genome.fa.s25.2.7.7.80.10.50.1000.95.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  95  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)
34336585--34336846	39	6.7	40	88	7	337	24	27	22	25	2.00
34340644--34340676	13	2.4	14	90	5	50	39	6	6	48	1.53
34341257--34341402	47	3.1	47	92	2	240	30	10	13	45	1.77
34342204--34342422	45	5.0	45	88	5	288	25	22	27	24	2.00
34342203--34342422	88	2.5	88	87	3	309	25	22	27	24	2.00
34342948--34342980	16	1.9	18	88	11	52	24	15	12	48	1.78
34348580--34348709	47	2.8	47	84	0	152	32	27	17	22	1.96
34357211--34357433	40	5.6	40	85	3	227	25	21	27	26	1.99
34357286--34357468	79	2.3	79	82	5	219	26	20	27	25	1.99
34358782--34359083	27	11.3	27	81	4	86	31	12	18	37	1.89
34358828--34359294	27	17.4	27	81	5	414	31	11	19	37	1.87
34358795--34359295	134	3.7	135	80	6	547	31	11	19	37	1.88
34358795--34359294	107	4.7	107	81	5	485	31	11	19	37	1.87
34359599--34359683	27	3.0	28	89	5	127	25	31	16	25	1.96
34359599--34359699	28	3.6	28	86	4	114	26	35	14	22	1.93
34364276--34364316	21	2.0	21	90	0	64	41	9	12	36	1.76
34365212--34365253	21	2.0	21	90	0	66	40	50	0	9	1.35
34365608--34365659	26	2.0	27	84	3	70	25	13	23	38	1.91
34368406--34368511	41	2.6	41	84	1	133	27	17	25	29	1.98
34372244--34372374	11	10.1	13	70	22	57	32	2	1	63	1.16
34372264--34372335	16	4.9	16	73	24	52	36	1	1	61	1.14
34372255--34372342	7	12.3	7	73	20	58	34	1	1	63	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34372255--34372374	32	3.6	33	77	18	108	33	1	1	63	1.14
34372261--34372421	9	18.6	9	65	19	58	32	3	1	62	1.21
34372255--34372426	45	3.6	47	71	19	124	31	2	1	63	1.19
34372256--34372426	22	8.3	20	73	21	117	32	2	1	63	1.20
34372234--34372328	45	2.1	44	84	9	122	30	2	2	65	1.16
34372255--34372423	24	6.9	24	70	16	100	31	2	1	63	1.20
34372259--34372377	13	9.1	13	68	25	56	33	1	1	63	1.15
34372243--34372417	80	2.2	82	83	10	213	31	3	1	63	1.21
34372704--34372752	14	3.8	13	76	15	57	44	2	0	53	1.12
34381431--34382331	40	22.5	40	98	0	1678	25	22	25	27	2.00
34389125--34389228	48	2.2	48	92	1	183	35	10	25	28	1.89
34390360--34391260	40	22.5	40	98	0	1705	24	22	25	27	2.00
34397619--34398372	205	3.7	205	90	2	1131	31	18	20	28	1.97
34399995--34400110	52	2.2	52	82	10	132	34	2	0	62	1.15
34400037--34400208	12	14.9	11	67	25	72	33	4	0	62	1.19
34400038--34400112	8	8.9	9	75	20	65	34	1	0	64	1.02
34400072--34400159	39	2.6	34	75	25	87	34	4	0	61	1.16
34400043--34400161	45	2.7	43	79	11	127	35	3	0	61	1.13
34400043--34400193	20	7.4	20	72	20	102	33	3	0	61	1.19
34400506--34400532	7	3.9	7	100	0	54	40	0	0	59	0.98
34400460--34400541	43	2.0	39	81	11	92	32	1	2	63	1.15
34402984--34403049	33	2.0	33	88	5	98	36	6	25	31	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34406931--34407081	40	3.8	40	90	3	234	25	28	21	24	1.99
34410781--34411156	188	2.0	188	99	0	743	27	14	24	32	1.95
34417911--34418772	46	18.7	46	99	0	1688	21	19	28	30	1.98
34422588--34422717	48	2.7	49	79	4	156	21	28	23	26	1.99
34422735--34422902	48	3.6	48	79	4	207	22	26	19	31	1.98
34422592--34422853	141	1.9	138	83	7	341	23	27	20	27	1.99
34424646--34424689	23	1.9	23	100	0	88	43	20	18	18	1.89
34424651--34424714	23	2.8	23	85	0	74	48	18	17	15	1.81
34426446--34426489	22	2.0	22	90	0	70	15	18	36	29	1.92
34432673--34432719	16	3.0	16	90	6	78	19	25	4	51	1.65
34432673--34432720	15	3.1	15	93	3	78	18	27	4	50	1.65
34447797--34447975	46	3.8	49	78	14	207	29	27	21	21	1.99
34447804--34447975	93	1.8	93	92	2	292	27	28	21	22	1.99
34458899--34458981	34	2.4	34	81	0	94	26	24	25	24	2.00
34461043--34461070	6	4.7	6	100	0	56	17	50	17	14	1.79
34469070--34469255	40	4.7	40	88	5	243	24	21	27	26	1.99
34469070--34469288	80	2.7	79	81	7	221	25	21	27	26	1.99
34469464--34469809	173	2.0	173	98	0	665	27	15	17	39	1.89
34477237--34477457	40	5.6	40	83	5	261	25	20	27	25	1.99
34482107--34482242	27	5.0	27	80	1	146	37	11	23	27	1.90
34484113--34484242	44	3.0	43	78	3	154	23	18	25	32	1.97
34488596--34488843	124	2.0	124	99	0	487	32	14	20	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34492535--34492643	44	2.5	43	81	10	134	27	21	24	26	1.99
34494929--34495106	27	6.6	27	77	6	137	30	28	15	25	1.96
34494929--34495106	54	3.3	54	78	7	164	30	28	15	25	1.96
34503204--34503381	27	6.6	27	77	6	137	30	28	15	25	1.96
34503204--34503381	54	3.3	54	78	7	164	30	28	15	25	1.96
34511445--34511622	27	6.6	27	78	6	153	29	29	16	25	1.97
34517238--34517268	6	5.2	6	92	0	53	70	16	12	0	1.16
34523765--34523987	80	2.8	79	82	3	232	24	21	28	26	1.99
34523818--34523987	40	4.3	40	90	0	234	23	21	28	26	1.99
34523840--34524022	79	2.3	80	82	1	226	25	20	28	25	1.99
34525047--34525156	54	2.0	54	87	0	157	30	17	29	23	1.97
34528338--34528506	83	2.0	83	98	0	329	30	12	18	38	1.88
34529242--34529289	24	2.0	25	84	12	64	8	33	2	56	1.41
34530843--34531008	40	4.2	40	92	2	264	27	27	22	22	1.99
34532424--34532451	13	2.2	13	100	0	56	57	14	0	28	1.38
34536040--34536172	29	4.5	29	84	2	176	39	12	27	21	1.89
34536036--34536172	59	2.3	59	89	1	213	38	13	27	21	1.90
34536071--34536290	59	3.8	57	79	10	194	37	12	26	24	1.90
34536192--34536304	29	3.9	29	72	5	84	37	15	24	23	1.93
34546255--34546391	68	2.0	68	98	0	265	33	7	11	47	1.68
34546510--34546716	53	3.8	53	74	6	166	40	16	22	20	1.91
34554713--34554766	27	2.0	26	82	10	65	25	20	22	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34558035--34558132	40	2.5	40	91	1	162	23	23	26	26	2.00
34563402--34563431	13	2.3	13	100	0	60	20	33	40	6	1.78
34564178--34564325	74	2.0	74	95	0	269	25	18	9	46	1.79
34580556--34580604	25	2.0	25	84	8	64	51	14	18	16	1.77
34582488--34582540	27	2.0	27	81	3	63	35	9	26	28	1.87
34582525--34582594	27	2.6	27	86	0	104	28	18	24	28	1.98
34586260--34586411	27	5.6	27	93	3	241	26	13	28	30	1.94
34586260--34586411	55	2.8	55	94	0	259	26	13	28	30	1.94
34593067--34593249	79	2.3	81	84	7	232	24	22	27	25	2.00
34593068--34593251	40	4.6	40	83	9	216	23	22	28	25	2.00
34593120--34593284	79	2.1	79	84	6	210	25	21	27	25	1.99
34599784--34600008	40	5.7	40	81	4	186	24	21	29	24	1.99
34599837--34600008	80	2.2	79	82	1	209	23	20	30	25	1.98
34599837--34600006	40	4.3	40	84	1	189	23	21	30	24	1.99
34599859--34600041	79	2.3	80	80	1	199	25	20	30	24	1.99
34602290--34602390	23	4.4	23	77	8	107	25	21	16	35	1.95
34602290--34602391	45	2.2	47	83	8	129	25	21	16	36	1.94
34603309--34603374	30	2.2	30	100	0	132	18	21	31	28	1.96
34606237--34606266	11	2.7	11	100	0	60	26	16	10	46	1.78
34608738--34608800	30	2.1	30	82	5	74	49	14	19	17	1.80
34611879--34611990	27	4.1	27	85	3	136	20	23	20	35	1.96
34623061--34623112	25	2.1	24	82	3	59	38	25	21	15	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34638240--34638542	152	2.0	152	98	1	592	38	14	21	25	1.91
34638728--34639127	201	2.0	201	100	0	800	23	9	27	39	1.86
34638798--34639108	104	3.1	104	59	15	241	25	9	28	36	1.87
34639842--34639918	29	2.6	29	85	2	100	25	12	29	31	1.93
34639871--34640198	174	1.9	174	94	0	584	30	14	24	30	1.95
34641972--34642222	41	6.1	41	81	3	247	37	24	18	19	1.94
34641988--34642222	123	1.9	123	83	3	303	37	24	18	19	1.94
34643978--34644027	20	2.4	21	80	3	57	60	2	2	36	1.20
34644203--34644229	6	4.5	6	100	0	54	55	0	0	44	0.99
34644353--34644404	25	2.1	25	96	0	95	53	17	5	23	1.64

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