genome.fa.s25.2.7.7.80.10.50.1000.111.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  111  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)
39794513--39794568	25	2.3	25	75	3	60	35	12	7	44	1.70
39800318--39800661	40	8.6	40	91	1	510	24	29	21	24	1.99
39801244--39801357	57	2.0	57	96	0	210	29	19	10	40	1.85
39806802--39806844	22	2.0	22	81	9	52	53	16	11	18	1.72
39807517--39807655	63	2.2	63	77	1	136	30	28	19	21	1.98
39810238--39810304	29	2.3	29	81	0	80	25	35	19	19	1.95
39814022--39814064	20	2.0	20	82	8	50	32	11	11	44	1.77
39819588--39819641	21	2.6	21	80	8	58	44	16	3	35	1.66
39830383--39830543	80	2.0	80	90	0	250	29	11	13	45	1.78
39842263--39842299	19	1.9	19	94	0	65	70	2	0	27	1.01
39842792--39842849	25	2.5	22	83	8	71	55	1	0	43	1.10
39850569--39850604	10	3.5	11	85	14	58	22	0	0	77	0.76
39850560--39850604	20	2.3	20	92	3	74	24	0	0	75	0.80
39853346--39853684	169	2.0	169	99	0	669	38	12	6	42	1.69
39856790--39856967	27	6.6	27	84	3	205	29	28	15	26	1.96
39856811--39856966	82	1.9	81	88	3	233	29	28	15	26	1.96
39864100--39864206	29	3.7	29	83	0	142	46	26	7	19	1.76
39864985--39865088	54	1.9	54	92	0	172	30	26	9	32	1.89
39873014--39873047	15	2.3	15	89	0	50	23	8	8	58	1.56
39875306--39875363	29	1.9	31	86	6	84	20	29	27	22	1.99
39880441--39880481	21	2.0	21	86	9	59	78	2	14	4	1.03
39893406--39893445	15	2.6	16	81	18	50	30	0	2	67	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39902871--39903091	42	5.3	41	68	12	171	19	31	22	27	1.98
39902809--39903155	84	4.1	84	98	0	667	19	31	21	27	1.97
39903823--39903871	24	2.0	24	92	0	80	14	10	34	40	1.79
39906642--39906687	21	2.2	21	88	0	65	21	34	26	17	1.95
39906652--39906721	21	3.3	21	85	0	86	20	31	22	25	1.98
39908904--39909060	81	1.9	81	85	2	217	33	20	22	23	1.97
39908905--39909064	41	3.9	41	86	4	198	33	20	23	23	1.97
39909315--39909365	15	3.5	15	75	2	50	23	1	27	47	1.63
39914407--39914486	39	2.1	38	81	6	90	31	5	3	60	1.36
39918780--39918844	32	2.0	32	100	0	130	30	6	24	38	1.80
39935305--39935354	16	3.6	16	65	34	51	28	22	8	42	1.81
39935300--39935352	25	2.1	25	100	0	106	28	20	7	43	1.79
39938144--39938272	66	1.9	67	83	7	165	43	12	13	31	1.81
39938435--39938466	16	2.0	16	93	0	55	31	0	3	65	1.08
39941352--39941378	3	9.0	3	100	0	54	33	0	0	66	0.92
39951078--39951117	20	2.0	20	85	5	53	42	5	5	47	1.47
39957560--39957597	14	2.8	14	81	18	53	57	0	0	42	0.98
39957566--39957600	15	2.4	14	85	4	52	60	0	0	40	0.97
39980282--39980323	22	2.0	21	81	13	50	47	26	11	14	1.78
39980923--39980991	18	3.7	19	78	5	79	8	20	0	71	1.12
39980923--39980997	6	11.8	6	76	9	60	8	20	1	70	1.19
39984204--39984256	24	2.2	25	96	3	99	18	16	20	43	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39989518--39989600	30	2.7	30	81	9	89	13	21	1	63	1.35
39989576--39989607	12	2.7	12	95	0	55	9	15	3	71	1.24
39989603--39989633	12	2.6	12	100	0	62	25	16	12	45	1.83
39989681--39989744	16	4.2	14	77	16	65	1	18	3	76	1.00
39991542--39991606	31	2.1	32	91	5	107	29	26	15	29	1.96
39991853--39991922	25	2.8	25	86	0	104	28	22	22	25	1.99
39991970--39992017	20	2.3	21	92	3	80	35	18	10	35	1.85
39998887--39998949	31	2.0	31	84	0	81	26	22	12	38	1.90
39999134--39999287	25	6.2	25	89	6	208	26	24	19	29	1.98
39999338--39999378	20	2.0	20	100	0	82	36	19	9	34	1.85
40002499--40002563	31	2.1	32	88	5	98	30	26	13	29	1.94
40002809--40002878	25	2.8	25	84	0	95	27	25	21	25	1.99
40002926--40002974	20	2.4	21	89	3	73	38	18	8	34	1.80
40002926--40002974	11	4.7	11	75	14	50	38	18	8	34	1.80
40010428--40011467	47	22.1	47	99	0	2044	34	12	27	25	1.92
40017757--40017781	11	2.3	11	100	0	50	28	12	16	44	1.83
40021475--40021522	24	2.0	23	88	4	69	33	14	27	22	1.93
40024127--40024174	25	1.9	25	86	0	69	33	25	16	25	1.96
40024218--40024256	20	2.0	20	100	0	78	35	12	20	30	1.90
40024307--40024453	24	6.2	23	87	3	204	29	21	21	27	1.98
40024307--40024453	47	3.1	47	86	2	206	29	21	21	27	1.98
40024307--40024453	71	2.1	71	92	0	240	29	21	21	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40024666--40024729	31	2.1	31	90	0	101	35	15	23	25	1.94
40026875--40026953	29	2.7	29	86	5	106	27	32	15	24	1.95
40036726--40036877	37	4.1	37	89	3	225	26	32	19	21	1.97
40037040--40037413	47	8.0	47	89	0	550	27	29	11	32	1.91
40037315--40037388	23	3.2	22	67	27	55	25	32	12	29	1.92
40042044--40042117	28	2.6	28	87	4	105	27	16	25	31	1.96
40043363--40043387	11	2.3	11	100	0	50	56	20	0	24	1.43
40050035--40050108	28	2.6	28	91	4	114	28	14	25	31	1.95
40056203--40056387	40	4.6	40	80	3	183	25	25	26	22	2.00
40056218--40056387	80	2.1	81	82	5	202	25	25	27	21	2.00
40061078--40061242	41	4.0	41	75	6	149	23	23	14	38	1.91
40061078--40061242	81	2.0	82	83	3	208	23	23	14	38	1.91
40061086--40061301	81	2.6	81	79	7	204	22	24	14	38	1.92
40080977--40081027	27	1.9	26	84	4	66	35	17	27	19	1.94
40092710--40092887	27	6.6	27	84	3	205	29	28	15	26	1.96
40092731--40092886	82	1.9	81	88	3	233	29	28	15	26	1.96
40104346--40104443	27	3.5	28	88	5	128	25	13	28	32	1.93
40104374--40104458	27	3.0	27	87	5	98	30	11	24	32	1.91
40106548--40106833	40	7.2	41	83	3	277	25	27	22	24	2.00
40109186--40109242	27	2.1	27	86	0	78	26	26	17	29	1.97
40112973--40113110	40	3.5	40	95	3	235	23	23	28	25	2.00
40118364--40118545	40	4.6	41	81	8	198	24	20	28	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40118398--40118568	79	2.2	78	79	10	195	26	19	26	27	1.99
40125669--40125853	40	4.6	39	78	6	176	23	22	27	26	2.00
40129718--40129777	27	2.3	26	85	2	75	35	21	23	20	1.96
40129745--40129886	67	2.1	67	84	5	176	33	22	26	18	1.97
40129816--40129867	27	2.0	26	88	3	77	36	21	25	17	1.94
40130524--40130580	27	2.1	27	90	0	87	24	26	17	31	1.97
40135719--40135761	23	1.9	22	85	4	59	41	11	16	30	1.83
40139630--40139671	16	2.7	16	77	3	50	19	9	19	52	1.72
40143286--40143314	14	2.1	14	93	6	51	58	6	0	34	1.25
40158907--40158981	6	12.3	6	73	8	62	49	13	17	20	1.79
40158930--40159002	37	2.0	37	91	0	119	49	15	16	19	1.80
40158952--40159021	25	2.8	25	78	6	72	48	15	15	20	1.81
40158921--40159009	37	2.7	31	70	18	79	48	14	17	19	1.81
40159149--40159255	27	4.0	26	83	10	135	39	21	21	17	1.93
40160847--40160994	49	3.0	48	83	5	179	27	19	25	27	1.99
40170508--40170540	13	2.5	13	95	0	57	27	48	24	0	1.51
40176632--40176683	27	1.9	27	84	0	68	42	7	11	38	1.70
40176932--40177176	49	4.9	49	82	2	283	24	19	27	28	1.98
40183284--40183347	32	2.0	32	100	0	128	28	15	21	34	1.94
40191868--40191911	16	2.6	17	85	7	54	22	6	0	70	1.11
40192097--40192188	48	1.9	48	95	0	166	31	7	23	36	1.83
40192092--40192196	48	2.2	48	87	1	165	32	8	24	34	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40192934--40192988	18	3.2	18	77	10	53	76	5	3	14	1.10
40196296--40196337	21	2.0	21	85	0	57	45	14	19	21	1.85
40202879--40202919	17	2.4	17	91	0	64	43	12	4	39	1.63
40205261--40205315	21	2.6	21	77	5	58	16	29	30	23	1.96
40208622--40208662	21	2.0	21	95	0	73	12	19	36	31	1.89
40208621--40208675	21	2.6	21	85	0	65	12	21	36	29	1.91
40210555--40210625	36	2.0	36	91	0	115	35	11	25	28	1.90
40232605--40232652	25	1.9	25	86	0	69	31	22	18	27	1.97
40232688--40232754	20	3.3	20	91	4	109	34	10	20	34	1.87
40232699--40232754	11	5.5	11	71	16	57	33	10	21	33	1.88

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