genome.fa.s4.2.7.7.80.10.50.1000.115.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_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

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   

This is table  115  of  235  ( 28198 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)
39386702--39386787	18	4.6	19	76	11	79	62	1	2	33	1.15
39386723--39386803	40	2.2	35	86	10	108	59	1	2	37	1.19
39386743--39386803	10	5.6	10	75	17	59	57	0	1	40	1.08
39386742--39386852	45	2.4	47	79	8	113	56	1	4	36	1.30
39387036--39387122	18	4.7	19	69	11	72	40	1	0	58	1.05
39387036--39387091	19	3.0	20	82	10	64	42	1	0	55	1.10
39406836--39406868	12	3.0	11	87	12	50	66	0	0	33	0.92
39406869--39406896	6	4.7	6	100	0	56	35	0	28	35	1.58
39407993--39408052	21	2.7	22	79	7	68	36	3	5	55	1.38
39408439--39408496	31	1.9	30	89	3	89	44	8	12	34	1.72
39409362--39409402	17	2.4	17	95	0	73	51	4	19	24	1.66
39411405--39411507	42	2.4	42	83	6	127	31	25	17	26	1.97
39411404--39411545	44	3.3	43	78	11	130	29	26	19	24	1.98
39421124--39421192	30	2.3	31	85	7	88	47	20	10	21	1.79
39421223--39421267	21	2.2	20	92	4	72	26	15	26	31	1.96
39422764--39424131	684	2.0	684	100	0	2736	34	16	11	36	1.86
39426274--39426342	31	2.2	32	82	10	90	24	10	17	47	1.78
39430936--39430971	14	2.6	14	95	0	63	33	13	13	38	1.85
39437938--39437985	23	2.0	24	84	11	64	56	2	10	31	1.45
39438111--39438206	18	5.3	18	82	5	88	59	2	8	30	1.38
39438109--39438159	3	17.0	3	100	0	102	66	0	0	33	0.92
39444250--39444405	42	3.7	42	77	16	169	30	26	18	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39454623--39454661	20	2.0	20	85	10	53	46	0	7	46	1.31
39459330--39459362	14	2.2	16	89	10	52	18	3	0	78	0.87
39465333--39465380	25	1.9	25	83	8	62	56	4	0	39	1.19
39465767--39465810	18	2.4	18	92	0	70	43	9	27	20	1.82
39467362--39467413	25	2.1	24	82	10	61	69	1	0	28	0.99
39467418--39467446	7	4.3	7	95	4	51	55	0	0	44	0.99
39467604--39467647	21	2.1	21	82	0	52	38	2	25	34	1.68
39469404--39469441	13	2.8	13	88	4	58	42	0	13	44	1.43
39469455--39469506	10	5.1	10	83	2	50	25	5	1	67	1.23
39469455--39469504	20	2.5	20	80	6	57	24	6	2	68	1.23
39471366--39471431	20	3.3	20	72	20	66	63	1	1	33	1.13
39471906--39471945	15	2.7	15	88	0	53	62	0	2	35	1.09
39471933--39471963	6	5.2	6	100	0	62	80	0	0	19	0.71
39475415--39475468	22	2.4	23	84	9	67	37	3	0	59	1.15
39480605--39480650	22	2.1	22	83	0	56	19	8	21	50	1.75
39481209--39481393	94	2.0	94	89	0	280	34	14	12	37	1.85
39485507--39485546	20	2.0	20	85	5	53	5	25	17	52	1.64
39494395--39494446	19	2.7	19	80	14	61	34	1	1	61	1.18
39496412--39496472	32	2.0	30	84	12	79	65	1	3	29	1.18
39496432--39496513	39	2.1	39	95	0	146	65	2	6	25	1.28
39500111--39500171	11	5.5	11	72	14	54	49	1	1	47	1.21
39500113--39500156	17	2.6	17	82	7	54	52	2	2	43	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39500116--39500160	24	2.0	22	86	8	63	51	2	2	44	1.26
39500194--39500242	20	2.7	18	77	22	57	51	4	2	42	1.32
39501748--39501793	21	2.2	21	88	7	67	19	4	6	69	1.28
39502559--39502595	20	1.9	20	88	5	58	18	27	29	24	1.98
39506071--39506119	20	2.5	20	86	0	62	22	22	0	55	1.44
39506776--39506986	40	5.3	40	83	2	244	47	26	12	13	1.78
39510769--39510807	18	2.2	18	100	0	78	30	7	20	41	1.80
39513534--39513585	18	2.9	18	76	0	59	26	7	21	44	1.79
39513789--39513837	22	2.3	21	78	3	53	32	6	18	42	1.75
39515731--39515927	92	2.1	92	92	0	322	32	24	12	29	1.92
39517603--39517641	17	2.3	17	86	8	53	33	7	15	43	1.75
39526010--39526065	12	5.0	11	78	10	60	64	3	0	32	1.11
39526010--39526065	21	2.8	20	80	20	71	64	3	0	32	1.11
39526015--39526080	12	5.2	13	72	22	52	68	3	0	28	1.05
39526010--39526076	33	2.1	32	91	2	107	65	4	0	29	1.12
39526023--39526081	18	3.1	18	81	13	57	67	3	0	28	1.06
39526109--39526159	25	2.0	26	88	7	77	62	3	0	33	1.13
39526102--39526161	29	2.0	30	81	9	70	60	3	1	35	1.23
39526954--39527009	12	5.0	11	78	10	60	64	3	0	32	1.11
39526954--39527009	21	2.8	20	80	20	71	64	3	0	32	1.11
39526959--39527024	12	5.2	13	72	22	52	68	3	0	28	1.05
39526954--39527020	33	2.1	32	91	2	107	65	4	0	29	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39526967--39527025	18	3.1	18	81	13	57	67	3	0	28	1.06
39527053--39527103	25	2.0	26	88	7	77	62	3	0	33	1.13
39527046--39527105	29	2.0	30	81	9	70	60	3	1	35	1.23
39528532--39528949	90	4.7	90	86	3	578	26	28	14	30	1.95
39528534--39528949	45	9.4	45	67	16	224	26	28	14	30	1.95
39528532--39528949	174	2.4	177	87	2	590	26	28	14	30	1.95
39540301--39540512	118	1.8	112	80	7	246	52	11	5	30	1.60
39540953--39541008	12	5.0	11	78	10	60	64	3	0	32	1.11
39540953--39541008	21	2.8	20	80	20	71	64	3	0	32	1.11
39540958--39541023	12	5.2	13	72	22	52	68	3	0	28	1.05
39540947--39541019	33	2.2	32	90	4	110	65	4	0	30	1.11
39540966--39541024	18	3.1	18	81	13	57	67	3	0	28	1.06
39541052--39541102	27	2.0	27	88	7	79	64	1	0	33	1.05
39541062--39541105	9	4.9	9	80	0	52	63	2	0	34	1.07
39541045--39541104	29	2.0	30	84	9	79	61	1	1	35	1.16
39544876--39545087	118	1.8	112	80	7	246	52	11	5	30	1.60
39545528--39545583	12	5.0	11	78	10	60	64	3	0	32	1.11
39545528--39545583	21	2.8	20	80	20	71	64	3	0	32	1.11
39545533--39545598	12	5.2	13	72	22	52	68	3	0	28	1.05
39545522--39545594	33	2.2	32	90	4	110	65	4	0	30	1.11
39545541--39545599	18	3.1	18	81	13	57	67	3	0	28	1.06
39545627--39545677	27	2.0	27	88	7	79	64	1	0	33	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39545637--39545680	9	4.9	9	80	0	52	63	2	0	34	1.07
39545620--39545679	29	2.0	30	84	9	79	61	1	1	35	1.16
39547105--39547522	90	4.7	90	82	4	535	28	26	13	31	1.94
39547105--39547522	174	2.4	178	84	3	531	28	26	13	31	1.94
39551095--39551193	12	8.4	11	77	11	83	75	2	4	18	1.05
39551105--39551185	17	4.8	16	77	11	56	75	2	4	17	1.09
39551115--39551194	6	13.5	6	77	7	83	77	2	3	16	1.02
39551120--39551185	17	3.8	17	80	9	71	78	3	3	15	0.99
39551120--39551193	23	3.2	22	84	7	85	78	2	2	16	0.98
39551137--39551197	28	2.3	26	88	11	88	78	1	1	18	0.91
39552830--39552925	26	3.8	26	86	2	117	27	21	25	26	2.00
39553060--39553108	25	2.0	25	87	0	71	28	16	22	32	1.95
39556116--39556158	22	1.9	23	85	4	61	9	34	16	39	1.80
39566340--39566382	22	1.9	23	85	4	61	9	34	16	39	1.80
39567455--39567777	162	2.0	162	95	0	583	22	17	23	36	1.94
39573370--39573482	25	4.4	25	76	6	84	23	26	18	30	1.98
39573625--39573672	26	1.9	26	83	8	64	47	2	10	39	1.49
39577041--39577110	35	2.0	35	97	0	131	34	11	18	35	1.87
39586826--39586933	26	4.2	26	90	4	173	36	23	7	33	1.83
39587537--39587618	43	1.9	43	100	0	164	32	25	18	23	1.97
39589964--39590099	67	2.0	67	94	0	236	31	21	9	37	1.86
39590725--39590793	36	1.9	36	84	0	93	27	24	23	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39596556--39596607	17	2.7	21	77	17	58	3	21	1	73	1.10
39596559--39596587	11	2.7	11	94	5	51	0	17	0	82	0.66
39597157--39597331	63	2.8	63	79	5	183	25	20	28	25	1.99
39598034--39598080	22	2.2	21	88	3	67	17	10	17	55	1.69
39601454--39601496	2	21.5	2	90	0	68	2	48	2	46	1.27
39601894--39601931	17	2.2	18	86	13	53	60	15	23	0	1.35
39602356--39602390	3	11.7	3	100	0	70	34	0	0	65	0.93
39614925--39614977	19	2.8	19	79	0	61	39	22	16	20	1.92
39614948--39615106	77	2.1	77	82	0	192	30	22	24	22	1.99
39619618--39620769	573	2.0	573	98	0	2250	34	20	9	36	1.85

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