genome.fa.s4.2.7.7.80.10.50.1000.144.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  144  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)
48302956--48303068	19	5.8	19	85	4	154	33	15	11	38	1.84
48302956--48303067	40	2.8	40	91	2	174	33	15	11	39	1.83
48303096--48303238	71	2.0	71	100	0	286	41	12	15	30	1.84
48310086--48310134	20	2.5	20	81	15	66	57	6	24	12	1.58
48319412--48319557	37	4.0	37	91	1	233	24	22	16	36	1.94
48319564--48320557	52	19.3	52	97	1	1814	29	22	13	34	1.92
48320361--48320496	46	3.1	41	90	8	152	32	21	13	33	1.92
48323952--48324008	21	2.6	22	88	2	89	29	38	0	31	1.58
48325838--48325949	41	2.7	41	88	0	143	25	17	21	35	1.95
48326011--48326077	34	2.0	34	87	0	98	28	28	16	26	1.97
48326056--48326263	68	3.1	68	92	0	344	26	25	25	23	2.00
48338565--48338616	3	16.3	3	78	7	50	59	5	3	30	1.39
48338817--48338961	3	47.0	3	69	10	55	59	4	6	30	1.41
48338840--48338864	4	6.2	4	100	0	50	76	0	0	24	0.80
48340049--48340097	24	2.0	25	88	4	73	6	4	44	44	1.47
48342404--48342442	18	2.2	17	86	4	51	30	0	20	48	1.50
48342447--48342594	75	2.0	75	100	0	296	37	8	21	33	1.83
48342743--48342840	23	4.3	23	90	2	162	20	21	26	31	1.98
48342745--48342833	45	2.0	45	95	0	160	19	22	26	31	1.97
48347961--48347999	18	2.2	17	86	4	51	30	0	20	48	1.50
48348225--48348322	23	4.3	23	90	2	162	20	21	26	31	1.98
48348227--48348315	45	2.0	45	95	0	160	19	22	26	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48350367--48350481	55	2.1	55	98	0	221	55	3	30	10	1.50
48353656--48353684	8	3.6	8	100	0	58	24	13	27	34	1.93
48353771--48353843	23	3.2	23	84	7	112	24	20	23	31	1.98
48360401--48360446	19	2.4	19	82	7	58	26	4	0	69	1.07
48360472--48360559	19	4.7	18	69	21	56	25	7	2	64	1.32
48360508--48360600	39	2.3	39	81	7	98	25	5	0	68	1.10
48360574--48360611	19	2.0	20	89	5	60	31	2	0	65	1.06
48360633--48360722	19	4.9	17	72	15	56	25	4	3	66	1.26
48360653--48360731	9	8.6	9	78	10	72	25	1	3	69	1.12
48360653--48360731	27	2.9	27	81	9	81	25	1	3	69	1.12
48362513--48362577	29	2.1	29	83	8	76	60	1	0	38	1.07
48362495--48362581	32	2.6	34	74	20	85	57	1	1	40	1.14
48364009--48364037	8	3.6	8	100	0	58	37	0	0	62	0.96
48381125--48381188	20	3.1	20	76	13	67	45	0	4	50	1.22
48382984--48383014	15	2.1	15	94	5	55	0	9	0	90	0.46
48383679--48383710	12	2.7	12	90	0	55	31	25	25	18	1.98
48399693--48399735	21	2.1	20	87	12	61	27	4	4	62	1.35
48408677--48409061	38	10.1	38	92	3	598	23	23	23	29	1.99
48421177--48421201	13	1.9	13	100	0	50	20	40	24	16	1.91
48423758--48423782	12	2.1	12	100	0	50	16	0	24	60	1.36
48427422--48427450	14	2.1	14	100	0	58	27	20	24	27	1.99
48430692--48430908	110	2.0	110	96	0	398	44	9	15	30	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48431352--48431528	47	3.7	47	75	15	159	27	18	31	23	1.97
48431394--48431528	50	2.8	49	78	10	152	27	18	31	22	1.97
48431352--48431528	97	1.8	95	85	10	252	27	18	31	23	1.97
48433201--48433281	27	3.0	26	87	3	99	34	22	25	17	1.95
48434677--48434707	15	2.1	15	100	0	62	41	25	6	25	1.79
48434891--48434998	26	4.2	26	93	0	189	37	27	6	28	1.82
48437253--48437306	26	2.1	26	96	0	99	33	7	5	53	1.52
48442506--48443194	23	30.2	23	73	9	439	37	23	5	33	1.78
48442546--48443705	46	25.2	45	75	14	603	36	24	5	33	1.78
48442520--48443660	69	16.5	67	73	12	707	37	23	5	33	1.78
48442974--48443648	193	3.7	183	81	9	685	36	23	5	34	1.77
48443195--48443613	160	2.6	159	87	4	603	37	24	4	33	1.76
48443195--48443660	68	6.8	69	76	11	397	37	24	4	33	1.77
48443195--48443705	23	22.4	22	77	10	406	36	24	4	33	1.77
48447911--48448029	41	2.9	41	82	0	121	29	15	13	41	1.86
48448164--48448224	7	8.4	7	92	3	77	31	1	1	65	1.12
48448157--48448224	21	3.1	21	82	6	82	33	1	1	63	1.13
48448157--48448250	7	11.9	8	80	13	74	34	1	3	61	1.19
48449069--48449110	21	2.0	21	85	0	57	52	33	0	14	1.42
48449126--48449215	36	2.5	37	80	7	96	51	24	0	24	1.49
48449281--48449318	15	2.6	15	87	4	60	44	36	0	18	1.50
48449275--48449323	22	2.3	21	82	3	62	46	30	0	22	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48463680--48463864	40	4.7	40	81	5	178	27	28	20	24	1.99
48463647--48463864	40	5.5	39	77	7	165	25	27	20	25	1.99
48471544--48471846	40	7.6	40	89	3	380	27	28	20	24	1.99
48495345--48495369	12	2.1	12	100	0	50	52	0	32	16	1.44
48495296--48495416	63	1.9	62	88	5	181	40	5	25	28	1.78
48500642--48500751	23	4.8	24	77	11	97	22	21	20	34	1.97
48500642--48500735	45	2.0	46	84	8	120	21	22	21	35	1.96
48504054--48504125	33	2.2	33	100	0	144	18	11	18	52	1.73
48522420--48522557	54	2.5	55	83	2	170	17	28	26	27	1.97
48527067--48527141	23	3.3	23	75	7	73	21	22	18	37	1.94
48531631--48531706	30	2.5	31	80	2	91	50	3	5	40	1.44
48532802--48532910	17	6.4	17	76	0	65	47	14	6	31	1.69
48532801--48532909	51	2.1	51	82	0	128	47	13	7	31	1.70
48532845--48532911	34	2.0	34	87	0	98	46	10	7	35	1.66
48532861--48532926	34	1.9	34	84	0	87	45	16	4	33	1.68
48543005--48543347	40	8.6	40	91	2	467	24	20	28	27	1.99
48548535--48548760	56	4.0	56	100	0	452	23	19	25	31	1.98
48554966--48555117	27	5.5	28	94	3	247	25	13	29	31	1.93
48554966--48555117	55	2.8	55	93	2	252	25	13	29	31	1.93
48574764--48574808	22	2.0	22	100	0	90	17	0	17	64	1.29
48574764--48574802	12	3.4	12	79	13	55	17	0	17	64	1.30
48575151--48575260	43	2.6	42	85	1	148	20	18	30	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48578921--48578966	22	2.0	23	84	12	60	30	8	10	50	1.68
48582359--48582597	101	2.4	102	81	2	268	33	24	12	28	1.92
48584514--48584546	7	4.7	7	92	0	57	18	51	0	30	1.46
48584514--48584553	14	2.9	14	92	0	62	20	47	0	32	1.50
48584514--48584554	21	2.0	21	90	0	64	21	46	0	31	1.52
48586149--48586288	48	2.9	48	84	3	174	28	20	24	26	1.99
48586147--48586377	48	5.0	45	73	11	153	27	19	25	28	1.99
48586149--48586377	96	2.5	91	80	6	219	27	19	24	27	1.99
48588181--48588405	40	5.6	40	82	2	263	24	27	23	25	2.00
48588145--48588405	80	3.3	79	80	5	267	24	26	22	26	2.00
48591737--48591849	44	2.6	42	80	9	129	23	15	27	32	1.95
48591737--48591864	42	3.0	41	77	10	123	25	15	26	32	1.95
48599225--48599378	43	3.6	43	73	15	140	25	17	27	29	1.97
48604930--48605112	49	3.7	49	76	7	165	30	26	18	25	1.98
48616047--48616176	47	2.8	47	88	2	181	23	14	28	33	1.94
48623135--48623224	29	3.1	29	96	0	162	28	15	23	32	1.95
48630105--48630216	44	2.7	42	80	5	111	31	25	16	26	1.96
48631007--48631037	15	2.1	15	100	0	62	45	6	12	35	1.68
48639973--48640024	22	2.3	23	86	3	70	67	0	1	30	1.02
48642137--48642298	40	4.1	40	92	2	256	24	22	26	27	2.00
48644480--48644509	15	2.0	15	100	0	60	40	20	0	40	1.52
48645986--48646018	7	4.9	7	85	7	50	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48647176--48647377	55	3.7	53	77	10	185	35	17	24	22	1.95
48647175--48647375	108	1.8	110	85	4	282	35	17	24	22	1.95
48647619--48647649	16	1.9	16	93	0	53	41	0	22	35	1.54
48652728--48652769	19	2.3	19	88	12	61	45	0	19	35	1.50
48652696--48652867	86	2.0	86	95	0	308	41	6	22	29	1.78
48653413--48653771	46	7.8	46	90	5	564	20	22	30	27	1.98
48656302--48656519	46	4.8	45	79	6	181	25	20	31	22	1.98
48656302--48656513	92	2.3	90	82	4	228	25	19	31	22	1.98
48659333--48659374	19	2.3	19	88	12	61	45	0	19	35	1.50
48659932--48660888	46	20.8	46	96	1	1742	19	23	30	26	1.98

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