genome.fa.s9.2.7.7.80.10.50.1000.147.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_chr10
Parameters: 2 7 7 80 10 50 1000
Length:  95480121

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   

This is table  147  of  284  ( 34012 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)
49250532--49250687	82	1.9	81	88	3	233	26	15	28	29	1.96
49250528--49250707	82	2.2	81	83	3	227	27	15	27	30	1.96
49254167--49254246	40	2.0	40	97	0	151	11	30	23	35	1.90
49269237--49269390	47	3.3	47	93	0	272	29	29	7	33	1.84
49270143--49270196	26	2.1	26	82	6	65	35	24	3	37	1.73
49271242--49271266	13	1.9	13	100	0	50	36	16	16	32	1.90
49272107--49272148	22	1.9	22	85	9	59	38	0	19	42	1.51
49273564--49273710	47	3.1	47	84	0	186	33	10	29	26	1.89
49273681--49273818	52	2.8	48	85	12	206	35	7	26	30	1.84
49273968--49274072	37	2.8	37	92	0	165	25	18	29	26	1.98
49275426--49275534	43	2.6	42	84	5	148	29	22	15	32	1.95
49280889--49280936	19	2.3	20	79	17	53	25	18	18	37	1.94
49282710--49282757	15	3.3	15	76	5	62	47	8	0	43	1.33
49284530--49285037	3	168.7	3	68	12	231	58	2	7	30	1.40
49284554--49284611	20	2.9	20	84	5	64	58	6	6	27	1.50
49284595--49285037	38	11.4	38	70	12	224	58	2	7	31	1.38
49284827--49284931	26	3.9	27	76	14	74	58	0	9	32	1.31
49285625--49285649	7	3.6	7	100	0	50	0	12	0	88	0.53
49285775--49285808	18	1.9	17	88	5	50	8	20	23	47	1.78
49286066--49286094	15	2.0	15	93	6	51	0	6	10	82	0.83
49299843--49300152	40	7.8	40	95	0	521	28	20	27	23	1.99
49317462--49317501	19	2.1	19	100	0	80	42	0	20	37	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49317779--49317883	52	2.0	52	88	3	158	40	9	15	34	1.79
49318134--49318340	53	3.8	53	75	11	197	34	17	25	22	1.96
49318142--49318348	108	1.9	108	84	5	276	34	17	25	22	1.96
49320039--49320071	13	2.5	13	95	5	57	15	51	12	21	1.75
49325582--49325664	42	2.0	42	95	0	148	27	9	8	54	1.62
49325772--49325875	55	1.9	55	84	7	140	36	16	24	23	1.94
49329989--49330161	46	3.8	45	77	16	192	30	27	19	22	1.98
49329995--49330166	93	1.8	93	92	0	290	30	27	19	22	1.98
49335507--49335731	40	5.6	40	83	1	263	23	26	24	25	2.00
49335471--49335731	80	3.3	80	82	3	285	24	26	23	26	2.00
49335507--49335731	120	1.9	121	83	4	294	23	26	24	25	2.00
49343204--49343337	51	2.6	51	79	0	169	40	13	6	39	1.71
49348457--49348807	180	2.0	180	95	0	639	40	9	14	35	1.79
49350539--49350592	28	1.9	28	96	0	99	18	11	33	37	1.86
49352938--49352973	9	3.9	9	88	3	54	22	0	19	58	1.40
49352938--49352984	20	2.4	19	89	3	67	21	0	21	57	1.41
49353884--49353922	20	2.0	20	100	0	78	28	10	5	56	1.54
49354709--49354759	24	2.1	24	85	0	66	35	17	11	35	1.87
49354735--49354789	28	2.0	28	89	7	85	30	20	12	36	1.90
49359966--49360254	145	2.0	145	99	0	569	29	15	11	43	1.81
49360307--49360610	152	2.0	153	96	3	560	36	13	11	38	1.81
49363017--49363119	51	2.0	51	96	0	188	31	16	10	41	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49365457--49365722	47	5.6	48	72	12	185	27	19	29	22	1.98
49365402--49365721	47	6.8	46	71	11	168	27	20	28	23	1.99
49376951--49376998	24	2.0	24	95	0	87	25	14	20	39	1.91
49379545--49379762	47	4.7	46	78	9	221	26	20	30	22	1.99
49379545--49379762	94	2.4	91	85	6	271	26	20	30	22	1.99
49383343--49383443	32	3.2	32	76	9	91	33	16	13	35	1.89
49383632--49383663	15	2.1	15	100	0	64	46	6	6	40	1.54
49390248--49390273	12	2.2	12	100	0	52	26	23	0	50	1.50
49392009--49392156	78	1.9	77	97	1	278	15	14	16	54	1.72
49394142--49394171	12	2.5	12	94	0	51	56	16	0	26	1.40
49394746--49394784	17	2.2	17	86	13	53	20	0	0	79	0.73
49394746--49394784	18	2.2	18	86	13	55	20	0	0	79	0.73
49395113--49395145	16	2.1	16	100	0	66	42	33	6	18	1.75
49395791--49395822	14	2.3	14	94	0	55	84	0	6	9	0.78
49397709--49398009	40	7.6	40	90	3	439	22	26	22	27	2.00
49402785--49402958	31	5.5	31	85	2	215	28	17	28	25	1.98
49403022--49403086	27	2.4	27	86	0	85	38	12	24	24	1.90
49403136--49403203	34	2.0	34	85	2	93	30	14	25	29	1.95
49407561--49407619	29	2.0	31	80	12	70	40	0	18	40	1.51
49417382--49417566	79	2.3	81	81	7	218	25	22	27	24	2.00
49417382--49417566	40	4.7	40	82	6	216	25	22	27	24	2.00
49417435--49417599	79	2.1	79	82	6	192	27	21	26	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49419211--49419325	54	2.1	54	90	1	178	24	20	19	35	1.95
49419207--49419325	27	4.4	27	83	0	148	24	20	20	35	1.96
49424010--49424234	48	4.7	48	83	2	254	29	19	23	27	1.98
49426682--49427006	160	2.0	160	90	1	517	30	12	24	32	1.92
49431102--49431196	48	2.0	48	85	4	129	30	17	25	26	1.98
49437703--49437736	16	2.2	15	89	5	50	44	0	0	55	0.99
49440762--49440802	14	2.9	14	86	10	57	82	0	17	0	0.66
49461683--49461748	28	2.4	28	86	0	87	24	16	33	25	1.96
49462063--49462143	27	3.0	27	87	3	119	37	19	12	30	1.89
49462071--49462143	26	2.8	26	87	4	94	35	20	13	30	1.91
49471644--49471803	27	5.9	27	91	1	232	39	21	8	30	1.83
49471641--49471829	54	3.5	54	88	1	263	39	21	9	29	1.85
49471646--49471829	27	6.8	27	86	3	180	39	21	9	29	1.86
49471647--49471830	81	2.3	81	81	5	219	39	22	9	28	1.86
49471783--49471845	27	2.3	27	83	0	72	39	17	17	25	1.91
49473627--49473669	13	3.1	13	75	18	50	39	11	0	48	1.40
49473627--49473681	8	7.2	8	78	17	64	41	10	0	47	1.39
49481917--49482094	27	6.6	27	83	3	178	29	27	15	27	1.96
49481938--49482093	82	1.9	81	86	3	224	29	27	15	27	1.96
49484411--49484540	23	5.7	23	71	15	99	36	20	23	18	1.94
49486998--49487029	15	2.0	17	88	11	50	43	31	0	25	1.55
49502446--49502544	40	2.3	43	85	11	134	26	14	29	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49507933--49508095	75	2.2	75	94	0	290	25	19	28	25	1.99
49509671--49509727	27	2.2	25	79	14	69	24	28	3	43	1.70
49509679--49509733	27	2.0	27	96	0	101	25	27	3	43	1.71
49515263--49515302	21	1.9	21	85	10	55	50	0	0	50	1.00
49515414--49515443	16	1.9	15	93	6	51	36	0	6	56	1.26
49515551--49515604	27	2.0	27	82	7	65	27	22	25	24	2.00
49515644--49515690	18	2.4	21	79	13	64	59	0	0	40	0.97
49515643--49515689	20	2.5	19	80	13	62	59	0	0	40	0.97
49516457--49516486	3	10.0	3	100	0	60	33	0	0	66	0.92
49516980--49517450	232	2.0	232	96	1	865	30	14	15	40	1.86
49518834--49518969	68	2.0	68	92	0	227	29	12	11	47	1.76
49519448--49519495	19	2.6	19	80	3	53	39	0	12	47	1.41
49523332--49523380	19	2.6	19	83	0	62	38	2	10	48	1.48
49536044--49536129	28	3.0	28	86	3	118	27	29	15	27	1.96
49552144--49552245	42	2.4	42	88	0	150	25	26	19	28	1.99
49553562--49553648	25	3.5	24	84	3	102	18	25	22	33	1.97
49553562--49553657	50	1.9	49	83	6	122	17	26	23	32	1.97
49558469--49558646	27	6.6	27	83	3	205	26	15	28	29	1.96
49558470--49558625	82	1.9	81	88	3	233	26	15	28	29	1.96
49558466--49558646	82	2.2	81	83	2	229	27	15	27	29	1.96
49563899--49563960	25	2.5	25	86	5	81	24	27	17	30	1.97
49563926--49563982	25	2.3	25	82	11	64	21	26	22	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49566042--49566088	22	2.1	23	88	4	69	23	8	14	53	1.69
49567147--49567202	3	18.7	3	81	7	69	5	30	1	62	1.28
49567147--49567211	18	3.6	18	85	8	78	4	30	3	61	1.31
49567563--49567725	84	1.9	85	87	3	240	31	15	14	38	1.88
49575851--49575911	24	2.7	21	75	20	61	60	1	0	37	1.07
49576046--49576090	7	6.4	7	86	0	54	48	0	22	28	1.50
49576046--49576090	21	2.1	21	91	0	72	48	0	22	28	1.50
49577757--49577799	19	2.3	19	92	4	70	62	0	2	34	1.08
49583347--49583377	16	1.9	16	93	0	53	35	22	0	41	1.54
49583344--49583383	20	2.0	20	85	0	53	37	22	0	40	1.54

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