genome.fa.s25.2.7.7.80.10.50.1000.138.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  138  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)
47472415--47472491	23	3.4	23	96	1	138	29	18	24	27	1.98
47476469--47476507	18	2.1	18	85	4	51	58	5	28	7	1.47
47486856--47487003	74	2.0	74	98	0	287	39	18	14	27	1.90
47521789--47521827	20	2.1	19	85	9	53	51	12	28	7	1.67
47530213--47530384	93	1.8	93	96	0	317	27	29	21	20	1.98
47530206--47530381	46	3.8	46	79	12	216	28	29	21	20	1.98
47534313--47534920	304	2.0	304	100	0	1216	34	16	17	32	1.92
47535560--47535584	4	6.2	4	100	0	50	0	0	24	76	0.80
47545740--47545777	4	10.0	4	88	5	53	71	0	0	28	0.87
47546198--47546243	23	2.0	23	100	0	92	17	17	21	43	1.88
47549694--47549839	31	4.7	31	88	0	213	28	28	14	28	1.95
47549863--47549996	42	3.2	42	98	0	259	33	20	14	31	1.93
47550144--47550213	25	2.8	25	91	4	106	24	24	27	24	2.00
47551141--47551248	27	3.9	27	78	13	103	31	8	18	41	1.80
47551190--47551354	27	6.1	27	83	6	176	29	7	21	41	1.81
47551228--47551387	54	3.0	54	84	3	198	28	11	21	38	1.88
47551205--47551354	81	1.9	81	88	5	232	28	8	22	42	1.81
47551204--47551387	81	2.3	81	83	7	223	28	10	21	40	1.86
47551225--47551394	27	6.3	26	77	11	130	28	11	22	37	1.88
47551386--47551583	27	7.3	27	90	0	288	37	8	25	28	1.84
47551386--47551583	81	2.4	81	93	0	324	37	8	25	28	1.84
47553863--47553972	31	3.5	31	100	0	220	27	26	18	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47553996--47554087	42	2.2	42	92	0	148	34	21	14	29	1.93
47554234--47554303	25	2.8	25	91	0	104	24	21	27	27	1.99
47555113--47555190	27	2.9	27	79	11	88	21	20	21	35	1.96
47555231--47555338	27	3.9	27	78	13	103	32	8	17	41	1.79
47555211--47555504	54	5.4	54	80	5	261	30	9	20	39	1.85
47555294--47555504	27	7.8	27	84	4	250	28	9	21	40	1.84
47555503--47555594	27	3.4	27	82	5	123	41	7	22	28	1.81
47557933--47558037	42	2.5	42	87	0	147	32	22	13	31	1.93
47564982--47565024	21	2.1	20	82	4	50	6	25	11	55	1.60
47566980--47567010	7	4.6	7	96	4	55	74	0	0	25	0.82
47579090--47579131	17	2.5	17	88	0	66	50	16	9	23	1.75
47582137--47582474	168	2.0	168	100	0	676	26	7	19	46	1.77
47583119--47583250	47	2.8	47	81	4	167	24	17	25	32	1.97
47585160--47585209	24	2.0	26	88	11	77	52	10	4	34	1.54
47591373--47591505	57	2.3	56	81	7	144	43	15	11	29	1.82
47593035--47593182	63	2.3	63	79	14	158	31	15	29	24	1.96
47595873--47595963	45	2.0	45	100	0	182	51	15	10	21	1.74
47595890--47595964	24	3.2	24	62	24	61	52	13	12	22	1.73
47604099--47604331	117	2.0	120	89	2	364	49	4	2	43	1.36
47604233--47604318	31	2.6	33	80	14	88	46	4	3	45	1.41
47604305--47604345	15	2.5	17	80	11	59	65	0	0	34	0.93
47607479--47607532	27	2.0	27	100	0	108	44	25	18	11	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47610860--47610977	46	2.5	46	82	5	139	30	15	28	25	1.96
47612115--47612178	28	2.3	28	88	0	101	20	18	43	17	1.88
47613782--47613833	25	2.1	25	96	0	95	48	21	19	11	1.80
47615057--47615091	13	2.7	13	83	16	54	37	8	8	45	1.65
47616528--47616577	22	2.3	21	83	10	57	62	2	2	34	1.18
47620204--47620259	29	1.9	29	100	0	112	33	19	17	28	1.95
47621601--47621661	31	2.0	31	100	0	122	42	16	4	36	1.70
47622242--47622271	11	2.7	11	94	0	51	20	6	33	40	1.78
47625336--47625370	17	2.0	17	88	5	52	20	31	37	11	1.88
47625388--47625504	55	2.1	55	80	3	137	20	21	32	25	1.97
47626760--47626849	45	2.0	45	95	0	162	22	24	22	31	1.99
47628227--47628274	21	2.4	19	78	18	53	2	20	6	70	1.19
47628312--47628380	5	14.2	5	90	6	97	57	4	0	37	1.18
47635196--47635232	16	2.3	16	90	0	56	56	0	0	43	0.99
47636562--47636620	29	2.0	29	100	0	118	20	20	35	23	1.96
47641989--47642038	26	2.0	25	88	7	75	54	0	0	46	1.00
47641993--47642053	26	2.4	26	83	8	72	47	1	1	49	1.21
47648562--47648614	23	2.4	22	76	20	56	9	18	1	69	1.25
47650776--47650827	24	2.2	24	89	0	77	55	9	1	32	1.43
47652745--47652796	24	2.2	24	89	0	77	55	9	1	32	1.43
47653913--47653991	37	2.1	38	95	2	142	27	31	0	40	1.57
47656546--47656615	31	2.3	31	80	7	79	47	14	22	15	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47657608--47657951	41	8.4	41	92	1	521	34	22	22	20	1.97
47657608--47657951	124	2.8	123	90	2	530	34	22	22	20	1.97
47658252--47658305	15	3.7	15	76	16	51	22	1	35	40	1.65
47658253--47658307	21	2.6	21	80	8	58	23	1	36	38	1.66
47658441--47658479	14	2.8	14	84	0	51	25	0	25	48	1.51
47658582--47658639	22	2.7	22	78	7	57	25	0	27	46	1.53
47658444--47658808	178	2.0	179	99	0	723	24	0	29	45	1.57
47659104--47659148	19	2.3	19	80	3	54	73	6	2	17	1.15
47664652--47664813	43	3.8	43	81	4	184	25	18	29	26	1.98
47664652--47664834	43	4.3	42	80	7	181	25	19	28	26	1.98
47664652--47664834	85	2.1	85	81	5	208	25	19	28	26	1.98
47672999--47673038	20	2.0	20	100	0	80	55	25	0	20	1.44
47686497--47686526	11	2.6	11	94	5	51	56	0	0	43	0.99
47686962--47687040	14	5.4	14	70	16	52	55	1	2	40	1.21
47687016--47687064	16	3.2	16	69	19	50	51	0	0	48	1.00
47696638--47696715	39	2.0	39	94	0	138	42	8	14	34	1.77
47696908--47696965	17	3.6	16	73	13	57	56	0	5	37	1.21
47698201--47698236	16	2.2	17	95	5	65	47	11	8	33	1.69
47699873--47699926	26	2.1	26	93	6	92	12	20	22	44	1.85
47706871--47707046	56	3.1	56	99	0	343	44	9	23	22	1.81
47719818--47719915	48	2.1	47	96	1	178	61	14	12	12	1.58
47722511--47722548	18	2.1	18	100	0	76	21	36	21	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47727929--47728048	60	2.0	60	100	0	240	31	11	10	46	1.73
47728344--47728382	13	3.0	13	92	0	60	20	25	33	20	1.97
47734325--47734359	13	2.8	12	87	12	52	14	2	2	80	0.95
47734732--47734771	20	2.0	20	100	0	80	25	20	15	40	1.90
47740286--47740373	40	2.3	38	82	7	106	34	32	13	19	1.91
47751508--47751769	39	6.7	40	88	7	337	24	27	22	25	2.00
47759722--47759809	40	2.2	40	84	4	117	34	34	13	18	1.90
47761637--47761669	8	4.1	8	96	0	57	27	21	0	51	1.48
47762536--47762755	49	4.6	48	72	11	173	23	31	17	27	1.97
47773127--47773577	129	3.5	129	87	2	622	36	20	16	26	1.93
47775907--47775942	1	36.0	1	94	0	54	0	0	5	94	0.31
47775912--47775946	11	3.2	11	91	0	52	0	0	11	88	0.51
47776244--47776979	176	4.2	176	86	4	916	22	23	20	33	1.98
47777079--47777269	64	3.0	63	92	3	301	36	13	17	32	1.88
47779486--47779670	90	2.1	91	95	2	338	15	26	13	44	1.83
47782731--47783180	128	3.5	128	91	0	668	34	20	18	26	1.95
47789158--47789280	28	4.4	28	90	2	176	33	28	12	26	1.92
47798883--47798932	24	2.1	24	85	7	66	14	0	34	52	1.42
47799051--47799358	126	2.4	125	91	2	485	38	17	18	25	1.92
47802400--47802481	39	2.1	39	82	6	96	46	7	7	39	1.60
47802538--47802569	15	2.1	15	94	0	55	65	6	0	28	1.16
47802435--47802811	132	2.9	129	90	5	575	55	4	4	35	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47802915--47802967	21	2.5	22	78	12	65	7	20	45	26	1.78
47805038--47805088	11	4.7	10	83	9	57	39	0	31	29	1.57
47805038--47805088	21	2.3	21	80	16	59	39	0	31	29	1.57
47806236--47806328	26	3.6	26	80	8	100	23	12	26	36	1.91
47806219--47806353	51	2.6	52	85	3	175	26	14	24	34	1.94
47806240--47806353	52	2.2	51	85	1	147	26	14	24	35	1.93
47807940--47807979	19	2.1	19	85	0	53	42	12	10	35	1.76
47809412--47809437	9	2.9	9	100	0	52	23	19	11	46	1.82
47816830--47816891	30	2.1	30	96	0	115	25	14	27	32	1.95
47824382--47824486	39	2.6	39	86	5	122	24	22	27	24	2.00

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