genome.fa.s25.2.7.7.80.10.50.1000.31.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_chr12
Parameters: 2 7 7 80 10 50 1000
Length:  101062743

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   

This is table  31  of  297  ( 35593 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)
10651603--10651802	54	3.7	53	81	2	193	38	21	9	30	1.85
10651603--10651840	81	2.9	80	77	6	255	37	21	8	31	1.84
10651832--10652155	27	12.0	27	85	0	396	36	18	20	24	1.94
10651823--10652155	81	4.1	81	88	1	452	37	17	19	25	1.94
10652380--10652459	27	3.0	27	87	3	99	22	20	21	36	1.95
10652674--10652755	27	3.1	27	79	8	87	20	23	19	36	1.95
10659665--10659975	48	6.5	49	77	6	255	28	29	15	26	1.96
10659663--10659986	96	3.4	94	81	3	283	29	29	15	25	1.96
10659665--10659975	142	2.2	142	84	4	385	28	29	15	26	1.96
10662220--10662317	48	2.0	48	98	0	187	32	29	15	22	1.95
10668333--10668552	40	5.6	40	79	5	232	25	25	22	25	2.00
10668960--10669104	73	2.0	73	98	0	281	37	13	17	31	1.89
10676562--10676745	40	4.6	40	85	4	237	25	27	22	25	2.00
10679100--10679329	48	4.8	48	86	2	293	27	27	19	26	1.99
10700197--10700368	93	1.8	93	94	0	308	28	29	20	20	1.98
10700190--10700365	46	3.8	46	79	12	207	29	29	20	20	1.98
10700239--10700377	47	3.0	46	75	16	144	29	28	19	22	1.98
10703950--10704043	46	2.0	46	100	0	188	40	19	6	34	1.77
10707890--10707971	42	1.9	43	95	2	148	42	13	19	24	1.87
10708278--10708351	38	1.9	38	94	0	130	21	16	32	29	1.95
10714331--10714403	29	2.6	29	89	6	105	32	26	12	28	1.92
10715407--10715537	66	2.0	66	96	0	244	32	22	16	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10721762--10721933	93	1.8	93	93	0	299	27	29	22	20	1.98
10721753--10721932	46	3.9	46	82	12	224	28	29	21	20	1.98
10721805--10721948	46	3.1	45	76	11	148	29	28	20	20	1.98
10727939--10728027	30	3.0	30	79	11	94	55	15	19	10	1.68
10727950--10728027	15	5.2	15	73	11	70	53	15	19	11	1.71
10730965--10731135	93	1.8	93	96	0	315	28	28	21	21	1.99
10730957--10731132	46	3.8	46	79	12	216	28	28	21	21	1.98
10733530--10733600	15	4.7	15	71	13	56	56	12	21	9	1.65
10736537--10736758	46	4.8	46	81	11	274	31	29	18	21	1.97
10736591--10736761	93	1.8	93	98	0	333	30	29	18	21	1.97
10739067--10739491	221	1.9	221	94	0	742	24	16	23	35	1.95
10744412--10744550	70	2.0	70	89	0	215	33	22	22	22	1.98
10744856--10744894	21	1.9	20	84	5	51	12	33	28	25	1.93
10746940--10747088	44	3.5	41	75	11	131	32	25	18	23	1.97
10749540--10749665	40	3.2	39	82	5	155	25	27	23	23	2.00
10750668--10751434	66	11.6	66	100	0	1534	30	15	17	36	1.91
10755404--10755443	19	2.1	19	90	0	62	27	15	20	37	1.92
10761741--10761905	40	4.2	40	89	2	235	26	27	22	23	1.99
10762908--10763674	66	11.6	66	100	0	1534	30	15	17	36	1.91
10767039--10767171	45	3.0	45	93	0	221	27	14	20	38	1.91
10767092--10767161	21	3.2	21	66	18	61	28	14	17	40	1.88
10767061--10767134	24	3.2	24	63	18	66	28	16	17	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10768784--10768863	31	2.6	31	79	11	87	32	5	0	62	1.17
10768828--10768860	17	1.9	17	93	0	57	36	6	0	57	1.23
10771110--10771287	85	2.1	84	97	1	338	37	8	27	26	1.86
10772454--10772636	79	2.3	81	83	7	223	24	22	27	25	2.00
10772455--10772638	40	4.6	39	82	9	203	24	22	27	25	2.00
10772507--10772661	79	2.0	79	83	7	199	25	21	27	25	1.99
10785259--10785345	43	2.0	43	93	0	147	37	19	29	12	1.89
10789812--10789916	47	2.2	47	96	0	192	34	7	30	27	1.85
10795831--10795928	27	3.5	28	90	2	135	26	13	28	31	1.94
10795859--10795941	27	3.0	27	87	5	96	30	12	25	32	1.92
10795831--10795942	28	4.0	27	83	6	98	28	12	25	33	1.92
10797439--10797650	40	5.1	40	74	13	171	28	15	27	28	1.96
10797439--10797798	44	8.6	44	70	18	241	30	15	26	26	1.96
10797489--10797806	126	2.5	125	79	7	338	30	15	26	27	1.96
10801075--10801101	12	2.2	12	100	0	54	51	7	0	40	1.30
10801584--10801734	27	5.6	27	82	1	167	26	16	27	29	1.97
10801583--10801731	55	2.7	55	83	2	167	26	16	26	30	1.97
10808163--10808257	43	2.2	43	80	10	106	35	22	13	28	1.92
10814758--10814801	22	2.0	22	100	0	88	54	0	4	40	1.21
10818961--10819394	28	15.5	28	98	0	807	34	25	11	28	1.90
10819841--10819868	14	2.0	14	100	0	56	42	0	7	50	1.30
10825604--10825715	43	2.6	44	74	13	117	33	24	16	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10832993--10833230	49	4.8	49	87	2	305	28	27	18	25	1.98
10832993--10833238	101	2.5	99	85	2	332	28	27	18	25	1.98
10843862--10843918	30	1.9	30	92	0	96	33	8	26	31	1.87
10844393--10844570	97	1.8	97	84	7	245	25	21	29	23	1.99
10851429--10851484	28	2.0	28	96	0	103	30	12	7	50	1.67
10851437--10851496	28	2.1	28	84	0	75	31	18	6	43	1.76
10863082--10863260	48	3.7	48	90	0	268	27	27	18	26	1.99
10863072--10863246	96	1.8	96	92	0	296	26	27	18	26	1.98
10866354--10866493	75	1.9	75	86	3	201	20	18	22	37	1.94
10866367--10866511	40	3.8	40	68	18	101	21	19	22	36	1.95
10879737--10879786	17	2.8	18	85	8	59	20	4	2	74	1.08
10879793--10879848	22	2.5	23	80	8	71	16	10	0	73	1.10
10882985--10883151	84	2.0	84	93	0	289	27	13	25	33	1.93
10883676--10883728	17	3.2	17	82	15	58	20	1	1	75	0.99
10884675--10884750	38	2.0	38	94	0	134	28	21	26	23	1.99
10888472--10888613	2	71.0	2	100	0	284	0	50	0	50	1.00
10893244--10893288	22	2.0	22	91	0	72	48	15	2	33	1.57
10897839--10897888	22	2.2	22	89	3	73	50	16	2	32	1.56
10913827--10913949	46	2.7	46	91	5	212	31	16	28	23	1.96
10914015--10914133	49	2.4	49	83	2	141	31	21	26	21	1.98
10915460--10915634	46	3.8	46	96	0	314	20	21	29	29	1.98
10923084--10923258	46	3.8	46	96	0	314	20	21	29	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10924980--10925079	43	2.3	43	87	1	139	14	25	36	25	1.93
10929970--10930006	19	1.9	19	94	0	65	37	16	13	32	1.87
10934577--10934645	34	2.0	34	94	0	120	39	18	10	31	1.84
10935522--10935558	16	2.3	16	95	0	65	18	29	24	27	1.98
10937042--10937159	57	2.1	58	90	1	184	47	12	5	33	1.66
10944206--10944723	47	10.9	47	93	2	874	29	27	8	33	1.87
10944206--10944723	96	5.4	94	94	2	883	29	27	8	33	1.87
10947300--10947344	21	2.0	23	91	8	76	15	20	22	42	1.89
10950094--10950219	23	5.5	23	83	7	118	16	25	19	38	1.93
10953314--10953343	14	2.1	14	100	0	60	36	0	13	50	1.42
10953618--10953887	48	5.6	48	79	6	287	28	20	28	22	1.98
10953618--10953887	95	2.8	96	84	2	346	28	20	28	22	1.98
10953615--10953887	143	1.9	143	85	5	381	28	20	28	22	1.98
10959516--10959767	46	5.5	45	80	9	244	26	19	29	24	1.98
10959511--10959766	93	2.8	92	81	7	297	26	19	29	23	1.99
10966925--10967008	29	2.9	29	85	3	107	28	29	17	23	1.97
10966895--10967007	58	2.0	57	84	5	147	27	28	16	27	1.97
10970220--10970252	13	2.6	13	90	4	50	48	12	0	39	1.40
10975852--10975931	40	2.0	39	90	2	124	27	27	25	18	1.98
10979270--10979317	25	2.0	25	91	4	80	50	2	4	43	1.33
10982045--10982239	49	4.2	45	79	13	143	30	27	13	28	1.94
10982072--10982239	47	3.6	47	82	4	187	30	27	14	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10982261--10982409	31	4.8	31	89	0	226	25	27	20	26	1.99
10982385--10982512	50	2.5	51	88	2	186	25	23	16	34	1.95
10987932--10988028	24	4.1	24	81	2	106	18	10	38	32	1.85
10992284--10992440	47	3.4	46	80	10	144	28	17	29	24	1.97
11000666--11000886	79	2.8	80	84	6	272	26	20	27	25	1.99
11000702--11000919	80	2.8	79	85	6	257	27	20	26	25	1.99
11000666--11000893	40	5.8	40	82	5	232	26	20	27	25	1.99
11001701--11001783	40	2.1	40	93	4	141	50	2	18	28	1.59
11003068--11003224	47	3.4	47	76	11	180	28	19	29	22	1.98
11006821--11006953	47	2.8	47	91	0	221	28	30	9	31	1.89

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