genome.fa.s12.2.7.7.80.10.50.1000.258.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_chr13
Parameters: 2 7 7 80 10 50 1000
Length:  91551117

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   

This is table  258  of  276  ( 33102 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)
85503900--85503947	22	2.2	22	82	14	55	25	6	6	62	1.42
85508801--85508825	13	1.9	13	100	0	50	80	4	16	0	0.87
85509708--85509813	37	2.8	37	78	9	115	25	16	21	36	1.94
85512495--85512567	25	3.0	24	73	18	71	34	21	26	17	1.96
85512789--85512844	27	2.1	27	96	3	105	25	19	23	32	1.98
85513052--85513093	21	2.0	21	85	0	57	40	21	0	38	1.53
85517618--85517687	21	3.3	21	75	18	81	35	11	7	45	1.68
85518618--85518683	18	3.7	18	97	0	123	34	12	12	40	1.80
85519112--85519349	72	3.3	72	87	2	329	22	6	15	55	1.63
85521380--85521425	13	3.5	13	77	11	58	36	21	8	32	1.84
85525460--85525531	35	2.1	35	97	0	135	45	19	5	29	1.73
85525748--85525800	18	2.9	18	78	10	63	35	20	11	32	1.88
85525945--85526051	53	2.0	53	96	0	196	24	22	20	32	1.98
85526210--85526248	18	2.2	18	90	9	62	25	20	5	48	1.70
85526572--85526610	16	2.4	16	95	0	69	2	25	0	71	0.98
85526681--85526705	2	12.5	2	100	0	50	52	0	0	48	1.00
85529845--85529922	40	2.0	40	84	0	102	17	14	34	33	1.90
85533337--85533386	23	2.2	23	82	7	57	54	24	0	22	1.45
85534655--85534692	20	2.0	18	90	10	58	0	31	0	68	0.90
85536440--85536507	25	2.7	25	81	2	73	27	22	23	26	1.99
85536494--85536565	25	2.8	26	79	12	87	36	18	27	18	1.94
85544228--85544287	30	2.0	30	87	6	86	40	6	23	30	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
85544681--85545451	383	2.0	383	100	0	1542	29	15	25	29	1.96
85550282--85550543	3	88.3	3	76	7	232	61	1	6	30	1.31
85550265--85550564	30	10.2	30	71	18	140	61	2	6	31	1.32
85551279--85551708	86	5.0	86	100	0	860	25	8	15	51	1.70
85554994--85555038	6	7.8	6	83	14	51	80	0	2	17	0.82
85560476--85560508	13	2.6	13	90	4	50	48	12	0	39	1.40
85562210--85562954	45	16.6	44	70	14	265	29	22	16	31	1.95
85562163--85562858	87	7.8	88	77	11	587	30	22	16	31	1.96
85562251--85562858	45	13.7	43	71	13	273	29	22	16	31	1.96
85562095--85562856	180	4.3	180	81	6	899	29	22	16	31	1.96
85562108--85562959	136	6.3	138	74	11	509	29	22	16	32	1.95
85562648--85562997	141	2.5	136	85	5	461	30	22	15	32	1.95
85563018--85563529	88	5.8	88	88	0	738	29	21	21	27	1.98
85563346--85563484	44	3.2	44	66	8	120	30	23	22	24	1.99
85563476--85563582	53	2.0	53	96	0	196	32	20	22	24	1.98
85563392--85563670	141	2.0	141	92	0	468	30	21	22	25	1.98
85563533--85564124	88	6.7	88	87	2	848	28	20	22	28	1.99
85563337--85563758	229	1.8	229	90	1	675	29	21	22	26	1.99
85563220--85563846	317	2.0	317	90	1	988	29	20	22	27	1.98
85563129--85563934	405	2.0	405	88	1	1195	29	20	22	27	1.98
85563041--85564006	493	2.0	493	89	1	1470	29	20	22	28	1.98
85564246--85564387	44	3.2	44	74	4	133	26	22	18	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
85564172--85564317	77	1.9	77	81	2	177	24	21	21	31	1.98
85570283--85570434	3	50.3	3	70	11	87	60	1	8	29	1.34
85570266--85570387	39	3.2	36	79	11	111	61	2	7	28	1.36
85570335--85570415	19	4.2	19	73	16	69	55	1	11	32	1.43
85571121--85571158	17	2.3	17	90	4	60	86	2	7	2	0.74
85574446--85574501	26	2.2	26	96	0	103	30	7	25	37	1.82
85596097--85596128	9	3.8	9	84	16	50	87	0	0	12	0.54
85596097--85596128	16	2.0	16	100	0	64	87	0	0	12	0.54
85599217--85599260	22	2.0	22	95	0	79	40	29	0	29	1.57
85599538--85599604	21	3.2	22	74	16	70	4	17	4	73	1.18
85599618--85599670	5	11.0	5	82	15	67	43	0	0	56	0.99
85605619--85605676	21	2.8	21	84	10	66	43	1	0	55	1.10
85606183--85606223	22	1.9	22	90	5	66	29	0	24	46	1.53
85608561--85608598	19	2.0	19	85	10	51	63	10	13	13	1.53
85611637--85611701	24	2.8	23	86	6	96	44	18	0	36	1.50
85618761--85618815	28	2.0	27	82	3	65	49	0	3	47	1.19
85622890--85623120	88	2.6	87	83	6	272	34	19	17	28	1.94
85623016--85623048	15	2.2	15	94	0	57	66	6	6	21	1.35
85623040--85623248	74	2.9	71	83	5	247	31	22	18	27	1.97
85623040--85623249	73	2.9	72	82	9	280	30	22	18	27	1.97
85623040--85623415	75	4.9	74	73	16	291	31	21	17	29	1.97
85623183--85623593	89	4.8	89	69	15	272	33	20	17	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
85623139--85623593	166	2.7	164	87	7	610	32	20	17	29	1.96
85623416--85623450	14	2.5	14	100	0	70	57	5	20	17	1.60
85623507--85623537	16	1.9	16	93	0	53	64	6	12	16	1.47
85623344--85623606	89	3.0	87	86	3	373	36	19	16	28	1.93
85624371--85624469	45	2.4	38	82	16	101	15	22	14	48	1.80
85630098--85630167	34	2.1	34	94	0	122	12	30	15	41	1.85
85631635--85631716	26	3.2	26	63	16	71	17	20	29	32	1.95
85631650--85631729	25	3.2	25	63	16	65	16	25	27	31	1.96
85631621--85631860	51	4.6	52	89	5	310	19	27	25	27	1.99
85631661--85631741	25	3.2	25	63	16	67	18	27	27	27	1.98
85631958--85631989	13	2.5	13	94	0	55	56	12	0	31	1.37
85632201--85632258	30	1.9	30	89	0	89	31	24	3	41	1.71
85632653--85632947	148	2.0	148	98	0	572	26	20	9	44	1.81
85645128--85645199	37	1.9	37	83	10	94	58	6	5	29	1.47
85647807--85647854	24	2.0	24	83	4	60	54	6	12	27	1.61
85648264--85648382	59	2.0	59	100	0	238	28	20	17	33	1.95
85648730--85648771	14	2.9	14	76	16	50	78	2	7	11	1.04
85650189--85650232	22	2.0	23	86	4	63	45	6	4	43	1.51
85651030--85651062	17	1.9	17	93	0	57	63	3	0	33	1.10
85651196--85651244	24	2.0	25	84	4	64	34	4	2	59	1.28
85651253--85651302	21	2.4	21	81	15	52	62	8	0	30	1.24
85651370--85651411	20	2.1	20	100	0	84	45	4	19	30	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
85651672--85651717	18	2.5	18	82	3	56	63	4	4	28	1.33
85651672--85651707	19	1.9	19	88	5	56	63	2	5	27	1.30
85651783--85651840	20	2.9	20	85	10	75	63	5	0	31	1.16
85652668--85652698	3	10.3	3	100	0	62	67	0	0	32	0.91
85653083--85653241	3	52.3	3	72	7	115	61	1	5	31	1.30
85653061--85653120	21	2.9	21	77	5	68	65	0	8	26	1.21
85653086--85653208	48	2.5	48	85	1	138	63	1	5	29	1.27
85653198--85653245	17	3.3	14	78	18	53	54	2	4	39	1.32
85654329--85654371	20	2.2	19	91	4	68	6	4	37	51	1.50
85654329--85654396	20	3.6	19	76	21	63	7	2	33	55	1.42
85654788--85655177	87	4.4	87	68	11	288	26	21	20	30	1.98
85654734--85655233	131	3.8	131	73	11	485	26	22	20	30	1.98
85654972--85655282	44	7.1	44	71	7	195	27	22	18	30	1.97
85658304--85658333	14	2.1	14	93	0	51	16	0	36	46	1.47
85669917--85669941	3	8.3	3	100	0	50	68	0	0	32	0.90
85670161--85670199	16	2.5	16	87	4	53	69	2	5	23	1.21
85670384--85670541	3	51.0	3	78	7	131	57	1	5	36	1.29
85670418--85670541	34	3.6	34	80	9	103	57	1	4	37	1.27
85671588--85671628	20	2.1	20	82	13	50	7	4	31	56	1.48
85671650--85671699	6	8.3	6	77	16	50	2	0	32	66	1.03
85672095--85672167	31	2.4	30	80	17	87	27	2	5	64	1.29
85672131--85672202	19	3.7	19	78	10	67	30	0	5	63	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
85672140--85672184	21	2.2	20	92	8	72	33	0	6	60	1.23
85672141--85672194	21	2.7	20	86	11	67	35	0	5	59	1.21
85672222--85672263	9	4.6	9	80	13	50	45	2	0	52	1.13
85672286--85672316	16	1.9	16	93	0	53	16	3	3	77	1.03
85673476--85673514	21	1.9	20	89	5	60	7	43	0	48	1.31
85677537--85677586	16	3.2	16	75	10	50	60	16	0	24	1.36
85678419--85678469	26	1.9	27	88	4	77	25	25	25	23	2.00
85678698--85678746	25	1.9	26	84	12	66	28	2	10	59	1.41
85678691--85678960	54	5.1	54	68	18	226	28	1	10	59	1.38
85678712--85678983	51	5.2	51	66	18	193	27	1	12	58	1.41

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