genome.fa.s2.2.7.7.80.10.50.1000.101.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_chr1
Parameters: 2 7 7 80 10 50 1000
Length:  106989029

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   311   312   313   314   315   316   317   318   319   320   
          321   322   

This is table  101  of  322  ( 38559 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)
32818713--32818759	7	6.9	7	81	18	55	74	0	2	23	0.93
32818711--32818761	20	2.5	21	93	3	86	74	0	1	23	0.92
32818724--32818761	13	2.9	13	84	11	51	76	0	0	23	0.79
32819239--32819307	34	2.0	34	94	0	120	39	18	13	28	1.88
32822293--32822344	3	18.3	3	77	18	58	28	0	1	69	0.99
32827134--32827447	27	11.7	26	81	8	303	39	22	8	28	1.85
32827134--32827474	81	4.2	81	81	5	345	39	22	9	28	1.86
32827431--32827545	27	4.3	27	88	0	167	36	19	19	25	1.94
32827953--32828040	6	14.3	6	71	17	65	18	18	14	48	1.81
32827953--32828031	31	2.5	31	85	4	106	17	18	13	49	1.80
32829048--32829147	50	2.0	50	100	0	200	26	20	34	20	1.96
32829830--32829867	18	2.1	18	100	0	76	21	26	42	10	1.85
32830078--32830288	27	7.8	27	86	0	296	29	23	9	37	1.85
32830078--32830316	54	4.4	54	88	0	325	30	23	8	37	1.85
32830051--32830315	108	2.5	108	91	0	431	32	23	8	36	1.85
32830039--32830379	27	12.6	27	82	1	155	35	22	8	33	1.84
32830269--32830402	27	4.9	27	83	0	142	41	21	7	29	1.81
32830404--32830565	27	6.0	27	85	3	211	33	18	22	25	1.96
32830972--32831059	6	14.3	6	71	17	65	18	18	14	48	1.81
32830972--32831050	31	2.5	31	85	4	106	17	18	13	49	1.80
32831891--32831976	21	4.0	21	75	4	73	12	32	29	25	1.93
32841936--32842312	80	4.7	80	86	2	445	24	27	22	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32841940--32842312	120	3.1	120	83	2	428	24	27	23	25	2.00
32841921--32842237	40	7.9	40	89	0	427	24	27	22	25	2.00
32841938--32842312	40	9.4	40	84	5	169	24	27	22	25	2.00
32842624--32842702	29	2.7	29	86	5	106	27	32	15	24	1.95
32842684--32842828	43	3.4	43	96	1	274	27	34	15	22	1.94
32847233--32847281	10	4.9	10	87	0	71	67	2	12	18	1.32
32848560--32848609	22	2.3	22	82	3	66	54	2	2	42	1.23
32854644--32854867	40	5.6	40	87	2	297	26	23	25	24	2.00
32854644--32854867	120	1.9	120	87	1	333	26	23	25	24	2.00
32873345--32873574	38	6.0	38	89	1	298	32	26	20	21	1.98
32893544--32893582	20	2.1	19	85	9	53	53	17	25	2	1.56
32897319--32897594	137	2.0	137	94	0	489	26	21	13	38	1.90
32898240--32898277	8	4.6	8	90	6	58	68	0	0	31	0.90
32898242--32898277	17	2.1	17	94	0	63	69	0	0	30	0.89
32905140--32905292	39	3.9	40	78	5	127	28	28	22	20	1.99
32905210--32905294	39	2.2	39	91	0	134	25	30	22	21	1.98
32906428--32906512	44	1.9	44	97	0	161	27	31	14	27	1.94
32930287--32930316	3	10.0	3	100	0	60	66	0	0	33	0.92
32930761--32930999	121	2.0	121	94	0	417	42	7	12	38	1.70
32938793--32938817	13	1.9	13	100	0	50	56	20	0	24	1.43
32947752--32947800	9	5.4	9	87	0	62	44	24	6	24	1.76
32947752--32947808	9	6.3	9	87	0	60	42	24	7	26	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32947816--32947876	17	3.4	17	72	12	59	52	14	1	31	1.52
32947807--32947972	74	2.2	74	87	4	228	46	16	4	31	1.67
32947807--32947955	37	4.0	37	91	0	244	46	16	4	32	1.68
32950796--32950940	73	2.0	72	98	0	272	23	26	5	43	1.75
32951546--32951761	108	2.0	108	98	0	414	31	20	22	25	1.98
32952207--32952317	27	4.1	26	81	9	123	18	23	20	37	1.94
32952207--32952317	55	2.0	54	84	5	143	18	23	20	37	1.94
32955947--32956051	47	2.2	47	98	0	201	31	7	31	29	1.85
32961568--32961635	29	2.3	29	82	5	84	27	29	13	29	1.94
32961457--32961784	174	1.9	174	98	0	629	30	24	14	30	1.95
32961737--32961815	29	2.7	30	82	13	110	29	30	15	25	1.96
32969720--32969787	29	2.3	29	85	5	93	27	30	13	27	1.94
32969609--32969936	174	1.9	174	97	0	620	30	24	14	29	1.95
32969889--32969967	29	2.7	30	82	13	110	29	30	15	25	1.96
32971576--32971688	28	4.1	27	84	12	124	16	23	23	37	1.94
32971576--32971688	54	2.1	55	85	8	151	16	23	23	37	1.94
32974889--32974914	13	2.0	13	100	0	52	61	0	0	38	0.96
32977797--32977912	50	2.3	50	77	4	117	37	6	4	52	1.46
32977822--32977916	50	1.9	50	84	4	129	40	3	4	52	1.37
32978116--32978659	82	6.8	80	80	6	496	29	11	9	48	1.72
32978083--32978659	81	7.2	82	80	4	550	29	12	10	47	1.74
32980224--32980271	23	2.1	23	100	0	96	22	31	33	12	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32980228--32980278	23	2.2	23	92	0	84	21	31	35	11	1.90
32980512--32980545	17	1.9	18	88	5	52	29	5	17	47	1.71
32988299--32988477	44	3.8	45	76	13	150	20	15	30	33	1.94
32988387--32988488	52	2.0	52	92	0	168	21	16	28	33	1.95
32992477--32992517	15	2.7	16	85	11	59	9	14	17	58	1.62
32992477--32992525	15	3.3	15	77	11	55	10	12	18	59	1.60
32995351--32995611	44	5.7	44	72	11	186	21	16	29	31	1.95
32995343--32995614	89	3.0	89	82	5	305	22	16	29	31	1.96
32995520--32995621	52	2.0	52	92	0	168	24	19	25	30	1.98
32999236--32999283	20	2.4	20	85	0	60	27	8	12	52	1.67
33003218--33003276	30	1.9	30	82	6	73	50	3	3	42	1.35
33007961--33008016	27	2.1	27	96	0	103	64	12	7	16	1.48
33008196--33008220	13	1.9	13	100	0	50	68	0	24	8	1.16
33012373--33012406	17	1.9	18	88	5	52	38	5	5	50	1.51
33025579--33025645	31	2.2	31	83	0	80	46	2	2	47	1.33
33026797--33026831	18	1.9	18	94	0	61	57	17	2	22	1.53
33028445--33028478	17	2.0	17	94	0	59	11	38	29	20	1.88
33033765--33033828	24	2.8	22	81	9	74	40	18	15	25	1.90
33034022--33034218	77	2.5	78	80	2	218	41	16	23	18	1.90
33034022--33034244	39	5.7	40	73	5	170	41	17	22	18	1.90
33034022--33034243	78	2.9	78	76	7	211	40	17	22	18	1.91
33034229--33034454	54	4.2	54	84	3	231	38	15	19	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33034440--33034573	39	3.4	38	77	8	144	41	17	21	19	1.91
33044872--33044918	20	2.3	20	92	0	85	61	4	14	19	1.49
33044973--33045067	35	2.8	33	72	15	77	50	3	1	45	1.24
33049479--33049536	30	1.9	30	85	0	80	44	13	8	32	1.75
33057282--33057366	5	15.0	5	76	15	53	69	1	5	23	1.17
33057281--33057364	21	3.7	22	76	16	64	70	1	5	22	1.16
33057319--33057365	13	3.7	13	80	5	51	72	0	4	23	1.02
33057318--33057365	19	2.5	19	83	6	62	70	0	4	25	1.04
33057309--33057367	25	2.5	24	83	8	75	69	0	5	25	1.09
33067790--33067851	32	1.9	32	87	6	90	66	0	1	32	1.02
33067790--33067855	17	3.9	18	74	20	63	66	0	1	31	1.01
33069771--33069914	76	1.9	76	95	0	261	29	22	15	32	1.94
33070411--33070451	18	2.3	18	91	8	66	73	4	0	21	1.02
33070416--33070470	25	2.2	25	77	6	58	69	9	0	21	1.16
33073653--33073744	23	4.1	22	72	14	62	25	20	16	38	1.93
33073910--33073968	20	3.0	20	89	0	91	37	3	22	37	1.71
33079982--33080022	17	2.3	18	87	4	57	60	0	4	34	1.18
33079969--33080025	25	2.2	27	84	12	75	64	0	3	31	1.10
33104598--33104633	18	2.0	18	100	0	72	16	27	27	27	1.97
33108290--33108503	46	4.6	46	77	8	175	23	28	17	29	1.97
33111803--33111849	5	8.8	5	78	21	51	19	0	4	76	0.95
33111806--33111849	11	4.0	11	82	8	54	18	0	4	77	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33114216--33114338	46	2.7	46	89	0	183	30	28	20	20	1.97
33118058--33118183	48	2.6	47	79	8	128	26	16	32	23	1.96
33119445--33119484	21	2.0	21	85	5	55	12	32	27	27	1.93
33123292--33123527	48	4.9	48	86	0	292	25	29	18	25	1.98
33129465--33129529	32	2.0	32	90	0	103	26	46	15	12	1.81
33130795--33131111	48	6.6	48	77	2	296	24	29	19	26	1.99
33130796--33131108	144	2.2	144	85	0	401	24	29	19	26	1.99
33143202--33143234	16	2.1	16	88	5	50	21	0	3	75	0.93
33143204--33143247	23	2.0	21	86	8	61	22	0	6	70	1.11
33148926--33149161	46	5.0	48	81	7	220	23	28	19	27	1.99

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   311   312   313   314   315   316   317   318   319   320   
          321   322