genome.fa.s7.2.7.7.80.10.50.1000.136.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  136  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)
46103752--46103819	20	3.4	19	73	13	64	39	1	2	55	1.24
46107905--46108103	47	4.2	48	74	15	173	35	16	21	26	1.94
46107891--46108065	94	1.9	93	83	9	232	36	16	21	25	1.94
46108952--46109059	26	4.2	26	91	0	180	33	7	23	36	1.83
46110674--46110750	27	2.9	27	84	9	104	18	24	22	35	1.96
46112149--46112191	16	2.9	15	86	10	54	65	0	25	9	1.22
46113659--46113772	48	2.4	47	82	7	133	37	13	21	28	1.90
46123054--46123095	22	1.9	22	90	0	66	21	16	14	47	1.82
46123285--46123331	21	2.3	21	79	20	55	23	4	12	59	1.51
46127828--46127866	19	2.1	19	85	0	51	71	7	5	15	1.26
46128304--46128408	56	1.9	55	84	5	140	34	20	24	20	1.96
46128329--46128418	28	3.2	27	84	4	108	31	24	24	20	1.98
46128329--46128418	27	3.2	27	81	7	101	31	24	24	20	1.98
46128524--46128588	28	2.3	28	91	0	103	30	6	27	35	1.81
46135701--46135739	19	2.1	19	85	0	51	71	7	5	15	1.26
46136178--46136292	55	2.1	56	82	8	137	34	21	23	20	1.96
46136203--46136292	27	3.2	27	85	7	119	32	23	24	20	1.98
46136398--46136462	28	2.3	28	91	0	103	30	6	27	35	1.81
46138608--46138704	49	2.0	49	97	0	185	24	28	9	37	1.86
46143634--46143677	18	2.4	18	100	0	88	29	15	20	34	1.94
46146534--46146738	40	5.2	40	86	2	272	26	26	22	24	2.00
46146550--46146750	80	2.5	80	86	3	305	26	26	22	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46153368--46153585	40	5.5	40	91	2	325	24	27	23	24	2.00
46160219--46160265	20	2.3	20	85	0	67	25	0	2	72	0.96
46163147--46163212	11	5.6	12	78	18	68	69	4	4	21	1.24
46163659--46163713	29	1.9	29	85	10	78	3	9	12	74	1.18
46172372--46172445	37	2.0	37	97	0	139	27	12	18	41	1.86
46177288--46177363	28	2.8	28	74	9	77	38	1	1	59	1.14
46177315--46177401	16	5.1	17	70	21	58	35	4	2	57	1.32
46177411--46177492	44	1.9	42	82	9	103	35	4	1	58	1.27
46177376--46177587	24	9.3	22	64	18	60	29	5	2	62	1.30
46177534--46177582	20	2.5	20	80	9	57	24	0	6	69	1.11
46188688--46188722	4	9.0	4	87	6	54	77	0	0	22	0.78
46188688--46188725	19	2.1	18	90	5	58	76	0	0	23	0.79
46191421--46191496	28	2.8	28	74	9	77	38	1	1	59	1.14
46191448--46191534	16	5.1	17	70	21	58	35	4	2	57	1.32
46191621--46191692	23	3.4	22	70	22	55	25	5	2	66	1.27
46191667--46191713	19	2.5	20	80	16	57	23	2	6	68	1.24
46206940--46207253	46	6.6	49	71	15	180	28	18	28	24	1.98
46208707--46208873	45	3.7	44	89	3	226	33	29	15	21	1.94
46212303--46212331	14	2.0	15	93	6	51	55	20	0	24	1.44
46213597--46213656	21	2.9	21	85	7	70	18	31	23	26	1.97
46217214--46217423	40	5.3	39	87	5	233	24	21	28	25	1.99
46217161--46217423	120	2.2	120	81	4	300	25	21	27	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46217214--46217458	80	3.1	80	81	3	228	25	21	28	24	1.99
46225204--46225413	40	5.3	39	87	5	233	24	21	28	25	1.99
46225151--46225413	120	2.2	120	81	4	300	25	21	27	25	1.99
46225204--46225448	80	3.1	80	81	3	228	25	21	28	24	1.99
46227144--46227404	46	5.6	46	73	13	173	27	18	30	23	1.98
46227599--46227653	26	2.1	26	96	0	101	34	5	23	36	1.78
46230739--46230763	13	1.9	13	100	0	50	40	24	4	32	1.73
46233404--46233477	38	1.9	38	97	0	139	27	17	18	36	1.94
46234468--46234690	39	5.7	40	85	8	266	25	22	27	24	2.00
46234468--46234690	79	2.8	81	84	9	282	25	22	27	24	2.00
46234468--46234723	79	3.3	79	81	10	217	26	21	27	24	1.99
46242377--46242561	79	2.3	81	83	9	229	24	22	27	25	2.00
46242378--46242561	40	4.6	39	81	11	189	25	22	27	25	2.00
46242378--46242594	79	2.7	79	80	9	194	26	22	27	24	2.00
46246182--46246223	22	1.9	22	90	0	66	23	4	26	45	1.73
46246548--46246603	14	3.9	14	76	9	51	1	23	0	75	0.90
46249032--46249074	10	3.9	10	78	21	50	25	0	23	51	1.49
46254765--46254864	42	2.3	43	79	1	112	29	17	22	32	1.96
46257777--46257921	48	3.0	48	89	0	209	27	20	22	29	1.98
46264584--46264647	31	2.1	31	96	0	119	37	21	14	26	1.92
46273302--46273356	23	2.4	23	90	0	83	32	49	0	18	1.48
46299520--46299784	146	1.8	145	90	0	422	30	14	24	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46306011--46306062	26	2.0	26	100	0	104	46	11	0	42	1.40
46308914--46309053	66	2.1	65	79	6	149	20	26	28	24	1.99
46310768--46311043	95	2.9	95	85	2	347	26	18	30	24	1.98
46310779--46311041	50	5.5	47	77	8	246	26	19	30	24	1.98
46314280--46314403	46	2.7	46	82	9	155	30	17	29	22	1.97
46314280--46314593	49	6.7	49	74	8	188	27	19	28	24	1.98
46316499--46316557	29	2.0	29	100	0	118	32	13	20	33	1.91
46341296--46341336	21	1.9	22	85	5	57	21	4	19	53	1.63
46342139--46342630	126	3.9	126	87	2	648	26	17	17	38	1.92
46342736--46343337	34	19.0	32	66	22	165	41	20	1	36	1.64
46342791--46343084	30	9.8	29	69	18	108	40	22	2	35	1.66
46342789--46343338	64	8.9	63	73	16	366	41	20	2	36	1.64
46342789--46343309	121	4.2	122	76	11	465	40	20	2	36	1.65
46343046--46343131	42	2.0	42	90	0	136	38	17	1	43	1.57
46343155--46343338	30	6.1	29	69	21	121	44	17	1	36	1.57
46343111--46343290	86	2.1	86	94	0	315	43	18	1	36	1.61
46343175--46343226	22	2.4	22	90	0	77	42	17	0	40	1.49
46346154--46346199	16	2.7	17	80	10	58	45	0	0	54	0.99
46352922--46352946	6	4.2	6	100	0	50	32	48	20	0	1.50
46353335--46353383	22	2.2	22	100	0	98	24	4	8	63	1.40
46353812--46353875	31	2.1	31	84	0	83	28	20	6	45	1.75
46355504--46355566	29	2.2	29	85	0	81	17	25	31	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46359542--46359604	31	2.0	31	100	0	126	38	15	19	26	1.92
46364640--46364718	40	2.0	40	100	0	158	22	25	10	41	1.85
46366502--46366635	9	14.7	9	72	16	80	44	0	2	52	1.13
46366497--46366632	54	2.5	55	76	8	136	44	0	2	52	1.16
46366578--46366647	20	3.7	20	80	14	76	42	0	2	54	1.15
46366587--46366642	20	2.9	20	86	7	80	46	0	1	51	1.11
46367233--46367261	6	5.0	6	91	8	51	65	0	0	34	0.93
46368297--46368322	8	3.2	8	100	0	52	15	0	0	84	0.62
46371581--46371624	18	2.4	18	96	0	79	56	9	22	11	1.62
46373955--46373988	16	2.1	16	94	0	59	20	11	38	29	1.88
46375098--46375137	18	2.2	19	90	4	64	55	5	0	40	1.22
46375365--46375407	3	14.3	3	100	0	86	67	0	0	32	0.91
46376211--46376259	18	2.7	18	83	3	62	55	0	2	42	1.11
46376680--46376713	16	2.1	16	88	0	50	52	5	11	29	1.61
46381494--46381539	17	2.6	18	89	3	67	28	21	6	43	1.77
46384562--46384684	56	2.2	56	97	1	228	42	17	6	33	1.75
46386258--46386449	76	2.5	78	87	3	264	46	13	12	27	1.78
46386258--46386465	78	2.7	75	82	5	256	45	12	13	28	1.80
46389685--46389796	27	4.2	25	80	12	107	38	22	23	16	1.93
46389685--46389796	54	2.1	54	84	3	145	38	22	23	16	1.93
46392488--46392546	10	5.9	10	88	7	84	67	1	8	22	1.26
46393600--46393624	13	1.9	13	100	0	50	48	8	0	44	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46398945--46399152	47	4.4	47	95	0	353	35	11	25	27	1.90
46401269--46401440	22	7.4	22	64	26	79	34	13	27	25	1.93
46400823--46401528	47	14.8	47	86	4	923	33	13	28	23	1.93
46401501--46401601	46	2.1	48	81	5	125	30	7	31	29	1.86
46402970--46403059	17	5.3	17	66	19	62	28	23	21	26	1.99
46402949--46403123	34	5.2	33	79	8	165	26	24	22	26	2.00
46403174--46403220	22	2.1	22	84	7	60	34	19	10	36	1.86
46403471--46403594	27	4.7	26	74	9	81	20	26	26	26	1.99
46403778--46403840	23	2.7	23	78	9	74	41	12	14	31	1.83
46410563--46410615	26	2.0	27	85	7	74	24	15	22	37	1.92

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