genome.fa.s9.2.7.7.80.10.50.1000.116.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  116  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)
38308203--38308227	10	2.5	10	100	0	50	32	8	20	40	1.81
38308342--38308504	43	3.8	43	79	11	174	29	16	25	28	1.97
38309083--38309116	12	2.9	12	86	4	52	32	0	0	67	0.91
38309331--38309373	22	2.0	22	85	0	59	58	11	11	18	1.63
38309338--38309378	11	3.7	11	80	0	55	56	9	14	19	1.66
38309689--38309800	59	1.9	58	89	8	174	35	16	15	32	1.90
38314848--38315069	79	2.8	78	81	9	252	26	27	20	25	1.99
38314862--38315069	40	5.2	40	83	7	253	26	27	21	24	1.99
38315498--38315632	67	2.0	67	95	0	243	37	27	15	19	1.92
38322825--38323043	79	2.7	79	82	8	248	25	27	21	25	2.00
38322839--38323044	40	5.2	40	83	7	249	25	27	22	24	2.00
38326157--38326245	41	2.2	41	83	0	115	26	23	21	28	1.99
38330206--38330285	29	2.8	28	90	3	133	26	13	27	32	1.94
38330211--38330309	29	3.5	28	82	8	112	25	14	30	30	1.94
38336468--38336521	19	2.7	20	73	21	51	40	14	3	40	1.64
38337441--38337742	42	7.2	42	83	5	360	36	25	18	19	1.95
38337441--38337742	84	3.6	84	86	1	435	36	25	18	19	1.95
38337441--38337742	126	2.4	126	86	3	421	36	25	18	19	1.95
38338145--38338206	15	3.9	16	79	10	74	1	11	3	83	0.82
38338155--38338211	21	2.7	21	81	10	62	1	10	5	82	0.90
38338144--38338207	16	4.1	15	78	7	74	1	10	3	84	0.81
38340583--38340642	30	2.0	30	87	6	86	40	6	25	28	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38346106--38346234	67	1.9	67	98	0	249	30	17	25	26	1.98
38347429--38347652	47	4.8	47	100	0	448	22	19	29	27	1.98
38370248--38370288	21	1.9	22	85	5	57	34	19	12	34	1.89
38372032--38372118	43	2.0	43	93	0	147	26	10	25	37	1.88
38373306--38373433	53	2.4	52	83	8	150	20	23	15	40	1.90
38379674--38379778	53	2.0	53	82	0	129	20	24	19	36	1.95
38382898--38382948	25	2.0	25	84	0	66	35	15	15	33	1.90
38386579--38386606	10	2.8	10	100	0	56	53	7	21	17	1.67
38394002--38394042	19	2.2	19	90	0	64	51	0	9	39	1.35
38396028--38396162	39	3.5	39	91	0	216	17	21	29	31	1.96
38397780--38397904	48	2.6	49	87	6	173	28	21	28	21	1.99
38398773--38398821	18	2.7	18	96	0	89	40	8	16	34	1.78
38401915--38402176	40	6.6	40	87	3	341	23	25	22	27	2.00
38406694--38406741	24	2.0	25	87	4	71	35	4	18	41	1.70
38413591--38413750	27	5.9	27	80	7	155	30	28	16	25	1.97
38413595--38413750	82	1.9	81	85	3	215	28	28	16	25	1.97
38421059--38421236	27	6.6	27	84	3	205	29	28	15	26	1.96
38421080--38421235	82	1.9	81	88	3	233	29	28	15	26	1.96
38425025--38425080	26	2.2	26	100	0	112	41	14	23	21	1.89
38427274--38427342	30	2.3	30	84	0	93	27	34	18	18	1.95
38436813--38436880	28	2.4	27	80	7	82	23	13	27	35	1.92
38444036--38444151	39	3.0	39	96	0	205	21	20	30	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38444052--38444188	39	3.5	39	87	2	123	21	23	29	25	1.99
38444036--38444179	78	1.8	78	83	2	191	22	22	28	26	1.99
38444036--38444199	78	2.1	78	82	5	190	21	22	28	26	1.99
38446376--38446521	28	5.2	28	76	12	115	27	14	30	27	1.95
38450486--38450546	30	2.0	30	83	0	77	31	21	6	40	1.78
38455373--38455431	30	2.0	30	86	3	84	33	22	16	27	1.95
38459514--38459573	30	2.0	30	90	0	93	36	8	23	31	1.84
38471894--38472032	39	3.6	39	84	1	172	38	21	25	13	1.90
38471972--38472034	18	3.4	18	71	14	56	34	23	26	14	1.93
38482013--38482096	27	3.1	27	87	3	116	17	22	22	36	1.94
38485797--38485951	43	3.6	43	73	10	145	25	16	24	34	1.95
38486181--38486226	20	2.3	20	100	0	92	36	4	21	36	1.74
38490871--38490906	16	2.2	16	100	0	72	38	27	5	27	1.79
38494410--38494634	40	5.6	40	80	5	224	25	22	26	24	2.00
38494410--38494670	80	3.3	79	77	7	224	26	22	26	25	2.00
38494410--38494633	120	1.9	121	81	6	276	25	22	26	25	2.00
38519284--38519624	27	12.6	27	85	0	362	40	21	7	30	1.81
38519284--38519679	27	14.7	27	78	5	286	39	21	7	30	1.82
38519663--38520370	27	26.3	27	89	0	1013	33	21	21	24	1.97
38520797--38520861	22	3.0	22	80	8	78	20	23	23	33	1.97
38521020--38521121	27	3.8	27	75	14	86	21	22	20	35	1.96
38521224--38521295	31	2.3	31	92	2	117	19	15	12	52	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38521259--38521323	25	2.6	25	90	0	94	18	20	15	46	1.84
38521256--38521337	6	13.3	6	69	19	53	18	18	15	47	1.83
38523278--38523618	27	12.6	27	82	2	346	40	19	9	30	1.83
38523278--38523618	54	6.3	54	83	3	382	40	19	9	30	1.83
38523558--38523673	27	4.3	27	78	8	92	37	22	7	32	1.83
38523666--38524593	27	33.9	27	85	4	1173	34	21	21	23	1.97
38524113--38524192	41	2.0	41	89	0	124	38	18	21	21	1.93
38524084--38524218	68	2.0	67	92	1	225	37	20	21	21	1.95
38525021--38525084	22	2.9	22	75	9	67	21	21	21	34	1.97
38525244--38525344	27	3.7	27	80	15	102	20	23	19	35	1.96
38525494--38525575	25	3.2	25	85	1	101	19	17	14	48	1.81
38527721--38527776	27	2.1	26	83	3	67	35	21	23	19	1.96
38532436--38532582	74	2.0	74	94	0	258	28	14	14	41	1.86
38536204--38536381	27	6.6	27	82	3	178	29	28	15	26	1.96
38544006--38544140	70	1.9	70	98	0	261	33	20	11	35	1.88
38544412--38544463	25	2.1	24	82	10	61	17	15	23	44	1.86
38548947--38548989	21	2.1	20	83	12	52	18	0	44	37	1.50
38552321--38552445	48	2.6	48	84	7	155	28	15	31	24	1.95
38552419--38552592	49	3.6	49	87	4	221	26	20	27	26	1.99
38552369--38552593	49	4.6	48	82	6	206	26	19	28	25	1.98
38554069--38554157	37	2.4	37	94	0	151	24	33	21	20	1.97
38554298--38554538	48	5.0	48	90	3	378	30	28	6	34	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38557710--38557767	29	2.0	30	93	3	100	24	3	12	60	1.47
38559558--38559596	19	2.1	19	100	0	78	33	10	20	35	1.86
38564911--38564986	37	2.1	37	83	14	95	25	7	23	43	1.80
38571017--38571153	60	2.3	60	85	8	172	25	25	20	28	1.99
38571016--38571117	28	3.5	27	71	19	80	24	28	20	26	1.99
38574782--38574857	37	2.1	37	83	14	95	25	7	23	43	1.80
38575971--38576047	38	2.0	38	97	0	145	32	14	7	45	1.73
38576647--38576683	13	2.8	13	95	0	65	8	48	24	18	1.75
38577773--38577996	47	4.7	48	74	9	181	24	29	19	26	1.99
38577874--38578038	47	3.5	46	72	17	142	24	28	19	27	1.98
38580575--38580634	7	8.1	8	85	10	60	30	0	56	13	1.37
38580575--38580625	14	3.6	14	94	5	86	29	0	56	13	1.38
38580575--38580625	21	2.4	21	93	6	86	29	0	56	13	1.38
38595677--38595726	20	2.5	20	87	3	66	16	2	24	58	1.49
38596359--38596399	21	2.0	22	90	9	68	12	12	0	75	1.05
38599709--38599769	20	3.1	19	76	9	59	40	19	26	13	1.88
38601481--38601544	27	2.4	26	82	5	83	42	10	14	32	1.80
38604201--38604241	13	3.2	13	89	0	64	36	12	9	41	1.76
38606522--38606958	110	4.0	110	87	1	572	34	21	12	32	1.90
38610954--38611039	44	2.0	44	97	0	163	29	5	24	40	1.78
38611150--38611501	40	8.8	40	91	3	566	23	21	28	25	1.99
38611150--38611501	80	4.4	80	97	0	632	23	21	28	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38611677--38611728	25	2.1	25	85	7	70	28	7	32	30	1.85
38613890--38614088	98	2.0	98	97	0	371	33	7	25	34	1.83
38614274--38614345	36	2.0	36	94	5	128	25	9	29	36	1.88
38614814--38614888	39	1.9	39	94	0	132	46	6	16	30	1.72
38615509--38615624	47	2.5	47	86	0	169	33	8	31	26	1.87
38615743--38615821	37	2.1	37	90	0	122	24	18	31	25	1.98
38618297--38618338	15	3.0	13	83	16	57	11	9	0	78	0.96
38618305--38618334	8	3.9	8	91	8	53	13	10	0	76	1.01
38618303--38618359	7	7.6	7	77	11	51	17	7	0	75	1.02
38623013--38623037	12	2.1	12	100	0	50	60	0	8	32	1.26

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