genome.fa.s2.2.7.7.80.10.50.1000.124.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  124  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)
40592472--40593087	305	2.0	305	99	0	1207	31	19	15	34	1.93
40602362--40602437	38	2.0	38	100	0	152	23	26	23	26	2.00
40602754--40602807	23	2.3	24	81	18	69	72	3	0	24	1.01
40606975--40607009	2	17.5	2	100	0	70	51	0	48	0	1.00
40613455--40613489	15	2.2	16	90	5	54	74	0	2	22	0.95
40617758--40617806	26	2.0	24	88	8	71	30	0	6	63	1.19
40620561--40620637	5	15.8	5	70	24	58	37	0	2	59	1.11
40620562--40620635	21	3.5	22	80	9	84	37	0	2	59	1.12
40621184--40621215	8	4.0	8	100	0	64	25	0	25	50	1.50
40627089--40627150	24	2.6	23	72	7	61	48	1	8	41	1.42
40631427--40631592	35	4.6	35	81	8	199	31	11	24	32	1.91
40631431--40631597	75	2.3	74	83	8	202	32	11	22	32	1.91
40634590--40634718	43	3.0	43	76	7	120	33	23	19	24	1.97
40636245--40636274	15	2.0	15	93	0	51	63	0	3	33	1.11
40636793--40636845	14	3.6	15	85	10	65	9	0	9	81	0.89
40636793--40636838	21	2.2	21	84	7	58	8	0	10	80	0.91
40636807--40636849	7	6.1	7	84	10	61	11	0	4	83	0.78
40637573--40637702	67	1.9	67	100	0	260	20	42	3	33	1.68
40637702--40637734	2	16.5	2	100	0	66	0	51	0	48	1.00
40648252--40648301	21	2.3	22	80	13	59	38	0	12	50	1.40
40650614--40650648	15	2.3	15	90	0	52	31	11	25	31	1.91
40657813--40657855	19	2.1	21	83	8	54	16	4	25	53	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40664835--40664875	20	2.0	20	90	0	64	29	19	9	41	1.83
40669864--40669894	4	7.8	4	100	0	62	74	0	0	25	0.82
40670019--40670046	3	9.3	3	100	0	56	67	0	0	32	0.91
40671731--40672573	54	15.6	54	99	0	1643	35	24	24	16	1.95
40674192--40674299	26	4.2	26	92	0	189	37	25	6	31	1.81
40679230--40680071	54	15.6	54	98	0	1596	35	22	25	16	1.95
40681694--40681746	26	2.0	26	96	0	97	35	24	7	32	1.84
40686424--40686561	40	3.5	40	77	6	138	32	22	15	29	1.94
40687448--40687496	17	2.8	17	84	3	62	2	20	2	75	1.00
40687444--40687492	10	5.1	10	73	16	50	2	20	2	75	1.00
40688023--40688068	20	2.3	20	96	0	83	47	6	0	45	1.28
40689537--40689562	13	2.0	13	100	0	52	23	0	0	76	0.78
40689705--40689750	21	2.2	21	100	0	92	43	8	10	36	1.71
40709414--40709976	284	2.0	284	96	0	1029	26	23	18	31	1.98
40716601--40716660	18	3.3	18	72	9	59	28	16	11	43	1.83
40716792--40716819	6	4.7	6	100	0	56	50	14	17	17	1.79
40717837--40717861	13	1.9	13	100	0	50	12	16	0	72	1.13
40725331--40725410	38	2.1	38	97	0	151	42	8	13	35	1.76
40726893--40727094	81	2.5	81	94	0	341	27	20	9	42	1.83
40726893--40727094	27	7.5	27	90	0	305	27	20	9	42	1.83
40726893--40727132	81	3.0	80	82	4	284	30	20	8	40	1.82
40727398--40727447	26	1.9	26	84	8	66	68	2	0	30	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40732048--40732151	43	2.4	43	85	9	133	22	9	22	46	1.80
40732060--40732412	43	8.2	43	73	8	227	24	16	18	40	1.90
40732103--40732412	129	2.4	129	90	1	469	24	17	18	39	1.91
40734811--40734838	13	2.2	13	100	0	56	39	0	21	39	1.54
40735878--40735909	14	2.3	14	94	0	55	65	0	3	31	1.08
40738806--40738947	27	5.3	27	83	5	162	36	23	22	17	1.95
40739361--40739390	16	1.9	15	93	6	51	3	20	23	53	1.60
40740630--40740739	26	4.2	26	91	6	179	37	23	3	35	1.73
40744414--40744523	26	4.2	26	94	2	177	37	23	4	34	1.75
40758044--40758090	15	3.5	13	82	11	51	65	0	4	29	1.11
40758136--40758179	20	2.4	17	88	11	61	65	0	34	0	0.93
40770776--40770818	23	1.9	22	85	4	59	44	16	18	20	1.87
40774879--40775050	93	1.8	93	92	0	290	28	27	20	22	1.99
40774872--40775047	46	3.8	46	71	12	162	29	27	20	22	1.98
40774924--40775066	46	3.1	45	71	15	105	30	26	18	24	1.98
40778876--40778936	15	4.1	15	89	2	97	34	0	13	52	1.40
40778877--40778934	30	2.0	29	96	3	107	32	0	13	53	1.40
40779308--40779373	23	3.0	23	75	6	82	15	18	24	42	1.88
40780857--40781005	73	2.0	73	97	0	280	46	9	4	39	1.55
40783201--40783402	106	1.9	106	100	0	404	24	17	20	38	1.93
40789256--40789484	121	1.9	121	88	4	345	34	0	36	28	1.61
40789256--40789527	123	2.2	122	85	6	345	33	0	37	28	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40791446--40791583	57	2.4	59	80	10	153	27	14	21	36	1.92
40791504--40791698	57	3.4	57	77	6	148	31	15	21	32	1.94
40791563--40791697	56	2.4	56	81	7	157	33	17	21	28	1.95
40801397--40801651	55	4.8	53	77	9	227	35	16	25	22	1.95
40801407--40801604	108	1.8	110	86	4	294	34	15	25	23	1.95
40801848--40801878	16	1.9	16	93	0	53	41	0	22	35	1.54
40804892--40805172	48	5.9	48	80	1	287	23	30	20	25	1.99
40804893--40805166	96	2.9	97	85	2	367	23	30	20	25	1.98
40808964--40809041	40	2.0	40	84	5	104	28	20	24	26	1.99
40809029--40809199	74	2.3	74	80	1	191	30	19	21	28	1.97
40810021--40810063	15	2.9	14	82	3	50	20	0	37	41	1.53
40810028--40810093	14	4.7	13	76	14	60	19	0	31	48	1.49
40810051--40810109	28	2.1	28	84	6	75	23	0	23	52	1.47
40810469--40810508	14	2.9	14	84	0	53	15	0	37	47	1.45
40810450--40810508	21	2.8	21	78	0	64	16	1	35	45	1.58
40810621--40810655	13	2.6	14	86	9	54	22	0	28	48	1.51
40810740--40810841	7	14.6	7	68	13	50	12	0	39	48	1.42
40810764--40810820	21	2.7	21	83	8	62	8	0	42	49	1.34
40810788--40810841	14	3.9	14	87	0	72	12	0	40	46	1.42
40810780--40810826	21	2.2	21	88	0	76	10	0	42	46	1.38
40810788--40810840	21	2.5	21	81	0	61	11	0	41	47	1.39
40811809--40811854	24	1.9	24	100	0	92	17	15	8	58	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40811966--40811990	11	2.3	11	100	0	50	16	8	16	60	1.58
40812927--40812993	25	2.7	25	90	0	98	23	34	7	34	1.83
40814633--40814802	39	4.3	39	84	0	223	23	25	19	31	1.98
40814633--40814802	78	2.2	78	91	1	277	23	25	19	31	1.98
40815801--40815829	14	2.1	14	100	0	58	24	20	13	41	1.89
40817251--40817378	9	13.6	9	73	12	96	46	21	1	30	1.60
40817268--40817345	39	2.0	39	90	5	122	46	21	1	30	1.60
40817264--40817376	57	2.0	57	84	3	147	46	23	1	29	1.62
40821916--40822034	39	3.1	39	91	0	193	25	27	24	22	2.00
40827597--40827661	21	3.1	21	90	0	103	21	23	55	0	1.44
40827992--40828081	43	2.1	44	85	6	121	25	17	20	36	1.94
40841000--40841133	43	3.1	43	84	4	180	27	26	20	25	1.99
40846842--40847182	79	4.3	79	87	6	455	24	26	22	26	2.00
40846842--40847182	39	8.6	39	88	5	442	24	26	22	26	2.00
40846842--40847130	118	2.4	118	95	2	510	24	26	22	26	2.00
40848166--40848481	158	2.0	158	98	0	605	27	20	16	35	1.94
40851321--40851353	16	1.9	18	88	11	52	51	18	12	18	1.76
40853204--40853346	74	1.9	74	97	0	268	25	20	17	37	1.94
40860839--40860920	43	1.9	43	89	0	128	21	19	29	29	1.98
40864432--40864475	15	2.9	15	86	0	52	15	4	20	59	1.54
40867512--40867599	44	2.0	43	93	2	149	21	20	31	26	1.98
40867557--40867657	51	2.0	52	84	2	132	24	17	26	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40876937--40877009	27	2.7	27	87	2	94	19	24	19	36	1.94
40877147--40877282	31	4.4	31	84	3	150	19	16	14	49	1.80
40877170--40877266	6	15.8	6	74	16	74	19	17	15	47	1.83
40879360--40879412	18	2.9	18	82	0	70	45	9	7	37	1.65
40879423--40879463	18	2.3	17	84	12	55	31	17	19	31	1.95
40880275--40880315	11	3.5	11	90	6	55	26	19	2	51	1.59
40880920--40881012	16	5.7	17	69	16	63	51	2	0	46	1.13
40880966--40881010	18	2.4	18	82	14	56	57	2	0	40	1.11
40881944--40881982	19	2.1	19	85	9	53	30	12	15	41	1.85
40882117--40882819	351	2.0	351	98	0	1352	30	25	18	25	1.98

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