genome.fa.s2.2.7.7.80.10.50.1000.129.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  129  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)
42158822--42158961	27	5.2	27	83	3	174	41	21	5	31	1.76
42158822--42159074	54	4.6	54	75	10	192	40	20	8	31	1.82
42158837--42158988	81	1.9	81	86	8	220	42	20	7	30	1.79
42158835--42159073	27	8.8	27	74	9	155	41	19	8	30	1.81
42159092--42159169	27	2.9	27	75	11	79	37	21	19	21	1.95
42160330--42160377	25	1.9	25	86	0	69	33	25	16	25	1.96
42160414--42160464	20	2.5	20	93	0	84	35	11	21	31	1.90
42160511--42160679	25	7.0	24	86	6	202	27	21	22	28	1.99
42160511--42160677	74	2.3	73	82	9	191	27	21	22	28	1.99
42161078--42161189	56	2.0	56	100	0	224	21	19	35	23	1.96
42163560--42163595	18	1.9	19	94	5	65	63	30	0	5	1.17
42174161--42174399	86	2.7	86	78	12	199	29	14	20	35	1.92
42174323--42174623	71	4.1	73	85	7	394	31	15	20	32	1.94
42174569--42174685	58	2.0	59	91	1	191	24	18	25	30	1.98
42174498--42174891	135	2.9	125	82	10	338	29	17	21	30	1.96
42174627--42176012	221	6.1	217	78	11	1329	30	15	20	33	1.94
42174627--42176012	149	9.2	146	80	10	1289	30	15	20	33	1.94
42174627--42176012	72	18.4	74	79	9	1279	30	15	20	33	1.94
42175355--42176223	396	2.2	397	95	1	1571	29	15	20	34	1.94
42188033--42188200	88	1.9	88	100	0	336	24	16	8	50	1.74
42189642--42189762	56	2.2	56	87	0	179	27	14	24	33	1.95
42189642--42189791	56	2.7	56	81	4	151	26	15	26	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42192362--42192488	48	2.6	48	81	5	139	29	16	29	23	1.96
42198342--42198384	16	2.7	16	82	7	52	51	11	20	16	1.75
42198606--42198730	29	4.4	28	80	6	112	28	12	32	26	1.93
42205752--42205927	50	3.5	49	80	7	176	28	28	17	25	1.97
42205752--42205938	101	1.9	99	85	4	259	28	29	17	25	1.97
42217028--42217057	16	1.9	15	93	6	51	13	6	0	80	0.91
42217033--42217084	21	2.4	22	84	12	72	15	3	1	78	0.98
42217034--42217109	32	2.2	35	76	21	81	18	5	1	75	1.07
42217033--42217110	12	6.9	11	75	15	63	17	5	1	75	1.05
42220043--42220358	163	1.9	163	93	0	542	23	18	17	40	1.91
42228902--42229022	58	2.1	59	84	1	154	33	22	19	25	1.97
42235577--42235754	42	4.2	43	84	3	209	16	25	35	22	1.95
42235577--42235754	85	2.1	84	84	4	232	16	25	35	22	1.95
42235577--42236229	43	15.4	43	75	9	318	17	28	31	21	1.96
42235747--42236307	127	4.4	126	78	5	481	18	30	30	20	1.96
42235717--42236311	170	3.5	169	80	6	546	18	29	30	20	1.96
42235742--42236453	43	16.5	43	73	10	420	18	30	30	20	1.96
42236347--42236479	43	3.1	42	73	7	124	16	27	33	22	1.96
42256249--42256380	43	3.1	42	76	2	147	17	29	32	20	1.95
42256091--42256366	42	6.5	42	76	8	200	19	28	31	19	1.97
42256527--42256803	43	6.5	41	70	13	150	20	29	30	19	1.97
42256735--42256814	42	1.9	42	94	0	142	13	30	35	21	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42257993--42258255	43	6.2	42	76	7	226	18	31	28	20	1.96
42261219--42261331	38	2.9	38	89	2	154	22	24	27	25	2.00
42261235--42261337	38	2.7	38	92	0	161	21	24	26	28	1.99
42261314--42261395	43	2.0	43	82	4	105	12	24	30	32	1.92
42261364--42261422	27	2.2	27	96	0	109	6	22	37	33	1.80
42268663--42268826	43	3.8	43	85	0	220	19	31	29	20	1.97
42269305--42269347	11	4.0	11	81	6	61	48	0	6	44	1.29
42271336--42271390	16	3.4	16	82	5	67	38	5	25	30	1.79
42271537--42271586	26	2.0	26	88	4	75	38	2	8	52	1.43
42271651--42271727	12	6.4	12	74	19	56	50	2	0	46	1.15
42271651--42271734	34	2.3	37	80	15	104	51	2	0	46	1.14
42271699--42271738	14	2.9	14	92	7	64	55	0	0	45	0.99
42272091--42272166	31	2.5	31	87	12	104	36	14	6	42	1.72
42279126--42279152	14	1.9	14	100	0	54	14	40	14	29	1.86
42282006--42282123	46	2.6	46	83	2	139	21	32	17	28	1.96
42291177--42291220	22	2.0	22	86	8	63	65	0	4	29	1.12
42292755--42292813	9	5.9	9	80	20	64	49	0	13	37	1.43
42297485--42297709	49	4.5	49	88	2	306	24	17	28	29	1.98
42297478--42297717	99	2.4	100	85	2	322	24	18	28	28	1.98
42302602--42302864	69	3.8	68	85	7	284	46	17	9	26	1.80
42306659--42306832	94	1.9	94	86	4	253	25	27	18	28	1.98
42306651--42306832	46	3.9	46	80	7	208	25	26	18	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42306651--42306844	94	2.1	94	82	5	241	26	26	18	28	1.98
42313031--42313070	21	2.0	21	90	5	64	22	25	37	15	1.93
42325332--42325374	15	2.9	15	79	6	52	9	16	2	72	1.21
42327403--42327442	7	5.3	7	85	14	53	12	2	0	85	0.71
42327402--42327439	8	4.8	8	87	12	60	10	2	0	86	0.66
42327403--42327442	15	2.6	16	96	4	73	12	2	0	85	0.71
42328884--42328936	27	2.0	26	85	3	70	37	13	15	33	1.86
42331978--42332154	50	3.6	48	84	8	205	29	25	18	26	1.98
42333763--42333790	14	2.0	14	100	0	56	14	28	14	42	1.84
42337537--42337642	53	2.0	53	94	0	185	28	26	6	38	1.81
42339537--42339713	50	3.5	49	77	10	189	29	24	18	27	1.98
42347569--42347624	29	1.9	29	96	0	103	21	7	30	41	1.80
42351716--42351765	25	2.0	25	100	0	100	72	4	12	12	1.26
42351889--42351938	21	2.2	21	82	10	55	38	2	12	48	1.52
42356728--42356777	26	1.9	26	91	0	82	46	10	2	42	1.49
42357967--42358045	38	2.1	38	97	0	149	53	18	3	24	1.61
42358416--42358482	32	2.1	32	100	0	134	38	11	2	46	1.56
42359681--42359740	30	2.0	30	100	0	120	40	3	6	50	1.45
42360768--42360817	17	2.7	20	78	18	70	10	0	44	46	1.37
42365407--42365456	17	2.7	20	78	18	70	10	0	44	46	1.37
42366102--42366146	22	2.0	22	100	0	90	48	8	0	42	1.34
42392201--42392348	77	1.9	77	88	0	224	29	14	19	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42397414--42397456	18	2.4	18	96	0	77	44	6	18	30	1.76
42406193--42406369	45	3.9	45	83	4	214	28	26	22	23	1.99
42408605--42408668	32	2.0	32	100	0	128	28	18	18	34	1.95
42413679--42413847	45	3.8	45	92	1	277	27	26	23	22	2.00
42415777--42415840	32	2.0	32	100	0	128	28	18	18	34	1.95
42425974--42426196	79	2.8	78	83	7	272	24	27	22	25	2.00
42425974--42426196	39	5.7	40	87	6	280	24	27	22	25	2.00
42432965--42433020	28	2.0	28	92	0	94	41	23	0	35	1.55
42440242--42440426	79	2.3	81	83	7	227	24	22	27	24	2.00
42440243--42440426	40	4.6	40	82	9	207	25	22	27	24	2.00
42440295--42440449	79	2.0	79	83	7	199	26	21	27	25	1.99
42442682--42442753	36	2.0	36	97	0	135	37	19	12	30	1.89
42442990--42443157	40	4.2	40	82	4	106	25	25	23	25	2.00
42443013--42443157	40	3.6	40	84	4	184	24	24	24	26	2.00
42444344--42444419	38	2.0	38	97	0	143	31	23	14	30	1.94
42447546--42447796	47	5.4	47	87	2	328	31	9	32	26	1.89
42447927--42448006	37	2.2	37	86	4	108	23	17	31	27	1.97
42453146--42453290	40	3.6	40	79	4	157	23	24	24	27	2.00
42455561--42455624	32	2.0	32	96	0	119	42	20	6	31	1.77
42457856--42457903	22	2.2	22	81	11	62	16	31	20	31	1.95
42457862--42457904	21	2.0	22	90	4	70	18	30	18	32	1.95
42467332--42467375	19	2.4	19	84	3	54	70	4	4	20	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42470199--42470244	25	1.9	23	82	8	56	39	10	2	47	1.51
42470703--42470765	33	1.9	33	96	0	117	25	17	22	34	1.95
42471283--42471352	33	2.1	34	89	7	108	31	22	24	21	1.98
42471881--42471950	33	2.1	33	86	0	95	14	28	30	27	1.95
42474248--42474297	24	2.1	24	100	0	100	36	16	30	18	1.92
42481363--42481431	35	2.0	35	83	11	88	46	5	5	42	1.52
42485747--42486149	86	4.8	85	75	6	327	32	13	9	44	1.76
42486190--42486251	30	2.1	30	93	0	106	30	20	8	40	1.82
42487016--42487147	7	18.4	7	73	4	102	25	0	25	49	1.51
42487105--42487153	15	3.3	15	88	0	71	20	0	34	44	1.52

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