genome.fa.s2.2.7.7.80.10.50.1000.127.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  127  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)
41562531--41562634	32	3.2	32	83	5	111	38	11	25	25	1.89
41562627--41562712	31	2.8	31	78	0	100	30	17	25	26	1.97
41562802--41562866	27	2.4	27	89	0	94	40	12	26	21	1.88
41562921--41562994	34	2.2	34	95	0	112	25	12	28	33	1.92
41572092--41572274	79	2.3	81	82	7	214	26	27	21	24	1.99
41572090--41572274	40	4.7	40	79	10	200	26	28	21	23	1.99
41580194--41580378	40	4.7	40	83	6	225	25	27	22	24	2.00
41580194--41580378	79	2.3	81	81	8	218	25	27	22	24	2.00
41583138--41583169	12	2.7	12	95	0	55	12	40	15	31	1.85
41585833--41585991	42	3.8	42	77	6	160	30	23	13	32	1.94
41591417--41591545	26	5.0	26	88	0	186	24	27	8	38	1.85
41597293--41597372	15	5.4	15	73	7	65	56	13	18	11	1.67
41597304--41597381	15	5.2	15	69	9	52	53	15	17	12	1.72
41600319--41600490	93	1.8	93	93	0	299	27	28	22	22	1.99
41600312--41600487	46	3.8	46	76	12	189	28	28	21	21	1.99
41600907--41600966	30	2.0	30	90	0	93	30	25	8	36	1.85
41606646--41607337	43	16.3	42	78	7	228	20	33	30	16	1.94
41606762--41607509	85	8.8	84	81	8	585	19	32	31	17	1.95
41606624--41607509	170	5.2	170	80	7	854	19	32	30	16	1.95
41606686--41607551	297	2.9	299	84	3	1043	19	32	30	16	1.94
41606724--41607551	43	19.4	43	79	6	814	19	32	30	17	1.95
41606624--41607503	213	4.1	213	81	5	994	19	32	30	16	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41607863--41607927	24	2.7	24	87	2	94	18	32	38	10	1.85
41611860--41611996	40	3.5	39	86	5	177	25	21	27	25	1.99
41612232--41612341	55	2.0	55	100	0	220	27	16	16	40	1.89
41618218--41618590	195	2.0	186	85	6	507	30	27	23	18	1.98
41626643--41626713	35	2.0	35	91	0	115	26	23	12	36	1.91
41632852--41632884	13	2.6	13	95	4	59	30	0	15	54	1.41
41637882--41637914	6	5.5	6	96	0	57	15	3	0	81	0.80
41637882--41637921	18	2.2	18	86	0	53	17	5	0	77	0.94
41640844--41640876	13	2.6	13	95	4	59	30	0	15	54	1.41
41645332--41645367	18	2.1	17	89	5	54	25	38	5	27	1.77
41646406--41646728	46	6.9	46	76	8	251	26	19	28	25	1.99
41646418--41646629	94	2.3	94	83	0	262	28	18	27	24	1.98
41647164--41647234	34	2.1	34	97	0	133	39	11	22	26	1.88
41648426--41648553	47	2.8	45	83	9	159	26	17	29	25	1.98
41648426--41648698	49	5.7	48	78	9	229	27	19	28	24	1.99
41648426--41648700	98	2.9	98	80	7	260	27	19	28	24	1.99
41650637--41650823	40	4.7	40	88	2	277	20	20	27	32	1.97
41654508--41655714	57	22.9	48	91	6	1209	34	6	28	31	1.83
41655414--41655542	28	5.2	28	58	27	74	35	6	29	28	1.82
41657117--41657141	13	1.9	13	100	0	50	32	16	16	36	1.90
41658992--41659145	47	3.3	47	90	0	254	34	7	29	27	1.85
41663873--41663923	23	2.2	24	96	3	95	64	13	3	17	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41672167--41672336	64	2.6	66	84	3	186	32	12	27	27	1.93
41672191--41672336	64	2.3	64	91	0	229	29	13	29	28	1.94
41676284--41676323	21	2.0	20	85	14	55	22	27	37	12	1.90
41677602--41677815	46	4.6	47	78	9	215	24	27	19	28	1.98
41677602--41677815	94	2.3	95	82	7	258	24	27	19	28	1.98
41685282--41685448	46	3.6	46	81	3	174	24	28	17	29	1.97
41690992--41691208	40	5.5	40	89	3	298	24	26	23	25	2.00
41694752--41694787	15	2.4	15	85	0	54	36	41	2	19	1.66
41697929--41697956	14	2.0	14	100	0	56	71	7	7	14	1.29
41700641--41700690	23	2.2	23	92	3	84	26	26	4	44	1.72
41703540--41703715	90	2.0	90	91	0	289	24	17	20	37	1.94
41709871--41709918	23	2.1	23	100	0	96	33	31	4	31	1.77
41715441--41715641	109	1.8	109	88	0	303	30	17	20	31	1.95
41715826--41715876	3	17.3	3	77	4	50	64	0	5	29	1.17
41715949--41715988	21	1.9	21	84	0	53	57	0	5	37	1.21
41715962--41715992	15	2.1	15	100	0	62	61	0	6	32	1.21
41715942--41716020	24	3.1	25	72	17	63	60	1	7	30	1.32
41716310--41716369	18	3.4	17	78	13	66	63	3	6	26	1.35
41716342--41716414	3	23.3	3	80	8	83	60	2	6	30	1.37
41717328--41717385	13	4.5	13	72	20	50	81	3	6	8	0.98
41717328--41717381	26	2.1	26	86	10	76	81	3	5	9	0.97
41717340--41717385	19	2.4	19	77	3	56	80	4	6	8	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41717661--41717758	49	2.0	49	100	0	196	14	4	51	30	1.61
41717658--41717759	22	4.4	22	83	11	132	13	3	51	30	1.59
41722830--41722873	19	2.3	20	84	7	56	40	11	20	27	1.86
41730484--41730657	46	3.8	45	76	8	190	22	20	26	29	1.99
41740864--41740985	58	2.1	59	85	1	165	32	23	18	24	1.97
41741630--41741722	42	2.2	42	90	0	141	15	23	35	25	1.94
41741593--41744589	43	70.3	43	75	6	2147	18	30	31	20	1.96
41741593--41744430	169	16.6	165	73	10	1001	18	30	31	20	1.96
41741593--41744475	85	33.8	85	75	7	1989	18	30	31	20	1.96
41741728--41744475	212	12.9	212	76	7	1420	18	30	31	19	1.96
41741553--41744314	297	9.2	294	74	8	1438	18	30	31	20	1.96
41744143--41744567	85	4.9	85	77	7	383	17	30	32	19	1.95
41741593--41744589	128	23.4	128	76	6	1979	18	30	31	20	1.96
41748731--41748858	29	4.5	29	86	2	154	33	25	12	28	1.92
41748730--41748858	57	2.3	57	84	2	170	33	25	12	28	1.92
41755024--41755062	18	2.3	18	86	8	55	43	12	5	38	1.65
41755219--41755249	15	2.1	15	100	0	62	22	32	6	38	1.80
41768603--41768683	41	2.0	40	90	0	117	17	32	32	17	1.93
41770414--41770447	5	7.2	5	87	12	54	20	38	17	23	1.93
41771114--41771224	58	1.9	58	90	0	177	33	19	19	27	1.96
41776817--41776863	24	2.0	24	95	0	85	6	34	36	23	1.80
41777184--41777210	9	3.0	9	100	0	54	33	44	11	11	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41780799--41780982	79	2.3	81	82	11	222	25	27	22	25	2.00
41780799--41780982	40	4.6	41	83	12	199	25	27	22	25	2.00
41788747--41788930	40	4.7	40	81	11	195	25	26	22	26	2.00
41788747--41788930	79	2.3	81	81	11	213	25	26	22	26	2.00
41797699--41797820	58	2.1	59	87	1	174	31	22	20	25	1.98
41799944--41800007	24	2.7	24	78	4	67	10	29	34	25	1.90
41800214--41803027	43	66.3	43	79	6	2605	16	31	32	18	1.94
41800239--41800350	42	2.6	43	85	4	156	20	30	33	16	1.94
41800189--41803027	85	33.4	86	80	5	2769	16	31	32	18	1.94
41800324--41803055	128	21.5	126	78	6	2255	16	31	32	18	1.94
41805278--41805471	40	4.8	40	89	0	262	24	22	28	25	1.99
41807414--41807592	90	2.0	90	98	0	349	35	7	22	34	1.83
41809030--41809464	47	9.2	47	91	3	701	31	9	30	28	1.88
41809312--41809387	22	3.3	22	64	10	62	28	11	30	28	1.92
41809030--41809464	190	2.3	189	93	1	735	31	9	30	28	1.88
41811515--41812305	43	18.4	43	99	0	1564	21	14	37	27	1.92
41816462--41817154	42	16.3	42	79	4	597	16	32	31	19	1.94
41816462--41817116	86	7.7	85	80	5	528	16	33	31	19	1.93
41816462--41817116	298	2.2	297	82	5	829	16	33	31	19	1.93
41818643--41818710	28	2.4	28	90	4	102	27	11	26	33	1.91
41820284--41822205	43	44.7	43	79	8	1829	15	32	31	19	1.94
41820284--41822647	128	18.5	128	77	10	1924	16	32	31	19	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41820692--41820728	19	1.9	19	100	0	74	5	32	32	29	1.80
41820608--41820814	104	2.0	104	82	7	251	13	34	30	21	1.91
41820565--41820834	146	1.8	146	82	6	350	14	33	31	21	1.92
41822092--41822317	113	2.0	114	87	6	334	16	33	33	16	1.92
41822135--41822268	70	1.9	72	89	3	209	17	34	32	15	1.91
41822417--41822645	42	5.4	43	78	8	238	17	32	31	18	1.94
41829064--41829290	38	6.0	38	99	0	445	23	13	25	37	1.91
41836194--41836314	58	2.1	59	84	4	156	31	23	20	23	1.98
41837024--41838320	43	30.5	43	84	4	1567	16	33	31	18	1.93
41838631--41838702	35	2.1	35	89	0	108	37	12	23	26	1.90

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