genome.fa.s9.2.7.7.80.10.50.1000.89.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  89  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)
29516468--29516885	209	2.0	207	88	3	617	29	14	28	27	1.95
29516811--29516882	23	3.3	23	64	15	62	27	15	25	31	1.95
29516677--29516918	86	2.8	87	85	6	296	30	14	26	28	1.95
29516708--29516960	130	1.9	130	80	10	286	30	15	26	26	1.96
29517806--29517871	33	2.0	33	85	8	89	9	36	25	28	1.87
29518333--29518391	28	2.1	28	84	9	75	37	5	1	55	1.32
29518409--29518465	21	2.6	21	76	20	55	35	1	0	63	1.05
29518409--29518494	28	3.0	28	78	13	88	34	2	1	61	1.16
29518413--29518467	13	4.4	13	77	13	62	34	1	0	63	1.05
29518409--29518465	29	2.0	29	89	3	89	35	1	0	63	1.05
29518409--29518491	13	6.9	11	74	20	53	34	2	1	61	1.17
29518427--29518541	33	3.4	33	75	12	101	33	3	0	62	1.18
29518498--29518547	22	2.3	21	82	3	64	34	4	0	62	1.14
29521189--29521234	20	2.3	21	75	17	53	32	8	21	36	1.84
29521319--29521358	20	2.1	19	85	4	53	40	15	12	32	1.84
29521938--29521997	18	3.2	18	74	6	57	31	3	3	61	1.28
29524414--29524443	15	2.0	15	93	0	51	30	0	26	43	1.55
29525316--29525558	105	2.3	105	100	0	486	24	20	14	40	1.90
29527255--29528181	207	4.5	207	90	1	1394	30	23	16	29	1.96
29528355--29528497	43	3.3	43	70	23	129	23	20	21	34	1.97
29528306--29528589	87	3.4	86	83	5	341	22	21	23	32	1.98
29529489--29529569	1	81.0	1	72	0	63	0	13	0	86	0.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29529489--29529567	8	9.6	8	80	14	90	0	13	0	86	0.58
29529489--29529569	11	7.5	11	80	6	87	0	13	0	86	0.57
29529490--29529567	19	3.9	19	90	8	120	0	14	0	85	0.59
29535312--29535405	18	5.3	18	88	5	138	37	13	10	38	1.80
29535312--29535405	35	2.6	35	96	3	170	37	13	10	38	1.80
29539652--29539695	23	1.9	23	95	0	79	34	9	18	38	1.82
29542509--29542567	26	2.3	26	84	0	73	40	6	20	32	1.78
29542505--29542567	13	4.8	13	80	0	63	38	6	19	36	1.77
29544505--29544543	18	2.1	19	85	9	53	17	17	25	38	1.92
29549912--29550000	40	2.2	40	82	9	101	37	3	7	51	1.48
29559995--29560211	40	5.5	40	81	6	228	23	22	28	25	1.99
29567882--29567927	6	7.7	6	100	0	92	65	0	0	34	0.93
29568328--29568404	7	11.1	7	77	13	52	27	3	28	40	1.74
29573678--29573832	83	1.9	82	86	2	222	28	14	27	29	1.95
29575214--29575242	14	2.0	15	93	6	51	27	0	20	51	1.47
29579735--29579800	33	2.0	33	96	0	123	25	12	21	40	1.88
29579739--29579796	18	3.4	18	67	13	59	29	10	18	41	1.84
29582182--29582322	72	2.0	72	88	0	210	21	23	29	25	1.99
29585710--29585864	43	3.7	43	74	13	142	25	18	27	29	1.98
29585707--29585825	41	2.8	42	76	7	125	24	18	26	30	1.98
29589257--29589382	5	25.0	5	98	1	243	60	0	0	39	0.97
29592674--29592814	27	5.3	27	89	5	180	35	23	24	17	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29594434--29594543	26	4.2	26	91	4	170	36	23	4	35	1.76
29598305--29598459	83	1.9	81	85	2	211	28	13	27	30	1.94
29599749--29599911	43	3.8	42	81	8	161	26	14	26	31	1.95
29606937--29607470	267	2.0	267	97	0	996	35	13	14	36	1.86
29607808--29608717	303	3.0	302	94	1	1592	32	15	10	41	1.81
29619992--29620138	51	3.0	49	79	4	168	28	24	19	27	1.98
29619992--29620131	49	2.8	49	83	2	163	29	23	18	28	1.98
29623694--29623743	20	2.5	20	83	0	64	8	32	24	36	1.84
29625012--29625070	29	2.0	29	93	0	100	33	27	18	20	1.96
29626971--29627078	29	3.8	29	79	3	103	38	18	16	25	1.92
29626999--29627169	57	3.0	58	76	9	145	36	18	15	29	1.92
29626995--29627169	29	6.0	29	77	6	117	36	19	14	29	1.92
29630706--29630815	43	2.6	43	89	0	166	33	31	22	11	1.90
29631559--29631594	18	2.0	18	100	0	72	33	27	11	27	1.91
29636648--29636694	22	2.2	21	84	3	58	36	21	8	34	1.84
29636667--29636717	19	2.9	16	78	18	57	35	17	9	37	1.83
29636665--29636707	19	2.1	21	91	8	72	34	18	9	37	1.83
29639891--29639983	46	2.0	46	93	0	159	44	12	10	32	1.77
29655969--29656013	23	2.0	23	86	0	63	11	15	24	48	1.77
29667036--29667081	20	2.3	20	82	14	60	28	28	17	26	1.98
29667048--29667091	19	2.2	20	84	4	54	34	25	18	22	1.96
29669550--29669588	19	2.1	19	95	0	69	46	15	12	25	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29676245--29676415	22	7.3	23	73	18	106	23	19	19	37	1.94
29676245--29676339	24	3.9	24	82	9	104	22	18	21	37	1.94
29680467--29680616	42	3.5	42	86	3	203	24	18	30	26	1.98
29681449--29681477	13	2.1	14	93	6	51	55	10	0	34	1.34
29684013--29684190	27	6.6	27	82	3	196	26	14	28	29	1.95
29684014--29684169	82	1.9	81	86	3	224	26	14	28	29	1.95
29684010--29684190	82	2.2	81	82	2	220	27	14	28	29	1.96
29688731--29688947	108	2.0	108	96	0	398	36	16	23	23	1.94
29689192--29689376	93	2.0	93	95	0	334	25	23	25	24	2.00
29689378--29689532	78	2.0	78	96	0	283	25	18	27	29	1.98
29700718--29700856	9	15.7	9	74	12	101	36	0	17	44	1.55
29700708--29700856	61	2.4	61	87	2	217	36	0	17	45	1.54
29700798--29700872	36	2.1	36	97	0	141	37	0	14	48	1.45
29705197--29705304	26	4.2	26	92	0	180	37	23	7	32	1.82
29706622--29706664	19	2.3	19	84	8	52	18	6	4	69	1.29
29706884--29707009	14	8.9	14	70	11	60	35	38	2	23	1.68
29706998--29707045	21	2.3	21	96	0	87	52	18	0	29	1.46
29706951--29707140	95	2.0	95	97	0	362	41	32	3	23	1.70
29707093--29707147	21	2.6	21	97	0	101	50	20	0	29	1.48
29717550--29717603	11	5.4	10	78	12	58	35	9	18	37	1.83
29717650--29717719	25	2.8	25	88	0	104	27	25	21	25	1.99
29717649--29717732	25	3.4	24	80	8	89	29	22	21	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29717972--29718047	29	2.6	29	97	0	143	27	23	26	22	1.99
29728790--29728919	27	4.9	27	83	1	172	28	22	7	41	1.81
29728790--29728945	53	2.9	53	85	1	195	30	21	7	39	1.82
29728817--29729227	27	15.2	27	76	8	201	37	20	8	32	1.83
29728797--29728945	80	1.9	81	82	1	192	31	19	8	40	1.80
29728911--29729145	81	2.9	80	89	3	346	41	21	8	28	1.82
29728911--29729248	27	12.5	27	77	4	268	40	19	9	30	1.83
29729287--29729346	27	2.2	27	90	0	93	36	20	26	16	1.93
29729295--29729378	27	3.1	27	86	3	107	32	20	25	22	1.98
29730181--29730278	26	3.8	26	91	1	162	27	24	22	25	2.00
29730423--29730514	42	2.2	42	90	0	139	28	14	21	35	1.92
29730538--29730616	31	2.5	31	93	0	140	30	18	24	26	1.98
29733021--29733075	23	2.3	23	82	11	67	36	20	20	23	1.95
29735848--29736014	20	8.8	20	72	10	134	14	22	25	37	1.92
29735878--29735980	52	2.0	52	84	3	136	16	20	22	40	1.91
29735899--29735960	32	1.9	32	83	6	81	16	19	22	41	1.89
29736005--29736066	26	2.3	28	86	8	85	16	17	24	41	1.89
29744058--29744083	4	6.5	4	100	0	52	76	0	0	23	0.78
29747972--29748033	32	1.9	32	96	0	115	38	24	4	32	1.76
29749238--29749270	17	2.1	16	88	11	50	30	0	0	69	0.88
29749317--29749375	21	2.8	22	85	7	70	23	0	6	69	1.12
29749346--29749394	26	2.0	24	88	8	71	32	0	4	63	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29749349--29749406	25	2.3	26	82	5	75	29	0	3	67	1.07
29765788--29765812	13	1.9	13	100	0	50	56	12	0	32	1.36
29767310--29767351	17	2.5	17	84	7	59	26	2	4	66	1.23
29767480--29767572	48	1.9	48	95	0	168	31	7	12	48	1.69
29767479--29767556	24	3.2	24	65	20	63	34	6	10	48	1.63
29768664--29768688	13	1.9	13	100	0	50	32	0	4	64	1.12
29769213--29769303	44	2.1	44	87	4	130	47	12	12	28	1.76
29771477--29771501	13	1.9	13	100	0	50	64	4	0	32	1.12
29773185--29773266	26	3.2	26	98	0	155	31	6	26	35	1.81
29776270--29776390	65	1.9	63	85	10	165	26	4	14	53	1.61

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