genome.fa.s13.2.7.7.80.10.50.1000.123.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_chr11
Parameters: 2 7 7 80 10 50 1000
Length:  102024878

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   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   

This is table  123  of  310  ( 37082 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)
39510958--39511015	27	2.1	27	84	6	73	36	27	20	15	1.93
39511172--39511230	22	2.7	22	81	0	64	32	22	25	20	1.98
39511318--39511400	27	3.1	26	86	5	112	37	20	22	19	1.94
39511553--39511616	27	2.4	28	76	7	69	37	26	18	17	1.93
39511596--39511845	27	9.3	27	84	0	257	27	18	18	36	1.94
39511599--39511845	54	4.6	54	86	3	300	27	19	17	36	1.94
39511857--39512205	27	12.9	27	85	2	432	40	9	21	28	1.84
39514231--39514318	30	2.9	30	87	1	122	54	13	11	20	1.69
39514241--39514327	30	2.8	31	87	5	115	52	12	13	20	1.73
39514285--39514397	25	4.6	24	74	10	77	49	13	15	21	1.79
39514202--39514372	24	7.1	24	70	13	91	52	12	14	21	1.74
39514247--39514387	73	1.9	73	89	2	221	51	12	14	21	1.75
39514223--39514372	6	24.8	6	68	16	69	52	12	14	21	1.73
39514202--39514374	18	9.6	18	69	13	61	52	12	14	21	1.74
39514237--39514397	73	2.2	72	84	4	216	50	13	14	21	1.76
39514514--39514579	27	2.5	27	80	11	82	37	21	22	18	1.94
39514532--39514587	27	2.1	27	83	6	69	37	21	25	16	1.93
39514538--39514595	27	2.1	27	81	6	64	37	27	20	13	1.91
39514752--39514810	22	2.7	22	81	0	64	32	22	25	20	1.98
39514901--39514980	27	2.9	28	85	7	94	37	20	23	18	1.94
39515007--39515037	16	1.9	16	93	0	53	35	16	19	29	1.93
39515178--39515399	27	8.3	27	84	2	232	26	18	18	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39515180--39515399	81	2.7	81	84	2	264	26	18	18	36	1.94
39515194--39515399	107	1.9	108	89	3	317	26	17	19	36	1.94
39515404--39516298	27	33.2	27	84	3	1106	41	10	21	27	1.85
39515409--39516329	108	8.5	108	91	1	1298	40	9	21	27	1.85
39523810--39523848	21	1.9	20	84	5	51	30	2	20	46	1.64
39525087--39525136	14	3.5	14	74	15	57	48	10	20	22	1.79
39525086--39525143	29	2.0	29	100	0	116	44	10	20	24	1.82
39535339--39535514	46	3.8	46	80	5	212	21	18	30	30	1.96
39535335--39535506	93	1.8	93	92	2	292	20	18	30	29	1.97
39547391--39547493	40	2.5	40	87	4	145	22	16	26	34	1.95
39557358--39557410	27	2.0	27	84	0	70	35	20	15	28	1.93
39560153--39560190	19	2.0	19	90	10	60	10	18	44	26	1.82
39560153--39560195	19	2.4	18	85	14	54	9	20	44	25	1.81
39562496--39562549	21	2.6	21	96	0	99	31	20	20	27	1.97
39567606--39567643	19	2.0	19	85	10	51	26	44	15	13	1.83
39568546--39569448	49	18.6	49	97	1	1678	33	8	28	30	1.86
39569567--39569668	37	2.8	37	95	0	177	24	18	30	26	1.98
39579244--39579332	7	12.9	7	72	11	67	25	2	29	42	1.67
39579269--39579332	13	4.8	13	78	3	56	23	3	32	40	1.70
39579284--39579332	20	2.5	20	80	10	55	24	2	34	38	1.67
39579399--39579447	20	2.5	20	78	18	57	18	6	30	44	1.74
39579451--39579521	26	2.7	27	80	10	76	14	1	22	61	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39580222--39580286	29	2.3	27	80	14	78	41	4	1	52	1.31
39584862--39584903	19	2.1	21	91	8	70	50	0	9	40	1.35
39585155--39585195	22	2.0	20	85	9	55	41	2	17	39	1.62
39588600--39588673	17	4.5	17	73	21	68	41	4	0	54	1.19
39588583--39588704	48	2.5	48	84	5	149	41	3	1	53	1.27
39588583--39588665	12	7.4	11	73	21	50	42	2	1	54	1.21
39588613--39588702	31	2.7	32	78	20	80	42	4	1	52	1.29
39588652--39588766	31	3.8	31	74	13	121	42	3	4	49	1.39
39588647--39588782	21	7.0	19	67	20	68	41	2	5	49	1.42
39588664--39588785	60	2.0	60	98	0	235	40	3	6	49	1.45
39588689--39588784	31	3.2	31	73	11	117	42	2	7	47	1.42
39590217--39590308	37	2.5	37	98	0	175	26	18	18	36	1.94
39590272--39590540	46	5.6	46	84	10	331	28	21	14	35	1.93
39590315--39590534	52	4.3	52	85	8	299	27	22	14	35	1.93
39590289--39590540	98	2.6	98	94	0	450	28	21	15	34	1.94
39606156--39606189	16	2.2	15	94	5	59	47	0	0	52	1.00
39608080--39608160	41	2.0	40	95	0	135	28	22	11	37	1.88
39615063--39615124	27	2.2	27	78	18	65	54	3	3	38	1.32
39620299--39620362	15	4.3	15	69	15	53	35	0	1	62	1.05
39620298--39620335	16	2.4	16	82	4	51	31	0	0	68	0.90
39631308--39631363	29	1.9	29	85	7	78	25	16	19	39	1.91
39631301--39631368	29	2.3	29	80	9	77	23	16	20	39	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39633009--39633039	3	10.3	3	92	0	53	64	0	32	3	1.09
39634397--39634440	6	7.3	6	94	0	61	22	34	0	43	1.54
39638647--39638685	20	2.0	20	94	0	69	41	17	30	10	1.83
39644238--39644467	100	2.2	103	81	6	261	23	27	21	27	1.99
39644225--39644472	50	4.8	52	78	7	231	23	27	20	28	1.99
39651674--39651878	102	2.0	102	99	0	401	20	18	17	43	1.88
39660792--39660989	50	3.8	50	89	4	279	23	22	31	22	1.98
39666046--39666083	19	2.0	19	94	0	67	28	10	34	26	1.90
39668057--39668130	29	2.5	29	86	4	94	50	16	12	21	1.77
39678899--39678969	34	2.2	33	85	9	94	33	5	9	50	1.59
39682642--39682973	73	4.5	73	99	0	646	40	25	6	28	1.79
39687321--39687349	3	9.7	3	100	0	58	68	0	0	31	0.89
39691781--39691921	72	1.9	73	91	1	230	42	20	8	28	1.81
39695660--39695709	21	2.4	21	93	0	82	32	8	30	30	1.86
39698652--39698701	6	8.2	6	91	4	82	38	0	62	0	0.96
39698652--39698709	18	3.2	17	76	13	55	39	0	60	0	0.97
39704483--39704555	32	2.3	32	97	0	137	50	15	12	21	1.76
39714880--39714930	18	2.7	18	84	6	57	41	17	17	23	1.90
39715119--39715145	13	2.1	13	100	0	54	44	33	14	7	1.73
39715148--39715206	7	8.3	7	81	3	73	16	16	13	52	1.75
39715453--39715558	37	2.9	37	88	0	158	32	3	13	50	1.59
39715558--39715650	9	10.4	9	88	2	143	32	8	23	35	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39715810--39715834	12	2.1	12	100	0	50	16	24	36	24	1.94
39724935--39724964	2	15.0	2	100	0	60	50	0	50	0	1.00
39730123--39730160	18	2.1	18	85	9	51	63	0	7	28	1.23
39730358--39730402	18	2.5	18	96	0	81	51	20	4	24	1.66
39730609--39730710	29	3.7	28	67	10	75	36	7	8	47	1.64
39730844--39730929	31	2.8	30	75	1	82	44	12	6	36	1.70
39738171--39738672	254	2.0	254	98	0	977	34	20	15	30	1.93
39742936--39743168	98	2.3	99	90	2	369	27	24	16	30	1.97
39743019--39743161	33	4.3	33	69	13	103	26	23	18	31	1.97
39745535--39745623	43	2.1	43	85	4	117	29	7	13	49	1.70
39746156--39746209	20	2.7	20	83	13	67	55	5	1	37	1.34
39749849--39749879	15	2.1	15	93	0	53	35	0	0	64	0.94
39750627--39750666	18	2.2	18	86	8	55	2	47	0	50	1.14
39753221--39753319	42	2.4	42	91	0	153	26	25	10	38	1.87
39761323--39761353	15	2.1	15	93	0	53	77	0	12	9	0.99
39761731--39761810	42	1.9	42	82	2	99	58	3	0	37	1.16
39766548--39766595	25	2.0	23	84	8	60	35	0	6	58	1.23
39769611--39769688	38	2.1	38	97	0	147	41	15	16	26	1.88
39773937--39773977	11	3.2	13	76	16	50	29	0	2	68	1.03
39777246--39777292	21	2.2	22	92	3	78	21	38	19	21	1.94
39784634--39784879	49	4.9	50	82	2	298	26	18	26	28	1.98
39803094--39803321	49	4.7	49	74	5	178	30	19	25	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39807855--39807953	28	3.5	28	92	0	153	52	15	7	25	1.67
39810041--39810094	27	2.0	27	85	0	72	38	7	14	38	1.75
39810339--39810461	48	2.5	48	81	3	140	27	14	26	31	1.95
39815556--39815670	47	2.5	46	85	1	140	28	8	12	50	1.69
39818247--39818631	40	9.6	40	92	1	619	28	20	28	23	1.99
39821015--39821136	56	2.2	56	92	0	199	31	22	14	31	1.94
39828583--39828621	4	9.8	4	94	0	69	74	0	25	0	0.82
39828909--39828938	11	2.7	11	94	0	51	66	0	0	33	0.92
39831656--39831697	22	1.9	22	85	9	59	42	16	0	40	1.48
39838641--39838719	37	2.1	37	88	4	115	25	30	18	25	1.98

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   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310