genome.fa.s2.2.7.7.80.10.50.1000.141.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  141  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)
46096664--46096836	93	1.9	93	88	0	265	28	30	20	20	1.98
46096657--46096832	46	3.8	46	76	10	169	29	29	20	20	1.98
46099138--46099301	27	6.1	27	82	2	170	43	22	13	20	1.86
46099145--46099301	54	2.9	53	87	3	215	43	22	13	20	1.86
46099138--46099301	81	2.0	81	85	4	224	43	22	13	20	1.86
46099550--46099713	27	6.1	27	82	2	170	43	22	13	20	1.86
46099557--46099713	54	2.9	53	87	3	215	43	22	13	20	1.86
46098889--46100125	412	3.0	412	99	0	2402	32	20	22	24	1.98
46099550--46099713	81	2.0	81	85	4	224	43	22	13	20	1.86
46099969--46100318	27	13.0	27	83	6	365	42	20	14	22	1.88
46100716--46100755	18	2.2	18	90	0	62	17	22	20	40	1.92
46103014--46103083	21	3.2	21	66	25	54	20	12	25	41	1.88
46103006--46103093	45	2.0	45	90	0	140	21	14	25	38	1.92
46107804--46107873	21	3.2	21	66	25	54	21	12	25	40	1.89
46107815--46107883	21	3.1	22	69	19	70	21	11	27	39	1.88
46110929--46111122	39	5.0	39	81	5	171	22	21	28	27	1.99
46126109--46126196	45	2.0	45	95	0	158	26	13	22	37	1.91
46133177--46133246	21	3.2	21	66	18	52	22	12	24	40	1.89
46133186--46133256	21	3.2	22	66	18	65	22	11	26	39	1.88
46133169--46133256	45	2.0	45	95	0	158	25	12	23	38	1.90
46135235--46135265	14	2.2	14	100	0	62	12	12	0	74	1.08
46136589--46136641	18	3.1	18	72	10	65	49	7	15	28	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46141013--46141100	45	2.0	45	97	0	167	22	13	26	37	1.91
46153679--46153765	45	1.9	45	85	0	120	22	12	24	40	1.89
46158264--46159200	40	23.5	40	97	0	1754	25	29	22	22	1.99
46163288--46163624	40	8.4	40	92	2	545	25	28	22	23	1.99
46167542--46167608	33	2.0	34	88	5	100	26	23	20	28	1.99
46167545--46167617	34	2.2	33	87	7	103	26	21	21	30	1.99
46169669--46169756	45	2.0	45	95	0	158	21	11	27	39	1.87
46172480--46172706	50	4.5	50	79	7	235	29	26	16	26	1.97
46179283--46179520	50	4.7	50	78	8	223	30	25	16	27	1.97
46179279--46179473	101	1.9	101	91	0	318	28	24	17	29	1.98
46179873--46179919	19	2.3	20	85	10	69	46	14	0	38	1.45
46182305--46182363	27	2.2	26	84	3	73	22	23	18	35	1.96
46187005--46187043	17	2.2	18	95	4	71	38	0	15	46	1.46
46192246--46192503	40	6.5	41	87	6	309	25	26	23	24	2.00
46200439--46200616	39	4.5	39	86	2	214	26	21	27	24	1.99
46200393--46200616	79	2.8	80	80	11	237	25	22	27	24	2.00
46200393--46200616	40	5.6	39	83	5	238	25	22	27	24	2.00
46200446--46200649	79	2.6	78	82	6	200	26	21	27	24	1.99
46213223--46213293	27	2.6	27	84	0	88	32	16	7	43	1.75
46213223--46213306	27	3.1	27	73	10	73	29	20	7	42	1.78
46213308--46213437	27	4.9	27	79	3	120	40	20	9	30	1.83
46213301--46213437	54	2.6	54	77	11	140	40	21	8	29	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46213342--46213550	27	7.7	27	76	10	142	40	19	8	31	1.82
46213366--46213519	56	2.8	53	80	9	150	43	18	7	31	1.77
46213568--46213645	27	2.9	27	77	11	88	37	21	20	20	1.95
46214447--46214595	26	5.8	26	87	0	203	26	23	22	27	2.00
46214740--46214828	42	2.1	42	91	0	142	30	13	20	35	1.91
46214855--46214933	31	2.5	31	95	0	140	29	17	26	26	1.98
46217249--46217333	27	3.1	27	88	3	118	29	17	8	44	1.78
46217325--46217460	27	5.1	27	75	10	109	38	22	10	27	1.87
46217332--46217460	54	2.4	53	79	8	129	40	21	10	27	1.85
46217365--46217574	53	3.9	53	77	10	183	40	20	8	31	1.81
46217418--46217545	27	4.7	27	78	12	127	42	19	6	31	1.76
46217365--46217550	27	6.9	26	77	10	124	41	19	7	31	1.79
46218469--46218643	26	6.8	26	85	0	228	27	21	22	29	1.99
46218469--46218633	52	3.2	51	92	0	260	28	20	22	28	1.99
46218788--46218879	42	2.2	42	92	0	148	29	14	21	34	1.93
46218903--46219012	31	3.5	31	94	0	184	31	18	23	26	1.97
46222770--46222851	34	2.4	34	77	4	85	26	24	26	21	2.00
46223651--46223679	14	2.0	15	93	6	51	51	20	0	27	1.47
46226620--46226784	43	3.8	43	75	14	135	26	18	24	30	1.98
46240341--46240411	30	2.4	30	92	0	115	32	30	21	15	1.94
46242421--46242454	17	2.0	17	94	0	59	38	11	17	32	1.86
46246569--46246702	44	3.1	43	73	16	107	26	17	24	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46253372--46253399	13	2.2	13	100	0	56	14	7	53	25	1.66
46254121--46254172	25	2.1	25	100	0	104	42	11	17	28	1.84
46258020--46258171	18	8.4	18	79	1	126	35	16	11	36	1.84
46258040--46258171	54	2.4	54	87	0	183	35	15	10	37	1.83
46258317--46258416	44	2.3	44	79	6	105	38	22	19	21	1.94
46258507--46258544	20	1.9	20	89	10	60	44	13	5	36	1.66
46258514--46258563	19	3.0	15	83	16	55	42	14	2	42	1.56
46259669--46259701	14	2.2	15	89	10	50	57	0	0	42	0.98
46260070--46260139	21	3.2	21	64	18	52	22	12	25	38	1.90
46260062--46260149	45	2.0	45	93	0	149	23	12	26	37	1.90
46263685--46263820	69	2.0	69	95	0	245	36	15	17	30	1.91
46267285--46267454	46	3.7	47	76	13	172	29	28	21	20	1.98
46267292--46267464	93	1.9	93	88	2	267	28	28	20	21	1.98
46285723--46285831	37	2.9	37	89	2	166	22	17	32	27	1.97
46288119--46288244	40	3.1	40	86	1	108	23	19	28	27	1.99
46288134--46288249	40	2.9	40	92	0	187	20	22	29	27	1.99
46288246--46288385	43	3.3	43	83	0	163	14	20	32	32	1.93
46288504--46288554	25	2.0	25	88	7	77	27	13	31	27	1.94
46289845--46289923	24	3.2	24	63	19	63	29	5	18	46	1.70
46289828--46289934	50	2.1	51	96	3	207	26	7	20	45	1.77
46289829--46289908	26	3.2	26	63	20	69	26	7	20	46	1.77
46292987--46293116	39	3.3	39	93	0	215	21	20	29	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46292991--46293153	39	4.2	39	87	1	148	20	20	30	27	1.98
46292987--46293160	78	2.2	78	82	4	190	21	20	28	29	1.98
46299854--46299977	39	3.2	39	90	0	185	20	20	31	27	1.98
46301226--46301264	15	2.6	15	91	0	69	58	20	12	7	1.58
46301205--46301264	30	2.0	30	87	6	86	56	16	15	11	1.67
46302291--46302402	27	4.1	27	87	0	143	29	22	7	41	1.80
46302291--46302402	54	2.1	54	91	0	179	29	22	7	41	1.80
46302878--46302982	27	3.9	26	77	6	102	36	18	19	26	1.94
46302878--46302982	54	1.9	54	82	0	129	36	18	19	26	1.94
46303188--46303310	52	2.4	51	94	2	212	26	22	22	27	1.99
46303188--46303310	26	4.8	26	89	1	178	26	22	22	27	1.99
46303455--46303546	42	2.2	42	92	0	148	29	14	21	34	1.93
46303570--46303648	31	2.5	31	100	0	158	27	18	26	26	1.98
46306594--46306757	42	3.7	42	71	13	123	30	28	18	21	1.97
46314150--46314435	143	2.0	143	98	0	554	22	32	11	33	1.91
46316385--46316472	45	2.0	45	90	4	142	23	10	27	38	1.87
46324689--46324799	54	2.1	54	94	0	195	49	8	17	25	1.73
46335706--46335745	13	3.1	13	96	0	71	20	30	27	22	1.98
46354344--46354681	40	8.5	40	91	3	479	27	27	20	23	1.99
46359970--46360021	27	2.0	26	84	3	68	34	21	26	17	1.95
46360783--46360865	30	2.7	31	87	3	125	21	25	21	31	1.98
46361073--46361132	25	2.4	23	81	13	66	26	23	20	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46368739--46368773	8	4.4	8	88	0	52	51	20	22	5	1.68
46369017--46369108	29	3.2	29	80	4	105	29	15	29	26	1.96
46368993--46369097	29	3.6	29	79	11	108	30	15	28	25	1.96
46369006--46369117	58	1.9	58	85	3	154	29	16	29	25	1.96
46375502--46375673	67	2.6	66	81	7	170	31	16	29	22	1.96
46375526--46375709	67	2.8	64	78	8	203	28	16	30	23	1.96
46391577--46391628	25	2.1	25	100	0	104	42	32	3	21	1.71
46392614--46392652	15	2.7	14	80	7	51	0	10	10	79	0.94
46407350--46407433	26	3.3	26	85	8	113	25	23	21	29	1.99
46407483--46407538	11	5.5	11	71	16	57	32	19	10	37	1.86

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