genome.fa.s12.2.7.7.80.10.50.1000.33.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_chr13
Parameters: 2 7 7 80 10 50 1000
Length:  91551117

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   

This is table  33  of  276  ( 33102 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)
10311003--10311103	27	3.8	27	78	8	100	40	17	12	28	1.87
10311097--10311201	27	3.9	27	87	0	147	34	15	22	27	1.94
10312600--10312678	37	2.1	37	88	0	113	25	30	18	25	1.98
10312797--10313187	47	8.2	47	89	2	566	29	30	8	31	1.87
10312797--10313187	96	4.1	96	90	2	565	29	30	8	31	1.87
10315799--10315863	22	3.0	22	80	8	78	20	23	23	33	1.97
10316022--10316129	27	4.0	26	80	5	108	20	22	21	36	1.96
10316247--10316338	25	3.7	25	91	0	139	19	23	11	44	1.84
10318295--10318417	53	2.3	53	78	9	135	40	19	11	28	1.86
10318295--10318417	27	4.7	26	71	12	90	40	19	11	28	1.86
10318403--10318516	27	4.2	27	79	8	133	34	14	21	30	1.92
10318411--10318513	54	1.9	53	88	2	152	33	13	22	30	1.92
10318921--10318969	22	2.2	22	85	7	64	28	26	18	26	1.98
10319141--10319227	27	3.3	26	75	4	75	21	20	18	39	1.93
10319344--10319446	6	16.7	6	69	16	68	18	21	14	45	1.85
10319344--10319436	25	3.7	25	88	0	132	18	22	15	44	1.87
10324103--10324144	17	2.3	18	84	15	52	21	19	40	19	1.92
10324393--10324444	27	1.9	27	84	7	70	26	21	21	30	1.98
10324739--10324810	32	2.2	32	85	4	92	25	20	27	26	1.99
10330733--10330810	38	2.1	38	95	0	138	33	23	14	29	1.93
10333402--10333617	109	2.0	109	88	3	328	25	13	29	31	1.94
10333878--10334100	27	8.3	27	86	0	257	37	18	17	26	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10334752--10334831	27	3.0	27	85	5	99	20	26	21	32	1.97
10335200--10335356	81	1.9	81	96	2	289	26	5	12	56	1.56
10340316--10340400	27	3.2	27	94	1	145	34	20	22	23	1.97
10340855--10341025	87	1.9	88	86	6	240	36	19	16	26	1.94
10342153--10342375	39	5.7	40	84	8	257	25	22	27	24	2.00
10342153--10342375	79	2.8	80	82	11	271	25	22	27	24	2.00
10342205--10342398	79	2.5	78	84	9	209	26	22	27	24	2.00
10343296--10343400	53	2.0	52	94	1	183	39	16	14	30	1.88
10350197--10351004	39	20.6	39	96	1	1421	25	22	27	23	2.00
10350965--10351243	139	2.0	139	97	0	522	31	20	20	27	1.97
10352508--10352588	27	3.0	27	81	0	81	37	20	19	22	1.95
10357776--10357800	12	2.1	12	100	0	50	32	0	16	52	1.44
10369149--10369186	14	2.7	14	95	0	67	21	13	13	52	1.73
10371403--10371509	25	4.3	25	71	4	81	26	27	17	28	1.98
10371657--10371704	25	1.9	25	87	8	71	47	8	12	31	1.71
10379959--10380054	48	2.0	48	97	0	183	27	19	18	34	1.96
10384846--10385029	55	3.4	55	76	9	166	19	24	18	37	1.94
10387753--10387797	22	2.0	22	83	8	56	42	4	0	53	1.21
10393417--10393577	43	3.7	43	79	9	175	27	15	25	31	1.96
10397768--10397824	25	2.3	23	82	11	69	33	5	1	59	1.30
10401477--10401541	34	1.9	34	87	3	96	29	24	26	20	1.99
10401925--10401970	23	2.0	23	95	0	83	28	21	15	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10404383--10404414	16	2.0	16	93	0	55	50	34	6	9	1.60
10408174--10408245	25	3.0	24	78	13	67	27	22	20	29	1.99
10408293--10408340	21	2.3	20	85	3	69	35	20	8	35	1.83
10421234--10421407	87	2.0	87	98	0	339	32	10	22	34	1.88
10422310--10422637	43	7.5	43	87	2	390	14	22	32	30	1.94
10427945--10428298	43	8.2	43	91	0	573	11	24	33	31	1.90
10428276--10428438	45	3.7	45	76	7	129	24	23	27	23	2.00
10429224--10429254	13	2.4	13	94	0	53	25	12	54	6	1.62
10438579--10438724	75	1.9	75	87	5	215	54	13	4	28	1.59
10441101--10441191	46	2.0	45	86	0	119	26	14	26	31	1.94
10444660--10445521	49	17.6	49	93	3	1398	32	8	29	30	1.86
10445640--10445718	37	2.1	37	90	0	122	24	18	31	25	1.98
10447584--10447729	43	3.4	43	97	1	267	20	17	35	26	1.95
10447711--10447784	29	2.6	29	89	4	105	25	16	32	25	1.96
10448078--10448252	80	2.2	80	85	8	248	28	20	27	23	1.99
10448078--10448250	40	4.3	39	85	10	210	28	20	27	23	1.99
10448080--10448310	80	2.9	80	80	7	202	27	20	27	23	1.99
10448077--10448356	40	7.0	40	78	8	144	26	20	28	24	1.99
10456026--10456075	25	2.0	25	81	14	59	48	22	0	30	1.51
10469918--10470900	494	2.0	495	96	0	1806	39	24	13	22	1.91
10480230--10480263	15	2.3	15	90	5	52	38	0	26	35	1.57
10480769--10480813	9	4.6	10	79	20	51	2	15	2	80	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10480769--10480801	15	2.1	16	88	5	50	3	15	0	81	0.80
10494588--10494621	17	1.9	18	88	5	52	11	38	32	17	1.86
10495318--10495358	18	2.3	19	83	12	59	36	46	0	17	1.48
10495324--10495357	17	1.9	18	94	5	61	38	44	0	17	1.49
10505276--10505322	16	2.9	16	79	17	53	29	2	0	68	1.02
10505656--10505694	15	2.7	14	82	17	53	69	2	0	28	1.02
10516055--10516090	16	2.2	16	100	0	72	38	25	30	5	1.78
10518052--10518145	46	2.0	46	93	0	161	27	11	26	34	1.91
10523908--10523980	9	8.1	9	84	0	101	46	20	8	24	1.78
10524004--10524050	6	7.5	6	81	9	58	17	0	6	76	0.98
10541218--10541310	44	2.1	45	93	2	161	31	27	15	25	1.95
10546992--10547048	30	1.9	30	96	0	105	21	31	29	17	1.96
10556780--10556839	25	2.4	25	81	8	79	36	0	0	63	0.95
10567964--10568141	27	6.6	27	83	3	205	26	15	28	29	1.96
10567965--10568120	82	1.9	81	88	3	233	26	15	28	29	1.96
10567961--10568141	82	2.2	81	83	2	229	27	15	27	29	1.96
10568046--10568152	27	3.9	27	85	1	70	26	14	28	30	1.95
10578061--10578098	14	2.9	13	81	11	51	57	10	13	18	1.63
10580989--10581388	200	2.0	200	96	0	728	22	24	26	26	2.00
10592754--10592788	3	11.7	3	100	0	70	68	0	0	31	0.90
10600107--10600137	16	1.9	16	100	0	62	38	6	19	35	1.77
10600111--10600146	16	2.2	16	90	0	54	44	5	13	36	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10600310--10600387	26	2.9	27	75	11	81	48	3	2	44	1.34
10600654--10600685	12	2.7	12	95	0	55	28	3	0	68	1.04
10601133--10601180	25	2.0	24	95	4	87	25	33	12	29	1.92
10601133--10601191	25	2.4	25	88	5	75	30	28	11	28	1.92
10601919--10602085	84	2.0	84	96	0	307	45	13	17	22	1.84
10605818--10605912	50	2.0	49	83	8	124	37	4	5	52	1.43
10606330--10606369	13	3.1	13	81	0	53	62	0	2	35	1.09
10607571--10607634	18	3.6	18	78	0	74	39	14	14	32	1.85
10607525--10607612	46	1.9	46	81	4	106	31	15	15	36	1.90
10607570--10607650	36	2.2	36	82	0	99	38	13	13	34	1.84
10608581--10608605	8	3.1	8	100	0	50	40	0	12	48	1.40
10611746--10611808	31	2.0	31	96	0	117	34	14	15	34	1.88
10614753--10614777	9	2.8	9	100	0	50	40	0	0	60	0.97
10621585--10621649	31	2.1	31	100	0	130	30	12	24	32	1.92
10621854--10621934	37	2.3	34	79	14	83	65	3	6	24	1.32
10621914--10621948	18	2.0	18	94	5	63	68	0	14	17	1.21
10623631--10623838	51	4.2	50	73	11	160	29	17	15	37	1.91
10623746--10623855	51	2.2	51	83	3	132	31	11	16	40	1.85
10623624--10623944	146	2.2	146	79	7	347	30	18	15	35	1.93
10644596--10644697	50	2.0	50	90	0	159	19	16	30	33	1.94
10648834--10648901	28	2.4	28	83	9	77	58	4	4	32	1.37
10648950--10648987	18	2.2	18	90	4	60	73	0	13	13	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10651960--10652026	32	2.1	31	88	2	98	49	16	13	20	1.79
10660607--10660754	76	1.9	76	98	0	287	37	12	10	39	1.77
10664717--10664749	6	5.5	6	100	0	66	18	48	15	18	1.81
10665456--10665510	28	2.0	28	82	7	67	50	14	3	30	1.60
10666626--10666650	11	2.3	11	100	0	50	24	24	0	52	1.48
10671480--10671752	69	4.0	68	74	3	208	35	26	19	18	1.95
10671830--10671854	12	2.1	12	100	0	50	32	24	0	44	1.54
10671848--10672098	57	4.4	57	80	4	218	40	15	7	36	1.76
10675514--10675630	23	5.2	23	75	10	107	32	17	13	36	1.89
10675587--10675641	23	2.4	23	84	6	67	30	16	14	38	1.89

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