5004678	19	2.7	19	87	0	66	27	0	9	62	1.26
5004711--5004781	28	2.6	26	81	14	90	45	9	1	43	1.46
5007357--5007514	61	2.6	63	76	18	158	53	10	0	36	1.35
5007785--5007863	27	2.9	26	88	7	113	15	30	27	26	1.96
5007909--5007978	28	2.5	29	90	6	110	48	1	10	40	1.45
5022009--5022248	110	2.2	108	86	7	342	29	18	15	36	1.92
5022047--5022243	109	1.8	109	92	3	281	31	16	14	37	1.89
5028205--5028267	22	2.9	22	87	0	99	12	11	50	25	1.73
5030257--5030350	25	3.9	23	73	17	75	35	6	5	53	1.49
5030257--5030358	23	4.2	26	77	9	76	34	5	5	53	1.49
5030720--5030797	20	3.6	22	81	10	81	33	5	6	55	1.48
5032663--5032687	13	1.9	13	100	0	50	56	8	0	36	1.29
5033214--5033255	11	3.9	11	75	6	50	66	0	33	0	0.92
5034533--5034968	75	5.8	74	85	4	565	32	19	16	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5034962--5035678	73	9.3	73	72	16	317	34	19	17	29	1.95
5034798--5035412	158	3.9	159	82	8	694	33	20	16	29	1.95
5034513--5035679	77	15.1	76	75	13	743	33	19	16	29	1.94
5035344--5036794	166	8.9	165	82	8	1515	32	19	18	29	1.96
5035582--5035770	91	2.1	91	87	0	270	35	16	20	26	1.94
5035673--5035850	77	2.3	79	85	3	234	33	17	19	29	1.95
5035854--5036853	74	12.7	75	71	16	442	31	21	18	29	1.96
5036020--5036622	73	7.9	72	74	11	463	32	20	17	30	1.95
5036158--5036870	156	4.5	159	81	8	792	32	20	17	29	1.95
5036478--5036645	76	2.2	75	90	3	264	33	18	16	30	1.93
5036548--5036716	93	1.8	91	87	2	248	31	20	19	28	1.97
5036649--5036853	78	2.7	77	88	5	292	30	25	18	26	1.98
5040983--5041018	13	2.8	14	84	16	51	27	25	0	47	1.52
5040970--5041010	18	2.2	19	87	12	59	29	24	0	46	1.53
5041172--5041258	21	4.0	23	79	10	92	37	25	21	14	1.92
5041172--5041259	44	2.0	42	82	4	104	37	25	21	15	1.93
5041633--5041687	15	3.7	15	92	2	85	52	12	0	34	1.40
5042443--5042470	13	2.2	13	100	0	56	0	14	7	78	0.95
5048288--5048354	27	2.4	28	78	14	68	59	1	8	29	1.37
5048386--5048411	3	8.7	3	100	0	52	65	0	0	34	0.93
5048447--5048533	25	3.3	26	76	14	74	58	6	3	31	1.41
5048440--5048518	28	2.8	29	75	11	83	58	7	3	30	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5049489--5049525	16	2.4	16	83	16	51	5	2	10	81	0.96
5050608--5050641	12	2.7	13	86	9	52	38	0	0	61	0.96
5050614--5050672	27	2.1	28	81	3	66	35	0	3	61	1.13
5054320--5054350	1	31.0	1	93	0	53	3	0	0	96	0.21
5054321--5054374	16	3.4	16	76	0	54	18	0	0	81	0.69
5067491--5067913	35	12.3	34	69	14	187	46	11	13	28	1.78
5067491--5067913	17	24.6	17	69	14	165	46	11	13	28	1.78
5067776--5067887	56	2.0	57	85	1	154	50	10	13	25	1.74
5067996--5068047	26	2.1	23	83	16	68	44	17	15	23	1.86
5067997--5068047	24	2.0	24	88	11	75	45	17	13	23	1.84
5067990--5068065	17	3.8	19	72	27	61	40	14	14	30	1.86
5068022--5068077	17	3.2	17	80	12	69	42	10	14	32	1.80
5068917--5068961	12	3.8	12	83	13	58	0	24	0	75	0.80
5068917--5068967	23	2.3	22	83	12	68	0	25	0	74	0.82
5068903--5068961	29	2.1	28	84	9	75	0	22	0	77	0.76
5069498--5069647	29	5.1	28	73	13	115	40	5	23	31	1.77
5069551--5069647	29	3.3	29	81	9	117	38	5	25	30	1.78
5070147--5070180	17	2.0	17	88	0	50	35	0	0	64	0.94
5070164--5070272	11	10.4	11	70	22	74	36	2	0	60	1.11
5070146--5070273	40	3.2	40	89	3	211	35	2	0	62	1.08
5072296--5072549	123	2.1	123	86	3	350	29	15	23	31	1.95
5075220--5075258	16	2.4	16	95	0	69	15	30	17	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5075740--5076602	28	32.5	28	75	18	618	29	0	21	48	1.51
5075829--5075871	23	2.0	21	86	13	61	25	0	25	48	1.51
5076002--5076082	22	3.8	20	98	1	108	24	0	24	50	1.49
5076214--5076277	18	3.2	18	76	20	65	29	0	18	51	1.47
5075740--5076552	51	15.9	52	80	15	564	29	0	21	48	1.50
5076284--5076602	81	3.8	87	80	15	354	29	0	22	48	1.51
5076546--5076634	23	3.8	23	81	8	117	28	0	25	46	1.53
5076588--5076622	17	2.0	18	88	5	54	31	0	20	48	1.50
5075987--5076520	100	5.2	108	75	20	260	29	0	21	48	1.50
5078755--5078801	22	2.2	22	85	7	62	55	4	0	40	1.19

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   215   216   217   218   219   220   221