genome.fa.s7.2.7.7.80.10.50.1000.145.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: At_chr3
Parameters: 2 7 7 80 10 50 1000
Length:  100348136

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   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   

This is table  145  of  290  ( 34714 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)
49386944--49387042	27	3.6	27	70	20	96	13	14	21	51	1.75
49389114--49389171	26	2.2	26	96	0	107	34	12	10	43	1.76
49389509--49389548	20	2.0	20	90	0	62	50	12	10	27	1.72
49389497--49389563	34	1.9	35	87	3	100	46	11	8	32	1.72
49395442--49395483	11	3.2	13	80	19	52	50	0	0	50	1.00
49395442--49395494	26	2.1	24	86	10	70	50	1	1	45	1.23
49396161--49396302	42	3.3	43	88	5	209	33	23	19	24	1.97
49397005--49397035	14	2.2	14	94	0	53	38	9	19	32	1.84
49397446--49397544	27	3.6	27	70	20	96	13	14	21	51	1.75
49399612--49399669	26	2.2	26	96	0	107	34	12	10	43	1.76
49399991--49400067	14	5.0	15	71	20	52	42	15	9	32	1.78
49400007--49400046	20	2.0	20	90	0	62	50	12	10	27	1.72
49399995--49400061	34	1.9	35	90	3	109	46	13	8	31	1.74
49400030--49400069	14	2.9	14	84	0	53	42	17	7	32	1.77
49401797--49401868	21	3.4	21	71	7	74	13	19	18	48	1.81
49401776--49401894	42	2.9	42	82	3	143	13	21	17	47	1.82
49402910--49402952	19	2.3	19	84	4	61	41	0	18	39	1.51
49409919--49409951	15	2.3	15	89	5	50	48	6	18	27	1.71
49415103--49415149	19	2.5	19	82	0	58	51	14	21	12	1.76
49425309--49425357	22	2.2	23	85	3	64	38	2	4	55	1.31
49446376--49446451	30	2.5	31	80	6	82	48	3	11	35	1.58
49448214--49448413	87	2.3	85	82	7	228	25	23	22	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49448213--49448425	44	5.0	44	76	6	188	23	23	22	30	1.99
49448436--49449032	86	6.9	86	90	0	953	24	24	21	29	1.99
49448494--49448715	43	5.2	43	64	16	127	23	22	23	29	1.99
49450243--49450287	7	6.9	7	82	12	60	13	17	0	68	1.20
49450246--49450292	13	3.8	13	83	10	55	10	17	0	72	1.12
49450213--49450395	97	1.9	95	80	9	210	8	24	9	57	1.58
49454637--49454713	37	2.1	37	80	4	84	64	2	3	28	1.24
49458211--49458246	18	2.1	16	90	10	54	30	5	2	61	1.33
49467594--49467630	19	1.9	19	88	0	56	43	5	0	51	1.24
49468803--49468838	18	1.9	19	94	5	65	63	0	2	33	1.08
49471517--49471553	10	3.6	10	88	3	56	70	0	29	0	0.88
49471723--49471946	75	2.8	80	73	14	228	32	4	13	50	1.62
49471784--49471893	37	2.9	37	71	12	109	30	6	11	50	1.64
49475014--49475048	12	2.9	12	91	0	52	0	22	48	28	1.51
49476042--49476793	158	4.8	152	76	14	618	31	11	6	50	1.64
49476042--49476819	313	2.5	310	87	6	1105	31	11	6	50	1.63
49477149--49477280	4	31.8	4	72	22	69	0	31	0	68	0.89
49477149--49477259	33	3.3	33	80	13	127	0	31	0	68	0.90
49477148--49477282	14	9.4	14	70	13	71	0	31	0	68	0.89
49477148--49477283	38	3.6	37	81	11	145	0	31	0	68	0.90
49479512--49479590	25	3.2	23	65	16	59	25	12	18	43	1.86
49479594--49479682	23	4.0	22	72	17	69	19	7	21	51	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49484105--49484432	47	7.2	47	70	17	269	45	2	3	48	1.33
49484088--49484476	91	4.3	91	97	0	724	46	3	3	46	1.35
49484478--49484787	61	5.3	57	67	13	182	43	2	4	48	1.39
49484492--49484787	120	2.5	120	95	1	522	43	3	5	47	1.40
49484733--49484767	18	2.0	17	88	5	52	45	0	0	54	0.99
49485000--49485048	16	3.1	16	93	0	89	20	34	6	38	1.77
49499869--49500518	110	5.9	110	96	0	1162	34	17	16	32	1.92
49500986--49501051	31	2.1	31	86	5	89	59	3	4	33	1.33
49501134--49501208	30	2.6	28	81	6	96	56	14	20	9	1.66
49502620--49502890	132	2.1	132	91	0	434	26	25	18	30	1.98
49502879--49503022	44	3.3	43	67	18	107	22	24	24	28	2.00
49502889--49504810	88	21.8	88	94	0	3029	25	24	22	27	2.00
49505923--49505982	21	2.9	21	97	0	111	21	38	10	30	1.86
49510974--49511922	78	12.2	78	99	0	1875	52	6	10	30	1.60
49514193--49514236	3	14.7	3	100	0	88	31	0	0	68	0.90
49518567--49518592	3	8.7	3	100	0	52	30	0	0	69	0.89
49522171--49522298	43	3.0	43	94	0	211	32	25	14	26	1.95
49522422--49522483	30	2.0	31	96	3	117	43	19	6	30	1.76
49522413--49522526	31	3.7	31	78	3	106	44	16	7	31	1.74
49523500--49523529	11	2.7	11	94	0	51	26	10	6	56	1.57
49527939--49527985	24	2.0	24	86	0	67	42	21	21	14	1.88
49532948--49533036	24	3.7	24	83	3	99	17	26	19	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49533015--49533098	25	3.4	24	79	11	89	23	27	19	29	1.98
49533009--49533118	49	2.2	49	77	6	116	21	25	20	31	1.98
49543545--49543669	43	2.9	41	80	5	124	26	19	24	29	1.98
49547101--49547143	18	2.4	18	81	11	52	41	2	13	41	1.57
49547459--49547540	25	3.3	25	79	6	87	39	10	14	35	1.82
49553086--49553128	18	2.4	18	81	11	52	41	2	13	41	1.57
49556304--49556346	21	2.0	21	95	0	77	27	0	37	34	1.57
49556327--49556359	16	2.1	16	94	0	57	33	0	36	30	1.58
49556338--49556432	45	2.1	44	88	1	136	34	5	27	32	1.79
49556594--49556628	18	2.0	17	88	5	52	54	0	0	45	0.99
49556552--49556624	27	2.7	27	76	8	76	52	2	0	45	1.15
49556513--49556784	144	1.9	147	93	3	478	46	3	3	47	1.35
49558029--49558055	11	2.5	11	100	0	54	51	18	7	22	1.70
49560298--49560328	15	2.1	15	100	0	62	45	0	19	35	1.51
49564024--49564056	16	2.1	16	94	0	57	45	0	3	51	1.16
49564121--49564169	23	2.1	24	88	7	75	71	6	2	20	1.18
49564210--49564261	24	2.2	24	83	13	63	55	1	0	42	1.10
49564210--49564261	25	2.2	25	89	6	81	55	1	0	42	1.10
49575437--49575484	25	1.9	25	87	8	71	16	20	14	47	1.82
49586666--49586716	6	8.7	6	97	2	95	35	0	13	50	1.42
49588086--49588127	10	4.3	10	96	3	77	61	0	0	38	0.96
49588655--49588799	41	3.5	41	82	5	141	26	26	19	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49588698--49588814	41	2.9	41	80	5	103	28	26	19	25	1.99
49591644--49591762	45	2.7	45	78	3	125	26	22	21	30	1.99
49591822--49592079	45	5.7	45	70	11	150	29	18	19	32	1.96
49592098--49592782	50	13.7	50	73	0	519	25	18	22	33	1.97
49592095--49592799	100	7.1	100	87	1	932	25	19	21	32	1.97
49592819--49592862	21	2.1	21	86	0	61	20	34	6	38	1.79
49593891--49593927	13	2.9	13	88	4	58	5	10	0	83	0.79
49593893--49593927	18	1.9	18	94	0	61	2	11	0	85	0.69
49599540--49599605	26	2.5	26	75	0	69	37	13	6	42	1.69
49599995--49600100	32	3.3	32	78	16	96	62	0	2	33	1.16
49600054--49600111	11	5.4	11	74	12	57	56	0	5	37	1.21
49600022--49600120	32	3.2	29	79	10	108	62	0	4	33	1.14
49602840--49602934	23	4.1	23	82	5	102	41	24	14	20	1.89
49602874--49602946	23	3.2	22	82	5	83	43	17	10	27	1.83
49603164--49603356	104	1.9	104	88	0	296	28	27	14	29	1.95
49604947--49605000	3	18.0	3	96	0	99	68	0	31	0	0.90
49605100--49605149	20	2.4	21	86	3	66	0	22	0	78	0.76
49605359--49605395	3	12.3	3	94	0	65	0	29	0	70	0.88
49605513--49605552	20	2.0	20	85	0	53	32	2	25	40	1.69
49606036--49606104	9	7.6	9	75	12	61	71	0	4	24	1.05
49606059--49606109	20	2.7	19	82	8	68	70	0	3	25	1.04
49606371--49606577	19	10.8	19	94	5	355	31	4	0	63	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49606372--49606602	19	11.6	20	86	11	77	29	3	1	64	1.21
49606369--49606633	9	27.7	10	67	25	98	31	3	1	63	1.22
49606728--49606757	15	2.0	15	93	0	51	23	0	0	76	0.78
49610126--49610168	21	2.0	21	86	8	61	32	11	25	30	1.91
49618815--49618918	41	2.5	41	81	7	113	27	17	22	32	1.96
49624102--49624145	21	2.1	21	86	0	61	18	11	15	54	1.70
49627157--49627185	15	2.0	15	93	6	51	17	13	20	48	1.81
49633815--49633854	20	2.0	20	90	0	62	32	2	10	55	1.47
49635357--49635416	29	2.1	29	100	0	120	30	3	21	45	1.68
49636830--49636878	25	1.9	26	87	4	73	18	10	10	61	1.55

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   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290