genome.fa.s2.2.7.7.80.10.50.1000.159.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  159  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)
52306707--52306916	86	2.5	86	83	8	268	26	16	25	32	1.96
52309487--52309523	19	1.9	19	89	10	58	0	27	0	72	0.84
52309488--52309531	19	2.4	18	82	14	54	0	31	0	68	0.90
52309726--52309760	16	2.3	15	90	5	52	51	2	0	45	1.16
52310002--52310185	54	3.3	53	67	21	140	30	16	1	51	1.55
52309998--52310230	116	2.0	116	98	0	448	32	16	1	49	1.54
52314712--52314747	18	2.0	18	89	10	56	69	0	2	27	1.02
52317984--52318048	23	2.9	22	84	6	78	61	0	1	36	1.05
52317984--52318039	22	2.5	23	85	5	80	60	0	1	37	1.07
52317984--52318049	22	3.0	22	80	14	73	60	0	3	36	1.12
52322934--52322981	21	2.3	21	92	0	78	43	12	12	31	1.80
52323561--52323619	30	1.9	32	83	13	79	37	3	5	54	1.39
52325810--52325852	21	2.0	21	86	0	59	25	2	0	72	0.97
52328454--52328499	18	2.6	18	83	10	58	56	0	13	30	1.37
52328463--52328499	19	2.0	19	89	5	58	51	0	16	32	1.45
52333551--52333579	13	2.2	13	100	0	58	37	6	6	48	1.57
52336291--52336813	257	2.0	257	98	0	1010	28	13	16	41	1.86
52338077--52338410	35	9.6	35	84	1	431	30	13	25	30	1.94
52338077--52338411	70	4.8	70	88	3	482	30	13	25	31	1.94
52338077--52338410	104	3.2	104	86	0	452	30	13	25	30	1.94
52338812--52338882	24	2.9	24	82	2	70	32	15	21	30	1.94
52339939--52340065	42	3.0	42	80	6	143	29	24	14	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52340124--52340232	31	3.5	31	85	0	137	26	26	22	24	2.00
52340242--52340385	50	2.9	50	89	2	220	25	22	17	34	1.95
52344263--52344319	26	2.2	26	87	0	87	36	14	8	40	1.76
52350774--52350798	12	2.1	12	100	0	50	40	16	16	28	1.89
52357625--52357809	52	3.5	52	84	6	214	32	25	17	24	1.97
52360941--52360980	3	13.3	3	94	0	53	32	7	0	60	1.25
52360939--52360996	27	2.3	25	77	13	64	34	6	1	56	1.36
52361077--52361114	3	12.3	3	88	5	58	34	2	0	63	1.09
52361173--52361208	17	2.1	17	89	0	54	30	2	2	63	1.22
52361366--52361395	15	2.0	15	93	0	51	33	10	0	56	1.32
52363458--52363483	3	8.7	3	100	0	52	69	0	0	30	0.89
52364184--52364227	18	2.4	18	96	0	79	56	4	0	38	1.20
52380203--52380570	126	2.9	126	91	1	587	27	17	16	38	1.91
52380646--52380693	22	2.2	22	88	3	71	50	18	0	31	1.48
52380658--52380732	22	3.4	22	77	3	71	40	18	1	40	1.59
52380799--52380840	22	1.9	22	100	0	84	40	16	0	42	1.48
52380819--52380886	34	2.0	34	88	2	102	44	17	1	36	1.58
52380610--52381018	108	3.9	107	84	5	503	41	18	1	38	1.59
52380926--52380997	34	2.2	32	87	5	99	38	18	2	40	1.65
52380799--52381004	56	3.8	57	75	15	227	41	18	1	38	1.60
52380960--52381021	22	2.8	21	81	11	79	41	17	1	38	1.59
52382376--52382426	16	3.0	17	72	16	52	35	1	1	60	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52382607--52382659	22	2.3	24	83	6	74	35	0	1	62	1.06
52383862--52383905	21	2.1	22	87	8	65	70	0	0	29	0.88
52392650--52392707	5	10.8	5	76	12	53	44	0	1	53	1.10
52392653--52392708	12	4.5	12	81	16	69	44	0	1	53	1.11
52393604--52393642	18	2.1	19	90	4	62	41	0	10	48	1.37
52393882--52394016	39	3.4	39	74	6	112	23	20	28	28	1.99
52394139--52394179	19	2.2	19	87	12	59	46	0	24	29	1.53
52394807--52394937	65	2.0	65	95	0	235	35	9	20	33	1.86
52396450--52396511	30	2.1	30	100	0	124	37	27	16	19	1.93
52402602--52402653	24	2.2	24	89	0	77	55	9	1	32	1.43
52404564--52404615	24	2.2	24	89	0	77	53	9	3	32	1.51
52409449--52409515	32	2.2	31	82	12	77	37	1	2	58	1.23
52410446--52410476	14	2.2	14	100	0	62	38	0	25	35	1.56
52411283--52411330	15	3.3	14	83	16	62	68	0	0	31	0.90
52411285--52411330	14	3.2	13	85	14	56	69	0	0	30	0.89
52421743--52421943	105	1.9	105	83	4	262	26	24	14	34	1.94
52425753--52425784	16	2.0	17	88	11	50	43	3	0	53	1.16
52430669--52430707	20	1.9	21	84	5	53	23	7	0	69	1.14
52444863--52444911	26	2.0	26	88	8	75	30	0	6	63	1.19
52445845--52445884	21	2.0	20	85	5	53	40	15	2	42	1.60
52446986--52447018	6	5.5	6	100	0	66	0	0	66	33	0.92
52458617--52458661	15	2.9	16	77	16	58	28	2	2	66	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52468202--52468256	22	2.4	22	78	9	56	32	5	7	54	1.51
52473694--52473769	16	4.8	16	85	0	107	28	27	5	38	1.78
52474905--52474968	23	2.7	25	73	11	62	39	0	3	57	1.14
52475013--52475059	7	6.6	7	79	13	51	53	0	2	44	1.12
52475011--52475056	22	2.1	22	84	8	58	50	0	2	47	1.13
52477368--52477421	22	2.5	22	77	19	53	38	11	11	38	1.76
52477386--52477427	22	1.9	22	100	0	84	38	14	9	38	1.78
52477690--52477714	2	12.5	2	100	0	50	52	0	0	48	1.00
52479057--52479096	19	2.1	19	95	0	71	45	5	2	47	1.38
52484531--52484573	20	2.2	20	87	8	61	39	0	2	58	1.11
52484985--52485045	23	2.5	26	75	22	69	55	1	0	42	1.09
52488273--52488306	16	2.1	16	88	0	50	50	14	17	17	1.79
52491107--52491147	21	2.0	21	90	0	64	29	21	29	19	1.98
52493053--52493086	16	2.1	16	88	0	50	50	14	17	17	1.79
52494924--52494958	17	2.1	17	100	0	70	28	54	0	17	1.43
52494924--52495007	41	2.0	41	88	0	123	26	48	2	22	1.62
52496056--52496090	18	1.9	18	100	0	70	37	0	22	40	1.55
52498304--52498361	31	1.9	30	85	3	80	36	5	1	56	1.32
52498432--52498463	11	2.9	11	100	0	64	53	0	0	46	1.00
52499760--52499858	41	2.5	40	85	8	137	24	16	24	35	1.95
52508434--52508484	25	2.0	25	84	0	66	62	5	3	27	1.36
52509087--52509718	316	2.0	316	100	0	1264	24	20	20	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52511891--52511973	41	2.0	41	83	4	105	57	9	2	30	1.43
52513658--52513863	102	2.0	102	97	0	385	32	21	12	33	1.90
52514190--52514232	21	2.0	21	90	0	68	48	20	2	27	1.62
52516802--52516839	11	3.5	11	96	0	67	44	0	5	50	1.24
52517446--52517482	5	7.2	5	96	3	65	37	0	0	62	0.96
52518400--52518438	20	2.1	19	90	9	62	41	0	20	38	1.53
52521593--52521639	21	2.2	22	92	3	78	21	19	38	21	1.94
52525579--52525635	15	3.9	15	88	2	89	35	0	12	52	1.39
52526006--52526113	21	5.0	21	84	4	126	16	19	25	38	1.92
52528508--52528538	3	10.3	3	92	0	53	0	35	0	64	0.94
52535774--52535812	20	2.0	20	94	0	69	58	5	0	35	1.20
52547707--52547749	21	2.0	21	95	0	77	25	18	25	30	1.98
52551267--52551307	11	3.6	11	81	18	57	41	0	0	58	0.98
52560526--52560581	29	1.9	29	100	0	112	32	19	12	35	1.89
52570578--52570657	33	2.4	32	75	6	88	23	40	11	25	1.88
52570610--52570660	21	2.4	21	93	0	84	21	41	13	23	1.89
52570598--52570633	12	3.0	12	95	0	63	25	47	8	19	1.77
52571286--52571339	12	4.5	12	85	0	72	37	33	3	25	1.74
52571286--52571339	24	2.2	24	93	0	90	37	33	3	25	1.74
52572106--52572136	12	2.6	12	94	0	53	54	16	29	0	1.42
52573468--52573565	46	2.1	46	92	0	160	28	14	19	37	1.91
52574505--52574553	16	2.9	17	82	8	57	53	4	0	42	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52574527--52574576	19	2.6	18	78	15	55	52	6	0	42	1.26
52585005--52585052	22	2.0	24	84	11	64	45	10	0	43	1.38
52588479--52588508	9	3.3	9	100	0	60	43	10	10	36	1.72
52596960--52596985	12	2.2	12	100	0	52	76	0	0	23	0.78
52597938--52598133	99	2.0	99	91	0	320	26	19	15	37	1.92
52602595--52602627	14	2.2	16	89	10	52	24	3	0	72	0.98
52611268--52611326	29	2.0	29	100	0	118	57	3	6	32	1.41
52612329--52612427	48	2.1	48	98	0	189	45	20	12	22	1.83
52617182--52617209	6	4.7	6	100	0	56	0	0	50	50	1.00
52620397--52620541	75	1.9	75	100	0	290	30	20	11	38	1.87

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