genome.fa.s7.2.7.7.80.10.50.1000.187.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_chr3
Parameters: 2 7 7 80 10 50 1000
Length:  100348136

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   

This is table  187  of  290  ( 34714 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)
64132083--64132287	40	5.1	41	83	8	228	25	27	21	24	1.99
64141806--64141927	43	2.9	42	83	2	163	29	15	25	29	1.96
64145020--64145851	64	13.0	64	100	0	1664	31	17	14	37	1.89
64145959--64146085	45	2.9	45	83	8	138	23	27	23	25	2.00
64146415--64146526	43	2.6	43	95	0	197	31	33	25	10	1.90
64146524--64146598	38	2.0	38	86	0	105	34	26	17	21	1.95
64147997--64148114	59	2.0	59	98	0	227	34	14	11	38	1.83
64150868--64150979	43	2.6	43	94	0	197	30	33	25	11	1.91
64150977--64151051	38	2.0	38	89	0	114	30	25	20	24	1.98
64155380--64155561	37	4.9	37	96	0	319	25	31	18	24	1.98
64169726--64169774	24	1.9	26	88	12	75	48	10	4	36	1.56
64176722--64176898	40	4.4	40	85	4	234	25	27	22	23	2.00
64177439--64177463	2	12.5	2	100	0	50	52	0	0	48	1.00
64184550--64184714	40	4.2	40	85	5	219	27	27	21	23	1.99
64186650--64186680	16	1.9	16	93	0	53	22	22	6	48	1.73
64194058--64194168	29	3.9	29	82	6	120	29	27	14	27	1.95
64194048--64194143	29	3.3	29	82	7	115	29	27	15	28	1.96
64194045--64194155	58	1.9	57	83	1	141	28	27	16	27	1.97
64195630--64195668	16	2.4	17	91	4	62	7	2	38	51	1.44
64196084--64196123	22	2.0	21	85	14	57	27	7	27	37	1.84
64196295--64196544	41	6.1	41	77	5	238	22	26	14	36	1.93
64196393--64196507	21	5.6	19	71	12	77	22	30	12	34	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
64196297--64196537	82	3.0	82	84	5	292	22	26	14	36	1.93
64196378--64196528	20	7.4	20	69	12	101	21	28	14	35	1.93
64203809--64203978	57	3.0	57	92	0	277	30	20	14	35	1.91
64204204--64204236	11	2.8	12	81	9	50	33	0	0	66	0.92
64210117--64210159	18	2.4	18	84	7	61	62	9	4	23	1.44
64214862--64214915	22	2.5	21	81	3	63	14	33	35	16	1.90
64219068--64219113	19	2.4	19	85	3	56	43	13	2	41	1.55
64230745--64230874	49	2.6	49	86	3	172	20	27	22	29	1.99
64238584--64238636	26	2.0	26	82	7	63	24	15	20	39	1.91
64240124--64240231	26	4.2	26	91	2	173	36	23	7	33	1.83
64241860--64241985	40	3.2	39	77	11	130	23	19	30	26	1.98
64241862--64242043	80	2.3	78	82	4	220	23	20	30	25	1.99
64241874--64242043	40	4.3	40	83	1	198	22	20	30	25	1.98
64247538--64247590	26	2.0	27	85	7	74	24	13	22	39	1.90
64249081--64249185	26	4.0	26	92	0	174	36	22	7	33	1.83
64249081--64249185	52	2.0	52	98	0	201	36	22	7	33	1.83
64250965--64251047	42	2.0	42	85	2	112	24	13	26	36	1.92
64256572--64256835	128	2.1	128	97	0	492	48	8	10	31	1.68
64257278--64257311	17	1.9	18	94	5	61	35	17	2	44	1.64
64264444--64264494	21	2.4	21	80	3	57	17	37	29	15	1.91
64265638--64265787	57	2.6	57	76	7	151	31	20	18	30	1.96
64269690--64269807	42	2.8	42	77	7	123	28	14	25	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
64269883--64269929	20	2.3	20	88	0	76	31	2	29	36	1.70
64272668--64272744	39	2.0	39	94	0	136	38	5	31	24	1.77
64274653--64274702	23	2.2	23	88	0	73	50	2	24	24	1.60
64275970--64276028	27	2.2	27	90	0	91	33	10	18	37	1.85
64279537--64279717	40	4.6	39	81	11	199	25	26	22	25	2.00
64279537--64279717	79	2.3	81	82	9	212	25	26	22	25	2.00
64287320--64287440	60	2.0	60	87	3	172	19	21	16	42	1.88
64291784--64291862	37	2.1	37	90	0	122	25	31	18	24	1.98
64291983--64292156	47	3.7	47	89	1	215	27	31	9	32	1.88
64291981--64292156	94	1.9	94	84	2	237	27	31	9	32	1.88
64298036--64298077	22	1.9	22	85	9	59	42	47	0	9	1.36
64299661--64299878	40	5.5	40	87	4	275	24	23	27	24	2.00
64306967--64307180	40	5.4	40	86	5	249	24	22	28	25	2.00
64308554--64308660	48	2.2	48	91	0	169	24	14	21	40	1.90
64310028--64310119	44	2.1	44	95	4	168	41	18	4	35	1.70
64317454--64317496	22	2.0	21	86	13	61	41	2	0	55	1.12
64318068--64318118	26	2.0	26	96	0	93	45	1	9	43	1.48
64318564--64318612	15	3.4	14	81	15	55	24	2	2	71	1.07
64318546--64318598	22	2.4	22	75	6	63	26	3	0	69	1.05
64318546--64318612	14	4.6	14	75	14	55	25	2	1	70	1.10
64325034--64325065	15	2.0	17	88	11	50	25	0	31	43	1.55
64331209--64331386	27	6.6	27	84	3	205	29	28	15	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
64331230--64331385	82	1.9	81	88	3	233	29	28	15	26	1.96
64339271--64339448	27	6.6	27	84	3	205	29	28	15	26	1.96
64339292--64339447	82	1.9	81	88	3	233	29	28	15	26	1.96
64339930--64339956	12	2.2	12	100	0	54	40	0	7	51	1.30
64342622--64342646	9	2.8	9	100	0	50	24	24	40	12	1.88
64343606--64343954	45	7.7	45	71	16	202	28	23	18	30	1.97
64343551--64343955	137	3.0	137	91	0	623	28	22	17	30	1.97
64355151--64355613	256	1.8	256	86	1	678	38	19	13	28	1.89
64356689--64356729	20	2.0	21	85	4	57	60	7	19	12	1.54
64377390--64377514	29	4.3	29	83	1	162	31	29	14	24	1.95
64377725--64377775	16	3.2	16	82	0	66	7	21	21	49	1.75
64379120--64379354	49	4.7	50	79	6	262	26	17	25	30	1.98
64379125--64379354	100	2.3	98	83	5	275	26	18	25	30	1.98
64382471--64382525	28	2.0	28	100	0	110	34	14	14	36	1.87
64383098--64383157	29	2.1	29	96	0	111	21	26	11	40	1.88
64384576--64384641	34	2.0	32	82	8	80	36	0	4	59	1.18
64388780--64388886	39	2.8	39	80	4	112	36	20	13	29	1.90
64388825--64388911	39	2.2	39	83	0	111	35	21	12	29	1.91
64391336--64391419	42	2.0	42	92	0	141	15	28	21	34	1.94
64394074--64394142	34	2.0	34	100	0	138	37	31	8	21	1.84
64407260--64407383	46	2.7	46	83	12	148	27	31	21	19	1.97
64411618--64411707	47	1.9	47	90	0	144	30	13	13	43	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
64413674--64413724	20	2.5	20	96	0	93	19	33	31	15	1.93
64419604--64419735	40	3.3	40	91	3	187	27	28	20	24	1.99
64419632--64419781	79	1.9	80	83	6	198	26	26	20	26	1.99
64427698--64427776	37	2.1	37	88	0	113	26	31	17	24	1.97
64427998--64428293	49	6.0	49	100	0	592	30	28	8	32	1.86
64432794--64433012	45	5.0	45	89	3	322	26	27	22	23	2.00
64432794--64433012	89	2.5	90	87	5	322	26	27	22	23	2.00
64435239--64435288	24	2.0	25	84	3	66	56	2	34	8	1.40
64456852--64456995	40	3.6	39	87	10	202	23	21	28	26	1.99
64457254--64457297	22	2.0	21	83	16	54	31	18	13	36	1.90
64459297--64459339	22	1.9	23	81	13	54	46	9	30	13	1.75
64462992--64463145	28	5.5	27	73	7	128	31	36	16	15	1.91
64462965--64463147	57	3.2	56	91	2	287	31	37	15	15	1.90
64468278--64468537	130	2.0	130	90	0	403	46	18	18	16	1.85
64468296--64468572	130	2.1	130	85	1	358	48	17	19	14	1.81
64471725--64471777	13	4.2	13	77	20	58	33	1	3	60	1.26
64471990--64472042	13	4.2	13	77	20	58	60	3	1	33	1.26
64471985--64472030	13	3.2	14	84	12	58	58	4	2	34	1.30
64481473--64481643	93	1.8	93	96	0	315	28	29	21	21	1.98
64481468--64481640	46	3.7	46	80	13	219	28	28	21	21	1.98
64482063--64482122	30	2.0	30	90	0	93	30	25	8	36	1.85
64489064--64489234	93	1.8	93	96	0	315	28	29	21	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
64489059--64489231	46	3.7	46	80	13	219	28	28	21	21	1.98
64489654--64489713	30	2.0	30	90	0	93	30	25	8	36	1.85
64494881--64495025	71	2.0	71	100	0	290	22	16	15	45	1.85
64499111--64499263	43	3.6	43	89	1	229	11	23	32	32	1.91
64504411--64504526	40	2.9	40	88	5	180	22	29	23	25	1.99
64506112--64506250	68	2.0	68	98	0	269	43	18	3	33	1.68
64508077--64508124	25	1.9	25	95	0	87	22	16	16	43	1.87
64513171--64513205	17	2.1	17	89	5	54	51	2	0	45	1.16
64516200--64516281	41	2.0	41	95	0	146	29	12	34	24	1.91
64528902--64529011	26	4.2	26	90	0	148	33	6	23	36	1.80

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