genome.fa.s2.2.7.7.80.10.50.1000.132.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  132  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)
43236935--43237092	78	2.0	78	98	0	307	27	11	25	36	1.90
43237563--43237652	46	2.0	46	97	0	171	38	8	21	31	1.84
43238411--43238522	38	2.9	38	92	5	174	30	19	27	22	1.98
43238577--43239540	40	24.1	40	97	0	1786	22	22	29	25	1.99
43241559--43241586	5	5.6	5	100	0	56	21	0	0	78	0.75
43242622--43242673	21	2.5	21	74	0	59	36	26	21	15	1.93
43243065--43243104	15	2.7	14	85	11	53	52	12	0	35	1.39
43243953--43243988	13	2.8	14	84	16	51	0	33	0	66	0.92
43244211--43244251	20	2.0	20	90	9	66	48	4	0	46	1.23
43249078--43249152	21	3.4	23	75	12	77	37	25	21	16	1.93
43249534--43249575	15	2.9	14	80	20	50	50	14	0	35	1.43
43250412--43250453	13	3.2	14	80	16	54	0	30	0	69	0.89
43250603--43250666	32	2.0	32	85	8	87	46	7	0	45	1.32
43250655--43250695	20	2.0	20	90	9	66	48	4	0	46	1.23
43251406--43251510	41	2.5	42	90	4	160	21	19	26	32	1.97
43251406--43251524	41	2.9	41	82	10	145	19	20	27	32	1.96
43252955--43253085	6	21.3	6	72	16	90	50	12	15	21	1.77
43252976--43253085	31	3.5	31	87	0	139	50	11	15	21	1.76
43252963--43253085	37	3.5	37	79	15	120	50	12	15	21	1.76
43253506--43254102	27	22.2	27	85	3	695	26	18	18	37	1.93
43253737--43254183	27	16.7	26	77	10	129	27	13	19	39	1.89
43255959--43256126	43	3.9	43	93	1	259	14	22	33	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43255938--43256112	86	2.1	84	89	4	262	14	22	32	30	1.94
43259636--43259674	15	2.6	15	100	0	78	53	7	17	20	1.68
43265555--43265915	39	9.3	39	89	0	528	29	25	22	22	1.99
43265555--43265883	78	4.2	78	97	0	597	31	24	21	22	1.99
43267315--43267447	61	2.2	62	93	2	232	39	22	12	25	1.90
43273841--43273986	39	3.7	38	86	3	184	30	25	19	23	1.98
43273841--43273986	78	1.9	78	86	0	211	30	25	19	23	1.98
43280252--43280429	27	6.6	26	79	6	160	25	16	28	28	1.97
43280249--43280429	82	2.2	81	81	2	211	25	17	28	28	1.97
43299082--43299109	9	3.1	9	100	0	56	35	10	10	42	1.74
43301591--43301813	40	5.6	40	86	3	245	25	21	27	26	1.99
43301666--43301848	79	2.3	80	84	1	235	26	20	27	25	1.99
43309499--43309801	40	7.6	40	90	2	387	24	20	28	27	1.99
43312195--43312351	43	3.7	42	83	9	185	23	19	26	31	1.98
43314969--43315086	43	2.8	42	85	3	157	26	16	24	32	1.96
43319212--43319255	23	1.9	23	81	9	54	38	27	0	34	1.57
43323192--43323242	16	3.1	17	83	5	61	39	19	7	33	1.81
43326070--43326111	16	2.6	16	85	7	59	52	0	2	45	1.13
43326626--43326654	13	2.2	13	100	0	58	55	13	0	31	1.39
43352205--43352231	9	3.0	9	100	0	54	22	22	0	55	1.44
43358662--43358758	40	2.4	42	83	10	114	29	28	15	25	1.96
43373449--43373490	21	2.0	21	90	0	66	21	14	45	19	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43388992--43389179	40	4.7	40	84	3	236	24	27	23	25	2.00
43388992--43389175	79	2.3	80	81	4	212	24	27	23	23	2.00
43401211--43401249	20	2.0	20	100	0	78	35	12	20	30	1.90
43401266--43401293	13	2.2	13	100	0	56	0	0	42	57	0.99
43401314--43401415	47	2.2	46	91	3	159	27	19	23	29	1.98
43401314--43401429	23	5.0	23	87	5	162	26	20	23	29	1.99
43425226--43425478	89	2.9	88	88	1	373	35	18	22	22	1.95
43425225--43425466	44	5.5	44	68	11	156	34	19	22	23	1.96
43427308--43427349	20	2.2	20	87	12	61	30	4	2	61	1.29
43427373--43427419	23	2.0	23	91	0	76	25	2	8	63	1.34
43427375--43427429	23	2.4	23	84	6	67	29	5	7	58	1.48
43427808--43427863	24	2.3	25	78	9	62	35	5	3	55	1.40
43435629--43435670	21	2.0	21	85	0	57	69	2	14	14	1.30
43436931--43437294	79	4.6	80	80	9	390	25	22	27	25	2.00
43436931--43437294	119	3.1	119	88	7	494	25	22	27	25	2.00
43436931--43437268	40	8.5	40	80	7	375	24	22	27	25	2.00
43445301--43446229	119	7.8	119	95	3	1631	24	23	26	25	2.00
43450057--43450225	39	4.3	40	84	4	200	24	31	20	23	1.98
43450057--43450202	79	1.8	79	88	0	220	25	30	19	23	1.98
43450055--43450225	79	2.2	79	83	3	218	24	31	20	23	1.98
43452180--43452279	50	2.0	50	94	0	173	25	32	17	26	1.97
43452700--43452978	139	2.0	139	97	0	522	34	24	18	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43455385--43455470	40	2.2	39	80	2	100	22	33	24	19	1.97
43455444--43455495	26	2.0	26	92	0	86	32	28	13	25	1.93
43464073--43464144	37	1.9	37	91	0	117	23	19	29	27	1.98
43465397--43465667	40	6.8	40	88	1	393	23	22	29	25	1.99
43465879--43465987	57	1.9	57	88	1	164	23	19	28	28	1.98
43466105--43466226	61	2.0	61	95	0	217	37	13	22	26	1.91
43466502--43466647	73	2.0	73	98	0	283	28	9	17	44	1.80
43467663--43467860	99	2.0	98	97	1	369	40	12	25	21	1.88
43469300--43469514	108	2.0	108	99	0	421	35	13	20	31	1.90
43470060--43470395	47	7.1	47	90	2	492	30	12	30	25	1.93
43470369--43470459	46	2.0	46	84	0	119	32	9	31	25	1.89
43470060--43470444	141	2.7	140	84	3	369	31	12	30	25	1.92
43470609--43470750	37	3.8	37	94	0	230	24	16	31	26	1.97
43474407--43474432	4	6.5	4	100	0	52	73	0	0	26	0.84
43478380--43478419	19	2.0	20	90	4	64	30	10	15	45	1.78
43488841--43488906	30	2.1	32	83	5	82	43	10	7	37	1.68
43490022--43490054	15	2.2	15	89	10	50	12	0	0	87	0.53
43494413--43494455	17	2.5	17	85	7	52	44	4	4	46	1.45
43494457--43494507	26	2.0	26	88	0	75	43	7	5	43	1.57
43494771--43494808	17	2.2	17	86	9	51	60	0	7	31	1.25
43495124--43495180	30	1.9	30	86	10	82	52	3	1	42	1.28
43495764--43495793	12	2.4	13	88	11	53	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43508854--43508888	15	2.3	15	90	9	54	20	0	0	80	0.72
43518658--43518699	19	2.3	19	95	4	77	38	9	14	38	1.78
43533987--43534032	23	2.0	23	100	0	92	30	4	17	47	1.67
43547609--43547664	18	3.1	18	89	0	85	37	8	17	35	1.82
43548203--43548256	11	5.0	11	86	4	74	29	5	46	18	1.72
43553072--43553124	26	2.0	27	85	3	72	24	1	22	50	1.59
43553058--43553124	15	4.8	14	70	17	50	23	1	23	50	1.57
43559343--43559514	47	3.7	47	75	8	161	25	29	17	27	1.97
43559344--43559566	94	2.4	95	84	2	281	24	29	17	28	1.97
43564759--43564936	27	6.6	27	81	5	171	28	28	16	26	1.97
43564780--43564935	82	1.9	81	86	1	222	27	28	17	26	1.97
43571894--43572128	128	1.8	128	100	0	470	33	20	17	28	1.96
43572126--43572213	40	2.2	40	93	0	149	27	27	20	25	1.99
43589419--43589709	146	2.0	146	95	1	521	33	18	12	35	1.88
43603471--43603522	26	2.0	26	96	0	95	26	17	9	46	1.79
43606688--43606872	40	4.7	40	83	5	216	24	21	28	26	1.99
43606741--43606895	79	2.0	79	82	7	190	25	19	27	27	1.99
43608580--43608612	17	2.0	17	88	5	50	39	15	6	39	1.72
43609452--43609495	21	2.1	21	100	0	88	31	6	4	56	1.46
43612213--43612335	41	3.0	41	89	8	173	29	19	25	26	1.99
43613084--43613196	22	5.1	22	71	15	81	43	31	1	23	1.64
43613012--43613194	65	2.8	65	75	8	176	44	30	1	24	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43613084--43613209	22	5.7	23	70	12	68	43	33	1	21	1.62
43613457--43613518	9	7.1	9	77	13	51	69	1	0	29	0.98
43613482--43613523	8	5.2	8	86	11	59	73	0	0	26	0.83
43613479--43613518	17	2.4	17	95	4	73	75	0	0	25	0.81
43613457--43613523	16	3.9	16	77	12	62	67	1	0	31	1.00
43613518--43613542	7	3.6	7	100	0	50	40	0	0	60	0.97
43613632--43613679	17	2.8	17	81	12	53	75	0	4	20	0.97
43617558--43617754	98	2.0	98	98	0	385	38	6	12	43	1.68
43617683--43618207	262	2.0	262	99	0	1041	25	15	21	37	1.93
43619250--43619308	25	2.3	26	82	5	68	77	1	11	8	1.05

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