genome.fa.s9.2.7.7.80.10.50.1000.151.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_chr10
Parameters: 2 7 7 80 10 50 1000
Length:  95480121

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   

This is table  151  of  284  ( 34012 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)
50533594--50533628	18	1.9	18	88	0	52	62	2	11	22	1.41
50535033--50535084	20	2.4	22	78	18	56	26	5	25	42	1.77
50535084--50535264	40	4.5	40	83	2	238	23	23	27	24	2.00
50535084--50535300	80	2.7	79	84	4	260	23	23	27	25	2.00
50538298--50538649	40	8.8	40	88	0	488	26	27	20	24	1.99
50539919--50540023	37	2.8	37	94	0	174	25	33	18	22	1.97
50540189--50540399	47	4.5	47	89	0	296	25	28	13	32	1.93
50540370--50540899	48	10.7	48	86	6	702	32	27	6	34	1.81
50540487--50540515	14	2.1	14	100	0	58	41	31	0	27	1.56
50540439--50540572	62	2.1	62	91	1	214	35	29	4	31	1.77
50540370--50540899	193	2.7	199	90	4	804	32	27	6	34	1.81
50548250--50548433	40	4.6	40	79	5	192	25	23	26	24	2.00
50548250--50548468	80	2.8	79	81	4	237	25	23	25	25	2.00
50553195--50553238	22	2.0	22	86	0	61	56	4	0	38	1.20
50554459--50554486	5	5.6	5	100	0	56	17	0	0	82	0.68
50558224--50558346	49	2.5	49	81	6	135	21	28	21	29	1.98
50558316--50558530	93	2.3	93	82	7	244	26	29	20	24	1.99
50558266--50558571	47	6.5	45	71	15	167	24	28	20	26	1.99
50560594--50560676	26	3.1	27	89	6	141	33	1	18	46	1.56
50568244--50568347	55	1.9	55	82	7	131	37	15	23	24	1.93
50578043--50578099	23	2.5	23	100	0	114	52	28	7	12	1.64
50578051--50578093	15	2.9	14	80	13	50	51	27	9	11	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50578673--50578709	15	2.5	15	100	0	74	27	5	32	35	1.79
50584048--50584090	16	2.7	16	85	0	59	51	13	23	11	1.74
50584302--50584362	29	2.1	29	90	3	97	27	14	27	29	1.95
50584314--50584418	29	3.7	26	79	11	93	28	15	29	26	1.96
50589996--50590021	11	2.4	11	100	0	52	53	19	0	26	1.45
50590471--50591052	27	21.6	27	79	10	392	29	9	21	38	1.86
50590470--50591052	54	10.8	55	83	6	599	29	9	21	38	1.86
50590476--50591052	81	7.1	82	81	6	592	29	9	21	38	1.86
50591374--50591448	28	2.7	28	93	0	123	25	36	16	22	1.94
50596208--50596281	37	2.0	37	94	0	130	18	8	27	45	1.77
50595659--50596850	606	2.0	606	86	2	1694	29	13	22	34	1.92
50596245--50597727	569	2.6	569	96	0	2696	29	13	23	33	1.93
50597428--50598027	300	2.0	300	99	0	1191	30	12	23	33	1.92
50597728--50598822	568	1.9	569	90	1	1757	30	14	23	31	1.94
50599845--50600738	39	22.9	39	98	0	1700	20	18	30	30	1.96
50603453--50603684	56	4.1	56	98	0	446	45	9	21	22	1.81
50604163--50604267	40	2.6	41	80	8	126	23	23	27	24	2.00
50611027--50611411	141	2.8	140	82	9	442	27	19	21	31	1.97
50613031--50613275	120	2.1	118	87	4	350	25	20	27	26	1.99
50612978--50613242	40	6.7	40	90	4	367	24	21	27	26	1.99
50617630--50618455	39	21.2	39	99	0	1607	20	20	30	27	1.98
50622272--50622309	17	2.2	17	95	0	67	50	5	2	42	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50634293--50634334	21	2.0	21	86	9	59	40	26	2	30	1.69
50635849--50636012	43	3.9	42	84	5	188	29	14	24	31	1.95
50642760--50642918	32	4.9	32	83	2	176	35	22	12	29	1.91
50646781--50647052	29	9.4	29	74	11	200	38	12	26	22	1.89
50669620--50669652	16	2.1	16	100	0	66	57	6	24	12	1.57
50671167--50671306	49	2.8	51	79	5	169	31	23	16	28	1.96
50677795--50677942	52	2.9	51	89	4	219	29	29	14	27	1.95
50677774--50677934	52	3.2	50	85	5	216	27	29	14	28	1.95
50686351--50686386	16	2.2	17	90	5	56	55	16	16	11	1.68
50686605--50686694	29	3.1	28	80	13	112	30	10	27	32	1.89
50693670--50693892	40	5.6	40	87	3	254	25	20	27	26	1.99
50693744--50693927	79	2.3	80	82	3	221	26	20	27	25	1.99
50701253--50701462	40	5.3	39	89	4	242	25	21	27	25	1.99
50701200--50701462	120	2.2	120	82	4	309	25	21	27	25	1.99
50701201--50701497	80	3.7	80	81	6	230	26	21	27	24	1.99
50702940--50702972	13	2.5	13	95	0	57	9	36	33	21	1.85
50707489--50707652	43	3.8	43	77	7	172	29	15	22	32	1.94
50708109--50708251	50	2.9	50	91	0	223	25	18	28	27	1.98
50711676--50711981	47	6.7	47	71	12	194	25	30	17	26	1.98
50712938--50712982	19	2.4	19	76	0	54	15	31	31	22	1.95
50714824--50714966	50	2.9	49	83	4	160	27	25	19	27	1.99
50717511--50717618	37	2.9	37	91	0	162	25	31	19	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50717737--50718804	47	22.6	47	96	0	1848	28	30	8	33	1.86
50720293--50720326	17	1.9	18	94	5	61	55	5	11	26	1.58
50721031--50721090	10	6.0	10	84	11	79	68	3	8	20	1.30
50727049--50727102	25	2.2	25	100	0	108	20	25	11	42	1.85
50728909--50729055	43	3.5	41	77	9	136	26	25	20	27	1.99
50730097--50730670	287	2.0	287	100	0	1148	34	21	12	30	1.91
50739200--50739252	19	2.7	19	83	11	63	18	3	1	75	1.05
50740296--50740486	96	2.0	97	82	1	231	29	14	24	31	1.94
50741143--50741202	10	6.0	10	83	11	61	25	6	1	66	1.25
50743249--50743351	40	2.6	40	81	4	111	23	27	24	25	2.00
50747580--50747619	21	2.0	20	85	5	53	35	0	20	45	1.51
50758554--50758593	6	6.7	6	100	0	80	70	15	0	15	1.18
50760130--50760185	29	2.0	29	89	10	89	32	19	23	25	1.98
50765009--50765069	30	2.0	30	83	0	77	31	22	8	37	1.84
50779389--50779430	20	2.0	21	86	13	61	9	33	0	57	1.31
50782461--50782568	26	4.2	26	75	4	87	37	23	21	18	1.95
50788149--50788493	44	8.0	42	78	5	163	29	22	20	28	1.98
50788304--50788491	44	4.3	44	85	6	231	26	21	20	31	1.98
50789422--50789459	19	2.1	18	85	9	51	52	0	7	39	1.31
50795015--50795054	21	1.9	21	94	0	71	47	12	10	30	1.74
50797444--50797518	34	2.2	34	80	7	80	30	25	21	22	1.99
50797459--50797525	34	1.9	35	93	3	118	28	20	19	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50798071--50798101	15	2.1	15	93	0	53	32	9	0	58	1.31
50798470--50798521	25	2.1	25	100	0	104	40	23	7	28	1.82
50798933--50799070	41	3.4	41	92	1	215	20	21	22	35	1.96
50798933--50799141	41	5.1	40	81	8	190	19	20	22	37	1.94
50808650--50808741	44	2.1	44	83	4	114	19	23	25	31	1.98
50808868--50808918	10	5.3	10	74	9	52	39	1	19	39	1.63
50810671--50810695	11	2.3	11	100	0	50	56	20	8	16	1.65
50814984--50815017	11	3.1	11	87	12	52	29	0	0	70	0.87
50816089--50816195	42	2.5	42	81	3	126	29	14	24	30	1.95
50818175--50818206	16	2.0	16	93	0	55	34	18	0	46	1.49
50818406--50818749	50	6.9	50	77	4	307	30	25	16	27	1.97
50818409--50818749	151	2.3	150	90	0	529	31	24	16	27	1.97
50821704--50821742	15	2.6	15	92	8	62	51	15	17	15	1.77
50823446--50823470	13	1.9	13	100	0	50	48	16	4	32	1.64
50824678--50824709	16	2.0	16	93	0	55	34	18	0	46	1.49
50824909--50825551	50	12.8	50	78	4	594	28	25	19	26	1.98
50824912--50825444	101	5.3	101	82	3	328	28	25	18	27	1.98
50824909--50825556	151	4.3	151	83	4	804	28	25	19	26	1.99
50825074--50825543	101	4.7	101	83	4	608	28	25	19	26	1.98
50825903--50825949	19	2.3	20	82	10	60	48	14	0	36	1.44
50830980--50831029	25	2.0	25	96	0	91	34	16	22	28	1.95
50830982--50831035	25	2.2	25	89	0	81	37	16	20	25	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50835014--50835128	29	4.0	29	84	6	137	29	29	13	26	1.95
50835005--50835115	58	1.9	58	87	1	161	29	30	13	26	1.94
50835187--50835220	18	1.9	18	88	5	52	20	38	23	17	1.93
50839295--50839366	30	2.4	29	82	8	83	55	15	15	13	1.69
50839322--50839369	15	3.1	16	77	16	57	58	16	12	12	1.63
50851462--50851620	49	3.3	48	79	5	169	50	10	27	11	1.72
50863176--50863334	49	3.3	49	83	1	187	49	10	27	11	1.73
50870545--50870634	42	2.1	43	81	6	103	28	16	23	31	1.96
50881849--50881937	25	3.6	25	76	3	90	29	17	24	28	1.98
50883297--50883457	84	1.9	84	85	2	225	34	19	14	31	1.92

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