genome.fa.s2.2.7.7.80.10.50.1000.96.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  96  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)
31127823--31128021	81	2.5	81	83	3	222	30	7	21	41	1.80
31127898--31128048	81	1.9	81	87	2	223	29	9	20	40	1.84
31128010--31128086	27	2.9	27	84	0	100	27	18	18	36	1.94
31127823--31128074	54	4.7	53	76	6	177	29	9	20	40	1.85
31131462--31131492	15	2.1	15	100	0	62	25	12	19	41	1.87
31133600--31133647	24	2.0	24	100	0	96	25	8	37	29	1.85
31138416--31138570	43	3.7	43	77	10	165	24	18	27	29	1.98
31144507--31144628	46	2.6	47	82	5	138	27	22	14	36	1.93
31145287--31145312	12	2.2	12	100	0	52	30	11	7	50	1.67
31148947--31149164	47	4.6	48	74	13	179	29	18	29	22	1.98
31148947--31149111	46	3.5	47	73	14	128	29	18	29	22	1.98
31148939--31149164	94	2.4	96	78	9	259	28	18	29	23	1.98
31162908--31162941	17	1.9	17	88	5	50	14	44	29	11	1.81
31177144--31177248	40	2.6	41	80	8	126	23	23	27	24	2.00
31178526--31178684	80	2.0	79	98	0	300	27	23	22	26	1.99
31184966--31185012	20	2.3	20	81	0	58	29	34	12	23	1.92
31195999--31196061	32	2.0	32	100	0	126	31	22	6	39	1.79
31212066--31212119	15	3.5	15	82	9	72	35	38	16	9	1.81
31212066--31212119	17	3.3	17	87	5	76	35	38	16	9	1.81
31217141--31217352	46	4.5	48	74	10	179	24	27	19	29	1.98
31217141--31217355	94	2.3	94	86	1	279	23	27	20	28	1.99
31222676--31222709	16	2.2	16	89	5	52	38	23	26	11	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31222821--31222856	17	2.1	18	89	5	56	19	27	36	16	1.93
31222917--31222997	27	3.0	27	85	0	108	33	14	20	30	1.93
31223004--31223207	27	7.8	27	74	16	112	40	20	9	29	1.84
31223013--31223230	54	4.1	55	75	14	192	40	19	9	29	1.84
31223125--31223257	27	4.9	27	87	4	162	43	18	9	29	1.80
31223250--31223302	28	1.9	27	85	11	72	32	11	18	37	1.87
31225149--31225180	15	2.1	16	94	5	57	25	0	6	68	1.12
31225365--31225410	22	2.1	21	88	11	67	34	17	17	30	1.93
31227518--31227592	6	11.8	6	73	9	51	69	0	22	8	1.14
31229764--31229896	29	4.7	29	80	6	146	32	30	15	21	1.94
31229764--31229896	57	2.3	57	83	5	144	32	30	15	21	1.94
31229904--31230063	40	3.9	40	79	10	180	25	29	23	21	1.99
31231027--31231129	37	2.8	37	89	0	161	24	31	20	24	1.98
31231301--31231465	48	3.4	48	97	0	312	29	27	8	33	1.86
31235600--31235919	27	11.9	27	77	9	269	38	20	11	30	1.87
31235593--31235921	108	3.1	108	86	3	414	37	20	11	30	1.88
31235593--31235921	54	6.1	55	82	6	311	37	20	11	30	1.88
31238520--31238657	70	2.0	70	92	0	231	15	27	15	42	1.86
31239824--31240143	27	11.9	27	77	11	177	37	18	12	32	1.87
31239823--31240143	54	6.0	53	78	8	267	37	18	12	32	1.88
31239818--31240143	81	4.0	81	77	9	292	36	18	12	31	1.89
31243959--31244227	27	10.0	27	75	12	200	36	18	13	32	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31243960--31244228	54	5.0	53	75	11	226	36	18	13	32	1.89
31243959--31244254	81	3.7	80	77	9	273	36	17	13	32	1.88
31244074--31244268	27	7.2	27	77	14	106	37	16	13	32	1.87
31247841--31247898	29	2.0	29	100	0	116	44	3	20	31	1.68
31253604--31253681	27	2.9	27	79	11	88	20	20	21	37	1.95
31253722--31253829	27	3.9	27	78	13	94	31	8	17	42	1.79
31253786--31253914	27	4.8	26	72	8	98	28	6	19	44	1.76
31253913--31254029	27	4.4	27	87	5	175	36	5	25	31	1.80
31255966--31256018	23	2.3	23	100	0	106	32	11	13	43	1.79
31267110--31267318	40	5.2	40	79	8	201	25	22	27	24	2.00
31267094--31267318	120	1.9	121	83	4	294	25	23	26	24	2.00
31282555--31282727	46	3.7	46	78	10	199	22	20	27	28	1.99
31282552--31282722	93	1.8	93	93	0	297	22	21	28	28	1.99
31292761--31292808	26	1.9	24	100	0	78	43	10	16	29	1.81
31295675--31295719	20	2.2	20	88	0	63	35	15	20	28	1.93
31307952--31308019	29	2.3	30	80	11	79	25	11	7	55	1.61
31308233--31308289	29	1.9	29	85	3	78	31	5	10	52	1.58
31310780--31310817	14	2.8	14	88	4	51	57	2	31	7	1.41
31311762--31311805	19	2.4	19	85	7	56	50	0	9	40	1.34
31311897--31311925	15	1.9	15	100	0	58	41	0	0	58	0.98
31312553--31313198	320	2.0	320	99	0	1265	28	15	31	23	1.96
31313220--31313265	5	9.2	5	90	0	74	2	19	0	78	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31314344--31314406	26	2.4	27	86	2	83	31	25	15	26	1.96
31314720--31314864	60	2.4	59	86	7	186	29	18	23	28	1.98
31314762--31314867	28	3.7	27	69	27	83	29	18	25	26	1.98
31316886--31316929	19	2.4	19	85	7	56	50	0	9	40	1.34
31317018--31317046	15	1.9	15	100	0	58	41	0	0	58	0.98
31319877--31319989	28	3.9	27	71	21	86	29	20	24	25	1.99
31319844--31319979	60	2.3	59	86	8	177	28	20	25	25	1.99
31326060--31326086	13	2.1	13	100	0	54	14	7	22	55	1.64
31328433--31328553	46	2.6	46	85	2	143	29	17	28	24	1.97
31329922--31330131	46	4.5	46	77	7	228	23	20	25	30	1.99
31332600--31333672	47	22.7	47	97	0	1923	32	7	29	30	1.84
31333791--31333869	37	2.1	37	90	0	122	24	18	31	25	1.98
31336671--31336713	20	2.2	20	95	0	77	18	27	32	20	1.96
31341736--31341876	48	2.9	48	83	0	183	29	26	18	25	1.98
31344597--31344657	30	2.0	30	83	0	77	29	24	6	39	1.80
31346121--31346164	19	2.3	19	84	4	52	31	9	11	47	1.71
31346604--31346692	22	4.0	22	75	10	99	46	23	4	25	1.71
31347641--31347701	32	1.9	32	90	6	97	47	18	6	27	1.73
31357502--31357763	39	6.7	40	87	7	337	25	22	27	24	2.00
31366359--31366446	43	2.0	43	86	0	122	26	13	26	34	1.93
31370993--31371094	24	4.1	23	81	13	107	21	24	19	34	1.96
31373116--31373175	30	2.0	30	96	0	111	35	23	6	35	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31374141--31374179	19	2.0	20	85	9	55	48	17	2	30	1.61
31379609--31379695	44	2.0	43	93	0	138	26	16	21	34	1.94
31394137--31394178	22	2.1	19	86	13	57	45	4	0	50	1.23
31399747--31399864	41	2.9	41	78	6	114	30	25	16	27	1.97
31404046--31404290	49	4.9	50	78	4	253	25	19	27	27	1.99
31419331--31419374	11	4.1	11	88	5	72	56	0	0	43	0.99
31419332--31419374	21	2.0	21	95	0	77	55	0	0	44	0.99
31423795--31423840	20	2.3	20	81	7	58	23	4	21	50	1.67
31425144--31425264	43	2.8	43	91	0	188	28	12	25	33	1.92
31427801--31427907	28	3.7	27	71	21	74	25	28	20	26	1.99
31427936--31427991	20	2.8	20	83	2	69	33	23	16	26	1.95
31433433--31433485	28	1.9	27	84	3	70	26	24	20	28	1.99
31433575--31433630	20	2.8	20	83	2	69	33	23	16	26	1.95
31435485--31435922	219	2.0	220	89	2	666	30	28	13	26	1.94
31437001--31437054	27	2.0	27	85	0	72	38	14	7	38	1.75
31439595--31439772	27	6.6	27	85	2	223	29	20	8	42	1.81
31439594--31439772	81	2.2	81	87	0	259	29	20	8	41	1.81
31439594--31439800	81	2.5	79	81	7	209	28	19	10	42	1.84
31439995--31440129	71	2.0	67	83	5	171	20	26	20	32	1.97
31440098--31440157	27	2.3	26	82	2	66	21	21	20	36	1.95
31440276--31440348	31	2.4	31	90	0	110	16	19	16	47	1.82
31440276--31440369	6	15.3	6	71	16	68	17	18	15	48	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31441537--31441597	30	2.0	30	100	0	122	47	19	6	26	1.74
31444907--31445095	40	4.7	40	88	2	272	26	26	22	24	2.00
31452982--31453169	40	4.7	40	92	0	324	25	28	22	24	1.99
31455989--31456025	8	4.6	8	100	0	74	48	13	0	37	1.43
31459295--31459355	30	2.1	29	90	3	95	26	18	21	34	1.96
31460627--31460755	49	2.6	50	79	7	147	27	19	28	24	1.99
31473430--31473462	8	4.1	8	92	0	57	48	24	24	3	1.65
31473708--31473772	28	2.3	28	94	0	112	33	27	7	30	1.85
31473878--31473967	28	3.2	27	79	7	92	23	23	21	32	1.98
31473888--31473978	27	3.2	28	76	7	78	25	25	17	31	1.97

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