genome.fa.s7.2.7.7.80.10.50.1000.99.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_chr3
Parameters: 2 7 7 80 10 50 1000
Length:  100348136

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   

This is table  99  of  290  ( 34714 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)
33642421--33642718	75	3.9	76	79	9	315	34	20	16	29	1.94
33642423--33642734	74	4.2	73	80	8	312	35	19	16	28	1.93
33642434--33642718	76	3.8	74	80	9	310	32	20	16	29	1.95
33642428--33642717	149	1.9	149	89	2	447	33	20	16	29	1.95
33643329--33643961	317	2.0	317	100	0	1266	23	23	15	37	1.93
33657740--33657774	16	2.2	16	90	5	54	71	14	0	14	1.15
33658881--33658921	11	3.9	11	78	12	50	53	7	2	36	1.42
33659237--33659301	25	2.5	26	78	14	71	50	4	7	36	1.52
33662061--33662114	15	3.6	15	80	7	56	50	1	1	46	1.23
33664025--33664240	46	4.6	45	77	10	184	23	26	21	29	1.99
33664072--33664243	94	1.8	92	83	4	229	22	26	22	28	1.99
33676752--33677275	267	2.0	267	95	0	949	35	21	14	29	1.93
33677242--33677468	46	4.8	46	76	9	176	24	27	20	27	1.99
33680056--33680209	76	2.0	76	92	0	254	25	14	28	31	1.95
33684045--33684085	13	3.2	13	85	0	55	46	7	34	12	1.69
33688310--33688731	211	2.0	211	99	0	835	34	7	15	41	1.76
33688666--33688797	66	2.0	66	100	0	264	30	9	15	45	1.77
33691778--33691865	44	2.0	44	97	0	167	52	6	23	17	1.68
33693054--33693101	24	2.0	24	100	0	96	25	25	29	20	1.99
33695054--33695257	29	7.1	28	71	13	139	24	21	17	37	1.94
33695071--33695257	57	3.3	57	80	1	196	24	20	17	36	1.94
33695015--33695257	86	2.9	85	78	10	230	25	20	17	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33701619--33701688	28	2.5	29	79	11	74	22	15	37	24	1.93
33709085--33709179	48	2.0	48	95	0	172	34	13	26	25	1.93
33709291--33709389	28	3.5	29	93	2	166	30	12	24	33	1.91
33710744--33710817	29	2.6	29	89	4	105	25	16	32	25	1.96
33737106--33737146	21	2.0	21	85	9	57	31	26	17	24	1.97
33739135--33739169	8	4.4	8	92	0	61	28	34	34	2	1.72
33739515--33739574	27	2.3	26	82	2	66	25	23	16	35	1.95
33740863--33740974	44	2.5	44	83	0	152	35	23	13	27	1.92
33742569--33742645	39	2.0	38	87	7	111	25	16	27	29	1.97
33752177--33752206	15	1.9	16	93	6	53	53	20	0	26	1.46
33754022--33754060	20	2.0	20	85	10	53	25	25	0	48	1.51
33769885--33769915	13	2.4	13	100	0	62	77	0	0	22	0.77
33769883--33769918	18	1.9	19	94	5	65	75	0	0	25	0.81
33793827--33793984	68	2.3	70	79	7	171	34	16	29	20	1.94
33801864--33802232	189	2.0	188	86	2	517	34	20	19	26	1.96
33811140--33811179	19	2.1	19	90	0	62	32	0	30	37	1.58
33817575--33817612	20	1.9	20	84	10	51	57	0	13	28	1.36
33818087--33818185	37	2.5	39	73	14	96	27	18	17	37	1.93
33818931--33818973	21	2.1	20	82	4	50	39	0	18	41	1.51
33821216--33821250	17	2.1	17	100	0	70	34	17	5	42	1.73
33824906--33824974	27	2.6	28	80	13	74	43	5	0	50	1.26
33824942--33824976	18	1.9	18	88	0	52	37	5	0	57	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33833624--33833665	21	2.0	21	100	0	84	33	9	9	47	1.68
33837231--33837319	18	4.8	18	69	17	56	65	1	23	10	1.30
33837278--33837330	23	2.4	22	76	20	56	69	1	18	9	1.25
33843149--33843235	42	2.1	42	85	8	115	20	25	27	26	1.99
33845257--33845290	16	2.1	16	94	0	59	14	17	32	35	1.91
33848930--33848959	14	2.1	14	93	0	51	50	0	6	43	1.28
33861010--33861365	27	13.2	26	82	7	354	20	16	20	42	1.90
33869240--33869423	40	4.6	39	81	9	194	24	21	28	25	1.99
33869292--33869446	79	2.0	79	83	7	199	25	20	27	26	1.99
33874079--33874290	46	4.6	45	77	15	202	23	28	19	28	1.99
33889838--33889963	63	2.0	63	96	0	234	35	8	23	32	1.85
33903649--33903704	29	2.0	28	85	3	76	30	19	28	21	1.98
33903653--33903769	29	4.1	27	71	12	72	28	16	30	24	1.96
33913654--33913782	47	2.7	47	84	2	170	36	28	13	20	1.92
33914330--33914388	29	2.1	28	87	3	82	28	23	1	45	1.63
33914335--33914394	28	2.1	29	84	3	77	31	23	3	41	1.71
33923105--33923322	46	4.7	46	96	0	382	21	21	27	29	1.98
33928890--33929005	43	2.7	42	74	10	108	29	27	17	25	1.97
33935059--33935168	43	2.6	43	77	9	118	23	15	29	31	1.95
33940727--33940824	40	2.3	41	81	8	108	31	25	16	26	1.96
33946682--33946868	40	4.7	40	91	0	293	18	19	28	32	1.96
33947889--33948168	45	6.2	46	74	8	137	21	19	15	43	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33948014--33948137	44	2.8	45	89	4	182	25	20	16	36	1.94
33950554--33950592	19	2.1	19	100	0	78	30	0	28	41	1.57
33954073--33954101	11	2.5	12	94	5	51	48	3	0	48	1.18
33955567--33955676	54	2.0	54	89	0	166	29	21	34	14	1.93
33958174--33958287	43	2.7	43	83	5	135	30	24	15	28	1.96
33971071--33971193	42	2.8	44	71	12	103	30	24	17	28	1.97
33971154--33971337	48	3.8	48	85	2	235	27	25	18	29	1.98
33971154--33971337	96	1.9	96	86	0	260	27	25	18	29	1.98
33976069--33976093	9	2.8	9	100	0	50	60	0	0	40	0.97
33977894--33978093	43	4.9	41	81	7	237	31	15	24	28	1.96
33994216--33994367	27	5.6	27	84	4	189	28	27	15	27	1.96
33996251--33996324	34	2.2	33	90	2	112	29	22	18	28	1.98
34009325--34009506	67	2.8	64	76	8	181	30	17	29	23	1.96
34009498--34009536	19	2.1	19	100	0	78	51	15	15	17	1.77
34014614--34014739	43	2.9	43	75	8	121	28	23	19	28	1.98
34018489--34018549	30	2.0	30	83	0	77	31	22	8	37	1.84
34028800--34028851	26	2.0	26	100	0	104	38	26	7	26	1.83
34032565--34032609	23	2.0	24	86	8	67	48	2	11	37	1.51
34037120--34037189	29	2.3	30	87	4	97	35	11	12	40	1.80
34049341--34049385	23	1.9	24	86	4	65	20	57	4	17	1.56
34065971--34066143	27	6.4	27	89	0	247	23	19	20	36	1.95
34075087--34075777	345	2.0	345	97	0	1310	32	15	25	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34085954--34085989	17	2.1	17	100	0	72	30	22	5	41	1.76
34086883--34086932	20	2.5	20	80	0	64	60	0	0	40	0.97
34086895--34086952	14	4.2	13	79	14	55	55	3	0	41	1.17
34088759--34088787	14	2.1	14	100	0	58	82	0	0	17	0.66
34090727--34090821	43	2.2	45	88	3	140	29	25	14	30	1.95
34090563--34091048	180	2.7	179	86	2	622	29	23	17	29	1.97
34090938--34091210	147	1.9	146	82	3	352	26	25	15	32	1.96
34091139--34091324	87	2.1	89	82	5	218	29	20	22	27	1.99
34091203--34091502	133	2.3	133	92	1	487	28	23	20	28	1.99
34091271--34091504	45	5.2	45	68	13	153	27	23	20	28	1.99
34094065--34094250	64	2.9	63	86	3	237	38	16	15	29	1.90
34102519--34102598	40	2.0	39	83	11	101	26	21	27	25	1.99
34102580--34102807	50	4.7	49	78	10	211	26	18	30	25	1.98
34103653--34103682	13	2.3	13	94	0	51	3	26	36	33	1.73
34105575--34105769	43	4.5	43	94	0	327	31	31	25	11	1.91
34110234--34110261	9	3.1	9	100	0	56	32	0	46	21	1.52
34113726--34113775	21	2.4	21	93	0	82	16	30	26	28	1.96
34122471--34122654	92	2.0	92	96	0	341	29	23	16	30	1.96
34122888--34122946	30	2.0	30	93	0	100	28	18	15	37	1.91
34134330--34134443	58	2.0	57	84	5	149	25	17	26	30	1.97
34167913--34168158	49	4.9	50	85	2	334	26	18	26	28	1.98
34168018--34168101	28	3.2	28	65	25	83	23	16	29	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34189632--34189979	47	7.3	47	92	2	552	29	30	8	31	1.87
34189632--34189979	143	2.4	144	90	3	589	29	30	8	31	1.87
34189632--34189979	190	1.8	190	92	0	588	29	30	8	31	1.87
34210659--34210694	14	2.6	14	100	0	72	36	38	0	25	1.56
34214882--34214980	28	3.5	28	90	0	126	29	27	17	26	1.97
34214905--34214981	28	2.8	28	93	0	127	31	29	16	22	1.96
34222756--34222843	45	2.0	45	90	0	140	37	26	11	25	1.89
34225565--34225778	46	4.6	45	75	10	155	29	20	27	22	1.98
34225660--34225826	46	3.6	45	76	7	111	29	17	26	25	1.98
34233508--34233545	15	2.6	15	83	4	51	34	2	7	55	1.43

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