genome.fa.s14.2.7.7.80.10.50.1000.19.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: D01
Parameters: 2 7 7 80 10 50 1000
Length:  64473564

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   

This is table  19  of  213  ( 25468 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)
5230671--5231127	40	11.0	40	80	10	465	32	22	21	22	1.98
5230667--5231126	84	5.5	83	89	6	569	33	22	21	22	1.98
5230717--5231126	127	3.3	124	89	5	526	32	22	22	22	1.98
5231423--5231459	11	3.5	11	88	3	58	64	21	0	13	1.27
5237136--5237215	41	1.9	42	97	2	137	53	5	6	35	1.48
5238232--5238276	17	2.7	16	80	10	54	51	0	0	48	1.00
5240444--5240485	3	14.3	3	95	5	77	69	0	0	30	0.89
5242571--5242603	14	2.5	14	90	9	52	33	21	3	42	1.68
5243023--5243069	24	2.0	24	84	16	62	51	14	2	31	1.55
5243783--5243821	13	2.9	13	84	3	51	25	0	2	71	0.98
5244601--5244652	11	3.9	13	78	19	54	21	1	3	73	1.10
5244720--5244768	16	3.1	16	75	21	50	22	6	0	71	1.08
5245095--5245238	72	2.0	72	89	2	218	29	18	17	35	1.93
5246259--5246307	5	9.8	5	100	0	98	59	0	0	40	0.98
5255544--5255568	13	1.9	13	100	0	50	64	8	8	20	1.46
5263436--5263602	9	17.6	9	65	16	54	58	4	2	34	1.32
5263443--5263480	19	2.1	18	85	14	51	63	0	0	36	0.95
5264083--5264304	10	23.8	9	67	17	89	35	2	3	59	1.26
5264083--5264304	19	11.9	18	66	17	89	35	2	3	59	1.26
5264148--5264182	18	1.9	18	88	11	54	25	0	2	71	1.00
5264173--5264293	19	6.7	18	71	19	92	36	1	3	58	1.24
5274186--5274252	27	2.5	27	97	0	125	31	23	32	11	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5274251--5274381	19	6.6	19	65	22	72	33	0	11	54	1.36
5274352--5274435	27	3.1	27	96	0	150	35	0	11	52	1.38
5274321--5274435	19	6.1	19	71	18	89	33	0	12	53	1.38
5274476--5274597	60	2.0	60	85	6	167	31	0	13	53	1.46
5274630--5274711	38	2.2	38	97	0	155	54	3	2	39	1.31
5274744--5274788	15	2.9	15	83	6	63	40	2	2	55	1.24
5274857--5274919	21	3.0	21	80	2	72	58	12	0	28	1.35
5274989--5275055	27	2.5	27	95	0	116	14	31	20	32	1.93
5275098--5275141	10	4.3	11	80	16	58	70	0	0	29	0.88
5279162--5279236	31	2.5	29	77	12	80	65	2	5	26	1.27
5280940--5281236	95	3.1	95	94	1	522	29	22	19	28	1.98
5281255--5282093	44	19.1	43	76	8	769	30	25	16	27	1.96
5281250--5282093	132	6.4	132	94	0	1395	29	26	16	27	1.96
5281250--5282093	263	3.2	263	93	0	1384	29	26	16	27	1.96
5282101--5282755	136	4.8	136	93	1	1068	29	23	20	26	1.99
5282101--5282755	270	2.4	270	93	1	1098	29	23	20	26	1.99
5282778--5282912	42	3.2	41	63	19	96	24	22	25	27	2.00
5282703--5282965	86	3.0	86	90	0	409	26	23	22	26	2.00
5287092--5287135	19	2.3	20	84	7	56	40	11	20	27	1.86
5291024--5291320	95	3.1	95	94	1	522	29	22	19	28	1.98
5291339--5292177	44	19.1	43	76	8	769	30	25	16	27	1.97
5291334--5292177	132	6.4	132	94	0	1411	29	26	16	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5291334--5292177	395	2.1	396	92	0	1411	29	26	16	27	1.97
5292185--5292839	136	4.8	136	93	1	1068	29	23	20	26	1.99
5292185--5292839	270	2.4	270	93	1	1098	29	23	20	26	1.99
5292862--5292996	42	3.2	41	63	19	96	24	22	25	27	2.00
5292787--5293049	86	3.0	86	90	0	409	26	23	22	26	2.00
5297176--5297219	19	2.3	20	84	7	56	40	11	20	27	1.86
5299352--5299426	31	2.5	29	77	12	80	65	2	5	26	1.27
5301455--5301514	30	2.0	30	93	0	102	36	26	6	30	1.82
5302505--5302557	21	2.5	21	75	9	54	18	16	43	20	1.88
5311714--5311847	63	2.1	63	83	2	162	29	20	26	23	1.99
5314823--5314873	17	3.0	17	77	11	59	56	0	1	41	1.10
5314994--5315033	21	1.9	21	84	0	53	20	5	10	65	1.42
5316061--5316090	5	6.0	5	100	0	60	40	0	20	40	1.52
5317444--5317506	19	3.3	19	78	8	83	47	3	0	49	1.17
5317448--5317524	38	2.0	38	89	2	118	45	2	0	51	1.14
5318685--5318715	14	2.3	13	94	5	53	0	22	0	77	0.77
5318676--5318713	20	2.0	20	89	5	60	0	18	2	78	0.86
5331455--5331526	9	7.6	9	76	11	63	69	2	0	27	1.02
5331462--5331570	10	10.8	10	74	13	80	60	3	0	35	1.14
5331450--5331525	29	2.6	29	82	12	93	67	3	1	27	1.17
5331455--5331557	20	5.3	19	77	9	100	65	2	0	32	1.08
5333330--5333375	13	3.5	14	85	8	53	30	0	0	69	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5334936--5334962	6	4.5	6	100	0	54	85	0	0	14	0.61
5337148--5337255	51	2.1	51	80	0	117	39	9	16	34	1.81
5338719--5339396	114	6.0	113	86	3	873	23	21	26	28	1.99
5338719--5339395	342	2.0	339	88	1	1005	23	22	26	28	1.99
5339630--5339663	14	2.3	15	90	5	52	35	0	29	35	1.58
5339703--5339753	7	7.6	7	82	8	70	19	0	49	31	1.49
5339703--5339769	21	3.3	20	77	12	57	22	0	46	31	1.52
5339853--5339975	7	17.6	7	92	0	183	18	0	51	29	1.52
5339909--5340113	103	2.0	105	84	1	270	25	1	33	39	1.65
5340162--5340215	21	2.6	21	72	21	51	50	1	5	42	1.36
5340205--5340238	8	4.2	8	89	10	52	55	0	8	35	1.31
5340210--5340239	9	3.4	9	90	9	53	60	0	10	30	1.30
5340218--5340260	20	2.2	19	87	4	59	62	4	6	25	1.40
5340205--5340252	17	2.6	19	87	12	66	54	2	8	35	1.42
5340255--5340296	18	2.3	18	88	8	59	83	0	2	14	0.75
5340293--5340389	47	2.1	47	86	0	131	44	8	2	45	1.45
5342310--5342361	7	7.3	7	82	4	68	3	11	11	73	1.23
5342308--5342361	21	2.5	22	90	3	92	5	11	11	72	1.28
5342949--5343098	53	2.8	53	89	0	237	39	11	4	44	1.61
5342932--5343089	13	12.0	13	70	10	88	39	10	5	43	1.63
5343230--5343333	9	11.8	9	75	8	106	45	22	2	29	1.67
5343411--5343527	30	3.9	29	80	7	119	30	21	3	44	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5343774--5343823	10	5.2	10	80	7	59	70	0	30	0	0.88
5343777--5343819	19	2.3	19	88	11	63	69	0	30	0	0.88
5343879--5343924	3	15.0	3	82	13	58	63	0	36	0	0.95
5343882--5343910	10	2.9	10	100	0	58	62	0	37	0	0.96
5343879--5343924	13	3.7	13	81	18	62	63	0	36	0	0.95
5344199--5344274	24	3.3	22	76	15	82	81	0	18	0	0.69
5344215--5344264	7	6.9	7	88	6	73	84	0	16	0	0.63
5344211--5344275	8	8.4	8	83	16	75	81	0	18	0	0.69
5344211--5344273	15	4.1	15	87	8	92	82	0	17	0	0.67
5344199--5344276	32	2.3	35	83	14	103	79	0	20	0	0.73
5344812--5344867	18	3.1	19	79	5	62	33	10	14	41	1.80
5344812--5344885	37	2.0	37	84	5	96	33	12	12	41	1.79
5344931--5344991	16	3.6	16	72	14	52	36	11	8	44	1.71
5344812--5345248	17	24.5	18	69	16	139	33	11	10	44	1.75
5345003--5345051	24	2.1	24	88	3	73	53	6	8	32	1.55
5345096--5345133	18	2.2	18	86	9	53	47	5	7	39	1.55
5345186--5345257	17	4.3	16	76	15	65	34	12	9	43	1.76
5345221--5345259	18	2.2	18	85	0	51	41	12	7	38	1.72
5356466--5356508	22	2.0	22	90	4	70	16	2	30	51	1.57
5356473--5356519	21	2.2	22	85	11	62	19	4	29	46	1.68
5356603--5356661	21	2.8	21	84	0	73	18	3	32	45	1.66
5357008--5357050	22	2.0	22	90	4	70	34	0	9	55	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5358643--5358686	18	2.4	18	88	0	61	13	2	43	40	1.57
5358966--5359016	25	2.0	25	96	0	93	35	17	3	43	1.68
5359710--5359803	43	2.2	44	86	5	129	31	19	25	23	1.98
5360813--5360860	1	48.0	1	82	0	60	6	0	2	91	0.48
5360813--5360864	16	3.2	16	94	2	86	7	0	1	90	0.53
5360813--5360864	17	2.9	18	88	8	79	7	0	1	90	0.53
5361253--5361299	20	2.3	21	82	13	62	31	6	8	53	1.57
5361279--5361350	16	4.3	16	75	16	65	43	9	12	34	1.76
5361406--5361457	18	3.1	16	78	15	52	44	7	3	44	1.51
5361462--5361720	17	14.5	17	71	13	121	45	10	13	30	1.77

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