genome.fa.s2.2.7.7.80.10.50.1000.114.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  114  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)
37230595--37230628	16	2.0	17	88	11	52	0	17	5	76	0.98
37236532--37236561	16	1.9	15	93	6	51	33	23	0	43	1.54
37236765--37237053	151	1.9	150	87	0	416	30	24	17	26	1.97
37236776--37237104	50	6.5	50	80	9	296	32	24	16	26	1.96
37238959--37238988	7	4.3	7	95	0	51	13	53	0	33	1.40
37246700--37246729	9	3.3	9	100	0	60	20	56	0	23	1.42
37254179--37254252	34	2.2	35	82	4	89	29	20	18	31	1.97
37257367--37257420	18	3.0	18	94	0	90	44	7	20	27	1.78
37280845--37280963	43	2.8	42	74	12	134	36	13	21	28	1.92
37283277--37283351	23	3.3	23	86	1	98	32	22	21	24	1.98
37283288--37283384	23	4.3	23	85	1	115	34	20	21	23	1.97
37285524--37285637	58	2.0	58	98	0	219	32	20	15	31	1.94
37288392--37289640	47	26.5	47	97	0	2266	29	31	8	30	1.87
37295937--37295985	25	2.0	25	95	0	89	34	24	14	26	1.94
37296113--37296182	25	2.8	25	91	0	104	25	22	22	28	1.99
37296113--37296195	25	3.4	25	82	11	84	28	20	22	27	1.99
37303878--37303924	24	1.9	25	91	4	78	31	25	14	27	1.95
37304048--37304117	25	2.8	25	95	0	122	27	22	21	28	1.99
37306940--37306967	14	2.0	14	100	0	56	14	14	0	71	1.15
37306964--37307042	5	14.2	6	80	17	66	32	2	16	48	1.60
37306965--37307046	11	7.5	11	69	23	50	32	2	17	47	1.60
37307001--37307046	20	2.2	21	92	7	85	32	0	19	47	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37307199--37307355	54	2.9	54	84	5	219	28	22	8	40	1.84
37307199--37307357	27	5.9	27	85	5	198	27	22	9	40	1.84
37307347--37307788	27	16.4	27	86	0	598	36	19	19	25	1.95
37308244--37308318	6	12.3	6	75	8	71	17	17	14	50	1.78
37308198--37308297	31	3.0	31	73	16	101	20	19	13	48	1.81
37308188--37308310	37	3.5	36	78	13	139	19	17	12	50	1.77
37309591--37309693	30	3.4	30	86	0	143	25	26	24	24	2.00
37310073--37310137	32	2.0	32	100	0	130	49	21	4	24	1.68
37311764--37311949	19	9.5	19	69	19	82	37	2	2	58	1.22
37311893--37311950	12	4.8	12	69	26	50	34	1	0	63	1.04
37311899--37311968	18	3.9	18	85	10	90	34	2	0	62	1.10
37311903--37311952	14	3.4	15	75	22	52	36	2	0	62	1.07
37312091--37312145	19	2.9	18	76	10	65	40	1	5	52	1.35
37317028--37317166	69	2.0	69	100	0	278	35	14	21	28	1.92
37321474--37321595	60	2.0	60	98	0	235	35	18	24	22	1.96
37326307--37326420	27	4.3	26	80	9	104	34	21	22	21	1.97
37333854--37333968	27	4.3	26	85	5	122	36	22	20	20	1.95
37333854--37333968	54	2.1	54	84	7	146	36	22	20	20	1.95
37336882--37336965	28	3.0	28	82	6	98	28	30	15	25	1.96
37337181--37337223	16	2.7	16	85	0	59	6	16	16	60	1.56
37338438--37338469	16	2.0	16	93	0	55	9	6	34	50	1.60
37345807--37345988	40	4.6	40	92	2	296	23	23	26	27	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37347879--37347974	47	2.0	47	97	0	183	27	22	16	33	1.96
37356640--37356753	55	2.1	55	98	0	219	35	13	30	20	1.90
37357299--37357346	22	2.2	22	85	3	62	54	8	16	20	1.68
37358184--37358329	6	23.7	6	73	20	115	48	16	16	18	1.81
37358184--37358329	19	7.9	18	75	19	115	48	16	16	18	1.81
37358238--37358396	31	5.1	31	93	1	246	50	16	13	18	1.77
37358193--37358305	25	4.6	25	80	12	119	48	15	17	17	1.81
37358238--37358404	32	5.3	32	92	0	257	50	15	13	19	1.77
37358541--37358614	27	2.8	26	85	2	94	36	20	24	18	1.95
37358741--37358805	22	3.0	22	73	8	60	35	21	23	20	1.96
37359232--37359831	27	22.3	27	87	1	810	22	21	21	34	1.97
37359813--37360182	27	13.7	27	82	2	314	31	9	20	38	1.84
37359852--37360189	108	3.1	108	84	2	403	31	9	20	38	1.84
37359867--37360182	27	11.7	27	85	0	346	31	9	20	39	1.84
37367561--37367599	19	2.1	19	100	0	78	30	20	23	25	1.98
37371719--37371766	24	2.0	24	87	0	69	39	27	0	33	1.57
37376164--37376257	24	3.9	23	78	14	93	29	18	24	27	1.98
37379285--37379329	18	2.5	18	92	0	72	11	35	33	20	1.88
37383139--37383169	14	2.2	14	94	0	53	29	22	0	48	1.51
37390488--37390519	6	4.9	7	85	14	50	15	12	0	71	1.14
37390554--37390589	6	5.7	6	87	12	54	13	19	0	66	1.24
37390505--37390646	63	2.2	65	86	3	191	26	14	6	52	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37394311--37394369	26	2.3	26	84	0	73	54	5	5	35	1.45
37394748--37394811	21	3.0	21	79	6	67	62	1	3	32	1.20
37398893--37398962	28	2.5	28	86	4	88	30	11	28	30	1.92
37398911--37398971	28	2.2	28	87	0	95	36	9	24	29	1.88
37405142--37405203	28	2.2	28	91	0	106	38	9	22	29	1.86
37406265--37406380	58	2.0	58	98	0	223	33	8	19	37	1.83
37407630--37408608	50	19.5	50	89	2	1428	27	17	25	29	1.98
37408819--37408850	16	2.0	16	93	0	55	46	0	18	34	1.49
37410651--37410879	117	1.9	118	90	2	363	36	17	19	27	1.93
37413042--37413099	29	2.0	29	83	6	73	56	0	6	36	1.26
37415758--37415828	23	3.1	23	100	0	142	43	4	12	39	1.62
37421442--37421476	18	2.0	18	88	5	54	25	20	25	28	1.99
37422949--37424011	40	26.6	40	97	0	1907	27	27	20	24	1.99
37427885--37427975	42	2.1	42	84	11	114	39	26	12	21	1.89
37427850--37427975	43	3.0	42	75	12	121	36	25	13	24	1.92
37427885--37428016	44	3.0	43	78	12	119	36	24	14	25	1.93
37431171--37431325	42	3.7	41	76	6	150	28	16	26	29	1.97
37433831--37434103	46	5.9	46	85	6	365	21	21	28	28	1.98
37433835--37434103	93	2.9	90	82	10	337	21	21	28	28	1.98
37433833--37434096	139	1.9	139	95	1	476	21	21	28	28	1.98
37435734--37435770	9	4.1	9	100	0	74	13	75	0	10	1.04
37439652--37439875	40	5.7	40	84	8	257	25	22	27	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37439652--37439875	79	2.8	80	82	10	271	25	22	27	25	2.00
37439652--37439908	79	3.3	79	80	10	208	26	21	27	24	2.00
37442166--37442234	27	2.6	27	88	0	111	37	18	17	26	1.93
37442219--37442588	27	13.7	27	74	7	184	40	20	9	30	1.83
37442219--37442562	81	4.2	82	72	11	208	40	19	9	30	1.82
37442226--37442494	108	2.5	108	80	10	300	40	20	8	30	1.82
37442803--37442880	41	1.9	41	94	0	138	19	21	32	26	1.97
37443025--37443086	22	2.8	23	83	11	76	24	24	17	33	1.96
37447553--37447677	47	2.7	44	82	14	146	24	28	19	28	1.98
37447553--37447679	46	2.8	45	82	13	152	23	28	18	29	1.98
37451362--37451408	20	2.3	20	85	7	60	51	2	10	36	1.49
37456713--37456851	42	3.2	43	79	7	140	26	17	24	30	1.97
37456698--37456869	43	4.0	43	74	13	165	25	18	25	31	1.97
37462184--37462415	56	4.1	56	97	0	428	46	9	21	22	1.79
37469568--37469670	53	1.9	53	84	0	134	23	26	28	22	1.99
37472035--37472257	79	2.8	78	82	9	265	24	27	22	25	2.00
37472035--37472257	39	5.7	40	86	8	266	24	27	22	25	2.00
37480028--37480211	40	4.6	41	81	12	190	25	26	22	26	2.00
37480028--37480211	79	2.3	81	82	13	215	25	26	22	26	2.00
37483335--37483573	47	5.1	47	91	0	352	31	8	30	28	1.87
37483692--37483770	37	2.1	37	88	4	115	25	18	30	25	1.98
37486867--37487018	40	3.8	40	89	3	209	24	21	28	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37486867--37487038	80	2.2	80	83	5	206	23	20	27	27	1.99
37489731--37489757	14	1.9	14	100	0	54	51	25	0	22	1.48
37495982--37496121	37	3.8	37	94	0	235	24	32	18	25	1.97
37496262--37496501	48	5.0	48	89	2	376	30	28	6	35	1.83
37496262--37496501	94	2.5	95	88	2	365	30	28	6	35	1.83
37498654--37498716	26	2.5	26	94	5	112	22	30	3	44	1.68
37502001--37502193	27	7.2	26	80	7	181	39	19	8	32	1.81
37502001--37502193	54	3.6	52	82	8	219	39	19	8	32	1.81
37502001--37502193	80	2.4	81	86	3	257	39	19	8	32	1.81
37502011--37502218	107	1.9	107	81	7	253	40	17	8	33	1.81

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