genome.fa.s2.2.7.7.80.10.50.1000.154.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  154  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)
50505003--50505673	300	2.3	291	82	6	776	40	9	15	34	1.79
50510724--50510750	10	2.7	10	100	0	54	37	0	11	51	1.37
50521482--50522656	588	2.0	584	97	0	1963	37	18	14	29	1.90
50523110--50523148	18	2.2	18	86	9	53	7	20	2	69	1.26
50525733--50525941	28	7.5	28	96	1	359	26	13	28	31	1.94
50533610--50533761	27	5.6	27	92	3	232	27	13	28	30	1.94
50533610--50533761	55	2.8	55	92	0	241	27	13	28	30	1.94
50535598--50535662	4	16.2	4	100	0	130	49	26	0	24	1.51
50551237--50551298	30	2.1	30	93	0	106	38	3	30	27	1.72
50558376--50558908	291	1.8	289	85	1	744	22	13	31	32	1.93
50569924--50569948	11	2.3	11	100	0	50	36	0	32	32	1.58
50571158--50571279	54	2.3	54	81	2	138	45	18	20	15	1.86
50571158--50571291	27	5.0	27	76	0	115	42	20	19	17	1.89
50571467--50571521	26	2.1	26	89	0	83	18	21	23	36	1.95
50571615--50571795	28	6.5	28	88	0	256	22	25	22	29	1.99
50573479--50573518	21	2.0	21	85	5	55	40	10	10	40	1.72
50581466--50581517	25	2.1	24	89	3	77	26	21	23	28	1.99
50581511--50581572	25	2.5	25	86	0	79	30	17	22	29	1.97
50589361--50589389	14	2.0	15	93	6	51	58	0	41	0	0.98
50599900--50600109	40	5.3	39	87	5	233	24	21	28	25	1.99
50599847--50600109	120	2.2	120	81	4	300	25	21	27	25	1.99
50599900--50600144	80	3.1	80	81	3	228	25	21	28	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50602364--50602394	16	1.9	16	93	0	53	48	3	29	19	1.64
50602378--50602415	20	1.9	20	94	0	67	44	0	34	21	1.52
50609476--50609604	55	2.3	55	86	0	177	22	18	33	25	1.97
50612824--50612895	26	2.7	27	85	4	85	43	25	18	13	1.86
50613073--50613345	27	10.1	27	84	4	329	20	18	18	42	1.89
50613073--50613345	81	3.4	81	84	3	363	20	18	18	42	1.89
50617356--50617398	22	1.9	23	85	4	61	34	34	13	16	1.88
50620612--50620696	28	3.0	28	91	6	143	27	23	25	23	2.00
50621056--50621225	27	6.3	27	83	7	177	20	20	19	40	1.92
50621056--50621225	81	2.1	81	80	7	195	20	20	19	40	1.92
50631658--50631789	50	2.6	51	76	8	151	35	13	12	38	1.82
50631658--50631829	50	3.4	50	75	12	131	33	12	11	42	1.78
50631751--50631857	50	2.1	51	81	5	119	31	12	8	47	1.70
50635785--50635877	47	2.0	45	95	4	168	29	12	15	43	1.83
50637589--50637646	19	3.0	19	80	9	64	72	1	1	24	1.03
50637591--50637647	25	2.3	25	84	6	71	71	1	1	24	1.04
50637599--50637648	18	2.7	19	82	11	59	72	0	2	26	0.96
50650149--50650173	11	2.3	11	100	0	50	36	16	32	16	1.90
50658090--50658193	52	2.0	52	98	0	199	29	21	13	35	1.91
50663983--50664167	40	4.7	40	85	5	225	24	23	27	24	2.00
50663983--50664167	79	2.3	81	85	5	243	24	23	27	24	2.00
50663984--50664200	79	2.7	78	81	7	215	25	22	27	23	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50676090--50676172	35	2.3	36	85	6	107	31	3	28	36	1.75
50681215--50681322	6	18.0	6	70	16	64	74	0	20	4	1.06
50681220--50681300	24	3.4	24	76	19	80	74	1	18	6	1.10
50681224--50681300	19	3.8	19	72	21	59	72	1	19	6	1.13
50681223--50681332	43	2.6	41	83	12	125	71	0	20	6	1.13
50682828--50682852	12	2.1	12	100	0	50	24	0	36	40	1.55
50688976--50689049	25	3.0	25	78	11	64	29	20	22	27	1.98
50690307--50690331	11	2.3	11	100	0	50	64	8	0	28	1.22
50696060--50696104	16	2.9	15	78	15	56	33	4	8	53	1.52
50696061--50696094	17	2.1	16	88	5	50	32	2	8	55	1.45
50697375--50697408	16	2.2	16	89	5	52	64	0	8	26	1.22
50699237--50699359	50	2.3	53	82	10	137	26	19	31	22	1.98
50699622--50699660	20	2.0	20	90	10	62	56	5	23	15	1.59
50702358--50702398	17	2.4	17	83	0	55	82	0	12	4	0.81
50702357--50702409	23	2.3	23	78	9	63	77	0	16	5	0.96
50722358--50722402	23	2.0	23	82	8	56	8	6	13	71	1.31
50725977--50726008	14	2.3	14	94	0	55	68	0	15	15	1.21
50735487--50735679	50	3.9	50	79	7	196	21	26	22	29	1.99
50736068--50736127	30	2.0	29	84	9	77	30	25	6	38	1.81
50742434--50742693	41	6.3	40	78	9	213	35	25	18	20	1.95
50742445--50742674	82	2.8	81	82	10	245	36	25	17	20	1.95
50742478--50742689	82	2.6	82	82	4	257	35	25	19	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50742434--50742758	123	2.6	123	78	8	290	34	25	19	20	1.96
50746949--50746985	13	2.7	14	87	8	58	64	8	0	27	1.21
50748827--50748923	45	2.2	44	85	7	124	19	22	7	50	1.72
50752136--50752168	16	2.0	17	88	5	50	54	0	0	45	0.99
50763898--50763936	20	2.0	20	90	10	62	58	0	5	35	1.20
50767928--50768016	40	2.2	40	84	2	108	15	25	15	42	1.87
50767950--50768015	20	3.4	19	76	15	80	15	25	18	40	1.89
50768306--50768339	4	8.0	4	90	9	50	23	0	2	73	0.97
50768289--50768348	22	2.7	22	73	19	61	26	0	6	66	1.16
50772052--50772111	22	2.7	23	73	19	63	66	6	0	26	1.16
50772061--50772094	4	8.0	4	90	9	50	73	2	0	23	0.97
50775749--50776008	39	6.6	39	93	0	421	32	2	19	45	1.65
50776813--50776905	31	2.9	33	67	19	79	46	18	6	29	1.74
50777019--50777132	41	2.8	41	83	2	122	28	24	18	28	1.98
50777057--50777136	41	2.0	41	89	0	124	33	22	18	25	1.97
50784636--50784713	41	1.9	41	83	0	102	28	25	19	26	1.99
50785399--50785484	10	8.6	10	79	14	81	26	29	16	27	1.97
50785409--50785484	30	2.5	29	87	8	91	26	28	15	28	1.96
50785398--50785474	20	3.8	20	93	3	111	25	29	18	25	1.98
50785398--50785464	20	3.3	20	95	0	116	26	29	17	25	1.98
50785429--50785486	30	1.9	30	96	0	107	25	27	13	32	1.94
50790739--50790823	35	2.4	35	86	3	109	45	18	11	23	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50792190--50792664	235	2.0	233	86	4	661	39	9	33	18	1.82
50794461--50794526	23	2.9	23	86	0	96	42	27	12	18	1.85
50801236--50802138	452	2.0	451	98	0	1752	36	13	22	27	1.91
50804767--50804822	18	3.2	17	75	9	51	7	21	3	67	1.30
50804802--50804835	13	2.6	13	90	9	52	11	17	0	70	1.16
50804873--50804911	20	2.0	20	90	10	62	5	28	0	66	1.12
50804896--50804970	33	2.2	34	88	6	109	4	25	1	69	1.14
50806928--50806975	20	2.4	20	89	0	69	27	33	14	25	1.94
50806927--50806977	10	5.1	10	77	15	52	27	31	13	27	1.94
50809673--50809724	14	3.3	15	84	12	61	73	3	17	5	1.19
50810633--50810704	33	2.2	33	87	0	99	34	20	12	31	1.90
50813453--50813800	40	8.7	40	95	0	561	30	20	27	22	1.98
50821514--50821737	40	5.6	40	91	1	308	24	20	28	26	1.99
50821475--50821737	80	3.3	80	85	3	318	23	20	28	26	1.99
50821475--50821737	120	2.2	120	82	4	318	23	20	28	26	1.99
50825195--50825318	6	20.0	6	70	11	72	71	0	19	8	1.11
50825195--50825267	24	3.0	24	87	2	92	73	0	19	6	1.04
50825182--50825276	36	2.7	36	80	11	99	74	0	17	7	1.04
50825282--50825333	27	1.9	27	88	7	79	65	0	21	13	1.26
50827482--50827533	27	1.9	27	92	0	86	40	15	21	23	1.91
50830865--50830919	6	9.2	6	100	0	110	32	0	16	50	1.45
50832669--50832701	17	1.9	17	93	0	57	24	18	21	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50838321--50838354	16	2.1	16	94	0	59	35	35	8	20	1.84
50851202--50851234	16	2.0	17	94	5	59	15	6	6	72	1.24
50852141--50852321	90	2.1	86	84	4	227	37	17	13	31	1.89
50853218--50853294	24	3.2	24	66	23	70	32	19	10	37	1.86
50853199--50853298	49	2.0	49	100	0	200	33	20	12	35	1.89
50856677--50856740	33	1.9	33	100	0	128	40	18	6	34	1.76
50871097--50871130	16	2.1	17	88	5	52	11	0	11	76	1.02
50872364--50872406	21	2.0	21	82	8	52	53	16	11	18	1.72
50885566--50885613	18	2.8	18	80	20	59	58	12	10	18	1.62
50897558--50897767	104	2.0	104	100	0	420	40	25	5	27	1.78

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