genome.fa.s2.2.7.7.80.10.50.1000.126.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  126  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)
41181402--41181484	31	2.7	31	88	1	114	39	2	1	56	1.20
41183544--41183640	49	2.0	49	89	0	149	44	28	8	18	1.79
41191296--41191350	26	2.1	26	82	0	65	40	12	18	29	1.87
41193004--41193069	30	2.2	30	94	2	116	33	10	13	42	1.79
41195331--41195447	39	3.2	38	67	18	102	22	26	32	18	1.97
41195331--41195486	72	2.2	71	90	1	240	21	25	33	18	1.96
41197225--41197281	28	2.0	28	96	0	105	43	26	14	15	1.85
41199970--41200094	64	2.0	64	82	3	153	37	24	17	20	1.94
41200468--41200539	37	1.9	37	91	0	117	15	18	19	47	1.83
41205656--41205753	28	3.5	28	75	8	108	16	20	34	28	1.94
41205654--41205783	57	2.2	57	91	2	206	17	17	36	28	1.93
41205684--41205783	29	3.4	29	72	5	94	17	17	37	29	1.92
41210830--41210922	43	2.2	43	98	0	177	36	13	8	40	1.76
41211884--41211914	16	1.9	16	93	0	53	25	16	16	41	1.88
41212753--41212785	14	2.3	15	94	5	59	27	9	6	57	1.53
41212869--41212906	18	2.1	19	85	5	51	15	5	18	60	1.53
41213959--41214026	21	3.2	21	75	4	66	47	7	22	23	1.76
41215498--41215527	6	5.0	6	100	0	60	50	0	0	50	1.00
41218843--41218876	18	1.9	18	94	5	61	55	2	0	41	1.15
41223745--41224218	231	2.1	231	85	2	630	26	32	5	36	1.79
41223749--41224278	231	2.3	231	82	3	595	26	31	5	35	1.80
41224845--41224875	6	5.2	6	100	0	62	35	16	48	0	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41226244--41226302	24	2.5	24	80	0	73	18	33	1	45	1.60
41240248--41240543	40	7.3	40	76	2	313	23	25	25	25	2.00
41240192--41240569	81	4.7	81	97	0	693	23	23	26	27	2.00
41248719--41248771	24	2.2	24	89	0	79	20	43	3	32	1.70
41255064--41255129	27	2.5	27	92	2	107	42	21	22	13	1.88
41255064--41255147	27	3.1	27	81	5	100	41	20	22	15	1.89
41256582--41256658	24	3.2	24	84	0	100	22	38	3	35	1.72
41262147--41262270	43	2.9	43	84	7	153	27	16	25	31	1.96
41280484--41280546	28	2.3	27	80	5	72	22	25	23	28	1.99
41282271--41282368	49	2.0	50	85	2	135	42	11	16	29	1.82
41282405--41282439	18	1.9	18	94	0	61	28	2	2	65	1.21
41294986--41295025	6	6.7	6	97	0	71	20	0	0	80	0.72
41298545--41298574	13	2.3	13	94	0	51	36	23	3	36	1.71
41298673--41299012	183	1.9	184	85	0	475	21	23	14	41	1.89
41298658--41299022	46	8.0	46	85	1	419	21	23	14	40	1.90
41304787--41304849	29	2.2	29	91	0	108	19	23	33	23	1.97
41309566--41309627	24	2.6	24	89	2	99	27	6	16	50	1.69
41314428--41314460	17	1.9	17	93	0	57	45	21	12	21	1.84
41323851--41323891	18	2.3	18	100	0	82	41	24	9	24	1.85
41326209--41326240	16	1.9	17	93	6	57	56	15	0	28	1.40
41330522--41330850	69	4.8	69	81	3	376	37	24	18	20	1.94
41330520--41330850	137	2.4	137	86	3	434	36	23	18	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41330860--41331070	58	3.7	58	80	4	221	30	21	12	35	1.91
41331633--41331659	13	2.1	13	100	0	54	7	48	22	22	1.75
41344208--41344246	21	1.9	21	94	5	71	23	30	35	10	1.88
41346229--41346385	43	3.7	41	71	13	111	26	17	26	30	1.97
41349077--41349247	94	1.8	94	83	9	233	27	29	19	22	1.98
41350975--41351016	8	5.2	8	85	8	50	45	0	0	54	0.99
41351037--41351083	22	2.1	22	84	7	60	70	2	2	25	1.10
41351161--41351207	17	2.8	16	81	15	58	51	0	6	42	1.27
41357585--41357637	19	2.8	19	82	5	63	56	1	1	39	1.21
41357659--41357711	22	2.5	22	78	6	56	67	1	5	24	1.22
41357825--41357880	25	2.4	23	77	13	62	41	1	1	55	1.21
41359802--41359863	18	3.3	18	72	12	61	37	24	24	14	1.93
41361825--41362356	287	1.9	288	95	0	976	24	18	21	34	1.96
41362929--41363321	44	8.9	44	74	10	259	28	25	15	30	1.96
41367476--41367565	45	2.0	45	93	0	153	35	27	13	23	1.92
41373348--41373410	31	2.0	32	84	9	85	47	0	4	47	1.23
41375138--41375248	45	2.5	45	86	2	161	21	18	18	42	1.89
41375123--41375248	45	2.6	50	76	17	138	21	19	18	41	1.91
41375428--41375613	18	10.3	18	75	9	110	35	11	13	38	1.82
41375500--41375612	54	2.1	54	80	9	124	34	11	13	40	1.80
41375416--41375618	72	2.8	72	79	4	178	36	11	14	37	1.82
41375518--41375698	54	3.2	55	73	16	154	33	12	16	37	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41375480--41375711	18	12.5	18	70	9	90	35	11	15	37	1.83
41378640--41378743	5	21.0	5	70	23	62	60	0	1	36	1.14
41378646--41378733	3	29.7	3	71	21	53	62	1	0	36	1.03
41378644--41378756	39	2.9	38	82	15	124	62	0	1	34	1.11
41378642--41378835	20	9.5	21	64	21	58	59	3	2	35	1.24
41378787--41378844	26	2.1	29	84	12	77	65	0	1	32	1.03
41387393--41387418	11	2.4	11	100	0	52	57	7	0	34	1.27
41394128--41394246	44	2.8	43	82	8	136	23	19	25	31	1.98
41394172--41394280	42	2.6	42	79	7	121	26	18	23	31	1.97
41401136--41401403	134	2.0	134	100	0	536	44	12	16	26	1.83
41404439--41404495	28	2.0	28	100	0	114	35	17	24	22	1.95
41410517--41410557	20	2.0	20	95	0	73	31	19	21	26	1.97
41419640--41419811	93	1.8	93	95	2	310	28	29	20	20	1.98
41419633--41419808	46	3.8	46	79	14	209	29	29	20	20	1.98
41426721--41426939	46	4.7	46	83	8	246	27	21	29	21	1.98
41433853--41433890	18	2.2	18	86	9	53	63	2	10	23	1.39
41437073--41437099	13	2.1	13	100	0	54	14	14	7	62	1.51
41441905--41441957	21	2.7	19	78	16	54	45	0	3	50	1.19
41442588--41442620	12	2.8	12	90	9	50	51	3	3	42	1.32
41445050--41445098	17	2.8	18	84	6	73	34	2	0	63	1.06
41452268--41452305	17	2.3	16	90	4	58	42	5	0	52	1.24
41452811--41452835	13	1.9	13	100	0	50	64	4	0	32	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41454121--41454173	26	2.1	24	89	6	79	54	1	0	43	1.11
41454877--41454909	16	2.1	16	94	0	57	33	12	39	15	1.84
41457917--41458286	185	2.0	185	98	0	713	30	7	19	42	1.78
41458997--41459158	45	3.6	45	93	0	263	24	22	27	26	2.00
41473135--41473184	10	4.8	10	80	9	55	60	12	0	28	1.32
41474289--41474333	8	5.5	8	86	5	54	66	0	0	33	0.92
41474289--41474337	25	1.9	26	87	4	73	67	0	0	32	0.91
41474290--41474330	17	2.4	17	83	4	55	65	0	0	34	0.93
41475113--41475142	15	2.0	15	93	0	51	30	3	0	66	1.07
41477576--41477678	43	2.4	43	83	6	120	28	16	21	33	1.95
41484089--41484351	40	6.6	40	88	3	325	26	27	20	24	1.99
41489574--41489611	19	2.0	19	100	0	76	31	31	10	26	1.90
41500669--41500846	27	6.6	27	84	3	205	29	28	15	26	1.96
41500690--41500845	82	1.9	81	88	3	233	29	28	15	26	1.96
41510997--41511027	14	2.2	14	100	0	62	38	25	0	35	1.56
41511638--41511707	35	2.0	35	100	0	140	51	17	8	22	1.72
41514437--41514556	43	2.8	42	79	7	152	27	25	16	30	1.97
41524870--41524910	12	3.4	12	96	0	73	51	0	7	41	1.30
41528888--41529997	47	23.6	47	98	0	2148	27	29	8	34	1.86
41534083--41534121	20	2.0	20	90	10	62	53	7	2	35	1.43
41536364--41536424	27	2.2	28	80	8	72	27	31	11	29	1.92
41540882--41540926	22	2.0	22	95	0	81	28	22	4	44	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41543132--41543158	13	2.1	13	100	0	54	14	29	33	22	1.94
41546967--41547078	33	3.4	32	81	9	120	37	13	24	25	1.91
41546975--41547078	32	3.2	31	82	5	109	37	12	25	25	1.91
41547071--41547244	31	5.5	31	82	5	208	28	16	26	28	1.97
41547308--41547372	27	2.4	27	89	0	94	40	12	26	21	1.88
41556925--41557116	40	4.8	40	79	7	178	26	21	26	25	2.00
41556925--41557109	79	2.3	81	83	7	227	25	22	26	25	2.00
41556978--41557142	79	2.1	79	82	6	192	26	21	26	26	1.99
41559653--41559702	27	1.9	26	84	8	66	32	2	18	48	1.59
41562523--41562610	33	2.7	33	85	1	115	40	12	22	23	1.88

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