genome.fa.s20.2.7.7.80.10.50.1000.36.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_chr2
Parameters: 2 7 7 80 10 50 1000
Length:  61750188

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   

This is table  36  of  186  ( 22216 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)
10828764--10828788	8	3.1	8	100	0	50	40	0	0	60	0.97
10828855--10828916	27	2.3	27	77	5	63	46	4	1	46	1.33
10842436--10842501	33	2.0	33	93	0	114	25	31	4	37	1.76
10848122--10849039	46	20.0	46	98	0	1739	23	23	15	37	1.93
10851465--10851532	30	2.3	30	84	5	84	27	19	5	47	1.72
10853368--10853413	22	2.1	22	84	8	58	30	19	13	36	1.90
10853390--10853467	33	2.4	33	80	6	86	25	21	17	34	1.96
10861257--10861282	13	2.0	13	100	0	52	15	30	38	15	1.88
10865635--10865672	17	2.2	17	95	0	67	21	7	10	60	1.54
10876798--10876826	13	2.3	13	94	5	51	68	0	6	24	1.13
10888478--10888506	15	1.9	15	100	0	58	68	6	10	13	1.37
10890193--10890235	22	2.0	22	85	0	59	51	11	20	16	1.75
10895396--10895420	13	1.9	13	100	0	50	44	0	0	56	0.99
10895427--10895465	20	2.0	20	90	5	62	41	0	2	56	1.13
10895430--10895471	9	4.6	9	77	16	50	45	0	2	52	1.13
10895427--10895471	19	2.4	19	82	13	58	44	0	2	53	1.13
10900528--10900552	12	2.1	12	100	0	50	24	28	8	40	1.83
10907999--10908075	4	18.8	4	76	5	64	5	25	3	64	1.31
10914876--10914956	4	20.0	4	75	7	65	4	25	3	65	1.30
10925145--10925171	7	3.9	7	100	0	54	88	0	11	0	0.50
10925131--10925164	16	2.1	17	88	5	52	82	0	17	0	0.67
10925145--10925179	14	2.4	14	90	4	52	85	2	8	2	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10926814--10926857	20	2.2	20	87	0	61	29	2	27	40	1.68
10933976--10934025	16	3.1	17	80	8	59	42	0	0	58	0.98
10940842--10941023	26	7.2	26	86	1	237	29	21	20	28	1.98
10940842--10941023	52	3.6	52	92	2	300	29	21	20	28	1.98
10941807--10941886	27	3.0	27	78	10	78	23	23	18	33	1.97
10941944--10942396	27	16.7	27	75	8	161	33	9	18	38	1.83
10942029--10942276	54	4.6	53	75	7	196	30	8	20	40	1.82
10942029--10942210	81	2.3	80	86	3	258	31	9	18	40	1.82
10944005--10944083	7	11.7	7	72	5	56	41	39	0	18	1.51
10944005--10944084	28	3.0	27	78	8	83	41	40	0	18	1.51
10944315--10945025	141	5.1	141	87	2	943	33	23	16	26	1.96
10947732--10947773	13	3.2	13	83	12	59	21	33	30	14	1.93
10953907--10954008	28	3.6	28	80	5	116	26	18	31	23	1.98
10953907--10954033	56	2.3	56	88	0	182	27	20	29	22	1.99
10953934--10954033	28	3.6	28	79	0	119	29	21	27	23	1.99
10954111--10954205	32	3.0	32	88	0	136	34	10	26	28	1.89
10960129--10960230	28	3.6	28	81	5	116	27	17	31	23	1.97
10960129--10960290	56	2.9	56	83	5	186	29	17	28	24	1.97
10960156--10960255	28	3.6	28	80	0	119	30	20	27	23	1.98
10960333--10960423	32	2.8	32	88	0	119	35	8	25	30	1.86
10964164--10964479	156	2.0	156	98	0	614	33	14	20	31	1.92
10970676--10971470	6	132.5	6	100	0	1590	33	0	16	49	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10974736--10974857	22	5.3	22	62	21	61	25	29	11	33	1.91
10974708--10975240	47	11.6	47	84	10	681	27	29	8	33	1.87
10976698--10976817	56	2.1	56	96	0	222	22	23	8	45	1.79
10983101--10983160	14	4.1	14	74	21	52	51	5	1	41	1.33
10984011--10984053	18	2.4	18	80	7	52	41	6	0	51	1.29
10984455--10984492	13	2.9	13	85	14	60	31	5	23	39	1.77
10986421--10986475	23	2.4	23	79	8	60	60	3	3	32	1.32
10986555--10986605	22	2.3	21	77	12	57	58	5	3	31	1.40
10986300--10986633	134	2.5	133	93	2	571	56	5	8	28	1.53
10986531--10986730	97	2.1	97	96	1	366	57	5	10	27	1.52
10986300--10986677	134	2.8	131	79	9	431	57	5	8	27	1.51
10986628--10987000	135	2.8	136	94	3	664	57	5	9	27	1.53
10986898--10987096	97	2.1	96	96	0	362	57	4	10	27	1.50
10986300--10987197	367	2.5	365	95	1	1649	57	5	9	28	1.53
10986764--10987195	229	1.9	233	95	1	791	57	5	9	28	1.51
10989223--10989261	12	3.2	12	92	0	60	25	43	17	12	1.85
10992984--10993220	122	1.9	123	93	4	415	24	19	2	53	1.59
10993387--10993436	15	3.5	15	71	23	54	22	10	6	62	1.48
10993389--10993441	26	2.0	27	96	3	99	24	11	7	56	1.60
10995281--10996629	228	5.9	225	80	7	1068	30	21	23	24	1.99
10995957--10995988	16	2.0	16	100	0	64	25	6	37	31	1.81
10995737--10996443	244	3.0	243	81	8	835	29	20	24	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10995973--10996629	227	2.9	226	82	6	772	30	19	24	24	1.98
10997669--10997711	19	2.4	18	84	7	52	0	25	2	72	0.97
11000732--11000836	26	4.0	26	92	0	183	33	7	24	34	1.84
11002433--11002573	27	5.2	27	80	11	164	20	24	21	33	1.97
11002430--11002573	54	2.7	54	90	2	218	20	24	22	33	1.97
11002433--11002591	81	2.0	80	81	8	189	21	24	20	33	1.97
11007297--11007357	31	2.0	30	90	0	86	44	6	27	19	1.75
11008858--11008965	26	4.2	26	90	0	171	33	8	23	35	1.85
11010547--11010687	27	5.2	26	74	11	115	18	21	22	37	1.94
11010547--11010687	54	2.6	54	82	5	178	18	21	22	37	1.94
11010547--11010705	27	5.9	26	79	10	97	19	22	21	37	1.95
11015881--11016202	3	106.3	3	66	17	71	59	3	8	28	1.43
11016137--11016175	20	2.0	20	84	0	51	69	2	0	28	1.02
11016126--11016178	23	2.3	22	83	6	61	69	3	0	26	1.05
11016143--11016201	23	2.6	23	83	0	64	61	1	6	30	1.32
11016282--11016338	15	4.0	15	76	17	50	59	0	8	31	1.28
11016258--11016338	27	3.0	27	78	10	94	60	2	8	28	1.39
11016604--11016656	24	2.1	26	86	6	74	13	20	9	56	1.64
11016604--11016655	25	2.1	24	85	3	68	13	21	9	55	1.66
11016756--11016805	24	2.1	24	100	0	100	24	4	48	24	1.68
11017092--11017439	177	2.0	176	87	0	507	26	23	21	28	1.99
11017432--11017617	88	2.1	88	89	0	282	26	23	21	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11017300--11017970	220	3.1	219	85	3	884	25	23	21	29	1.99
11017456--11017603	44	3.3	45	66	9	124	23	27	18	31	1.97
11017507--11017750	132	1.8	132	90	0	389	25	22	21	30	1.99
11017656--11017794	44	3.2	44	74	11	167	25	21	23	30	1.99
11017628--11017838	88	2.4	88	95	0	298	22	23	23	30	1.99
11017676--11019906	44	50.7	44	64	13	333	26	24	19	29	1.98
11017725--11019334	264	6.1	263	89	0	2299	26	24	19	30	1.98
11017434--11018102	220	3.0	219	82	5	575	25	24	20	29	1.99
11017725--11019335	396	4.1	397	90	1	2369	26	24	19	29	1.98
11019001--11019642	308	2.1	308	92	0	1061	26	24	20	29	1.99
11017725--11019334	132	12.2	130	86	4	1659	26	24	19	30	1.98
11019309--11020260	132	7.2	132	89	1	1397	26	24	19	29	1.99
11017920--11019510	396	4.0	393	83	6	1283	26	24	19	29	1.98
11018870--11019774	440	2.1	440	94	0	1587	26	24	19	28	1.99
11019134--11019510	176	2.1	175	95	0	556	27	24	19	28	1.99
11018737--11019906	572	2.0	572	92	0	1932	26	24	19	29	1.99
11019309--11020260	264	3.6	264	93	0	1573	26	24	19	29	1.99
11024714--11024760	19	2.5	20	86	6	62	48	12	17	21	1.79
11026639--11026970	3	110.7	3	68	16	129	62	2	6	28	1.33
11026829--11026960	35	3.8	35	74	9	110	62	2	5	29	1.29
11026823--11026912	38	2.4	38	79	3	101	66	3	2	27	1.19
11026876--11026937	23	2.7	23	85	5	72	61	1	4	32	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11027016--11027071	21	2.6	22	77	8	62	64	0	8	26	1.23
11027046--11027080	18	1.9	18	88	0	52	74	0	2	22	0.95
11027361--11027413	25	2.1	25	82	10	63	13	18	9	58	1.61
11029010--11030592	228	6.9	228	80	4	1302	29	22	24	23	1.99
11029009--11030592	684	2.3	679	79	5	1587	29	22	24	23	1.99
11029009--11030596	456	3.5	453	80	3	1519	29	22	24	23	1.99
11030704--11030886	87	2.1	87	95	1	330	31	16	16	34	1.92
11032009--11032042	16	2.1	16	88	0	50	50	14	17	17	1.79
11034842--11034882	21	2.0	21	90	0	64	29	21	29	19	1.98
11036788--11036821	16	2.1	16	88	0	50	50	14	17	17	1.79

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