genome.fa.s8.2.7.7.80.10.50.1000.38.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_chr9
Parameters: 2 7 7 80 10 50 1000
Length:  91122320

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   

This is table  38  of  279  ( 33431 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)
12881347--12881544	105	1.9	105	98	0	387	35	6	25	32	1.82
12881599--12881672	29	2.6	29	89	4	105	25	16	32	25	1.96
12881985--12882207	40	5.6	40	85	5	247	24	23	27	25	2.00
12885106--12885517	47	8.8	47	99	0	806	32	7	30	29	1.85
12885636--12885714	37	2.1	37	90	0	122	24	18	31	25	1.98
12893610--12893909	56	5.4	56	83	5	360	34	24	14	27	1.93
12893610--12893893	108	2.6	108	83	3	363	34	23	14	27	1.93
12893855--12894042	86	2.2	86	86	1	261	31	25	14	28	1.94
12893855--12894082	43	5.3	43	82	0	231	32	25	14	28	1.95
12893880--12894082	86	2.4	86	84	1	255	30	25	15	28	1.96
12899307--12899461	42	3.7	43	76	7	156	25	18	25	30	1.97
12900993--12901032	9	4.4	9	81	12	55	77	0	10	12	0.99
12900993--12901032	17	2.2	18	86	8	55	77	0	10	12	0.99
12904837--12905142	47	6.6	45	76	11	226	29	19	27	22	1.98
12911300--12911330	16	1.9	16	93	0	53	35	22	0	41	1.54
12911297--12911336	20	2.0	20	85	0	53	37	22	0	40	1.54
12911569--12911766	108	1.8	110	86	4	294	23	25	16	34	1.95
12911522--12911777	55	4.8	54	78	9	235	21	25	17	35	1.95
12913957--12914008	27	1.9	27	88	7	79	30	25	26	17	1.97
12914450--12914476	14	1.9	14	100	0	54	18	29	0	51	1.46
12916918--12916976	30	2.0	30	82	0	73	38	10	25	25	1.87
12917413--12917645	50	4.6	50	74	4	227	27	18	23	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12918983--12919154	46	3.7	46	74	13	172	20	18	30	30	1.96
12918977--12919147	93	1.8	93	89	0	270	21	19	29	29	1.98
12920544--12920591	15	3.3	15	73	5	53	41	29	2	27	1.67
12923458--12923517	29	2.1	29	90	0	93	41	28	0	30	1.56
12923464--12923511	15	3.3	15	73	5	53	43	25	0	31	1.55
12923730--12923763	12	2.8	12	83	16	52	73	8	2	14	1.19
12928073--12928132	29	2.1	29	90	0	93	41	28	0	30	1.56
12928079--12928126	15	3.3	15	73	5	53	43	25	0	31	1.55
12930869--12930897	9	3.0	10	90	10	51	82	6	0	10	0.83
12930880--12930927	25	1.9	25	86	0	69	75	2	6	16	1.11
12930880--12930924	13	3.5	13	90	6	65	80	2	4	13	0.97
12940648--12940701	20	2.7	20	82	0	63	22	20	20	37	1.95
12940648--12940721	30	2.5	30	86	4	96	20	20	20	39	1.93
12940648--12940712	20	3.2	20	71	16	53	21	21	18	38	1.93
12942618--12942656	15	2.6	15	87	0	51	82	0	15	2	0.79
12943678--12943795	12	9.8	12	68	18	50	70	3	18	7	1.26
12943695--12943798	18	5.6	18	75	5	82	71	3	18	6	1.24
12943691--12943798	6	17.7	6	70	6	74	71	3	18	6	1.23
12943759--12943796	13	2.8	13	82	17	51	73	0	18	7	1.06
12943760--12943810	21	2.4	21	74	6	50	74	1	17	5	1.11
12943813--12943875	33	1.9	33	84	12	85	55	6	25	12	1.60
12945796--12945849	20	2.7	20	82	0	63	24	20	18	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12945796--12945869	30	2.5	30	86	8	98	21	20	18	39	1.93
12945796--12945860	20	3.2	20	71	16	53	23	21	16	38	1.93
12949855--12950028	46	3.8	46	78	14	205	20	20	28	29	1.98
12949852--12950023	93	1.8	93	95	2	310	20	20	29	28	1.98
12963201--12963248	25	1.9	25	83	8	62	43	2	2	52	1.24
12963205--12963254	20	2.7	19	80	20	61	44	2	2	52	1.24
12963233--12963350	62	1.9	59	83	5	146	42	4	4	49	1.42
12968685--12968766	43	1.9	43	97	0	155	29	29	10	30	1.91
12971958--12971993	12	3.3	11	88	11	56	13	0	8	77	0.98
12971958--12971993	11	3.2	12	92	7	58	13	0	8	77	0.98
12977259--12978208	40	23.8	40	98	0	1796	22	22	27	27	1.99
12984785--12984956	93	1.8	93	93	2	301	28	29	20	21	1.98
12984778--12984953	46	3.8	46	77	14	200	29	28	20	21	1.98
12989952--12990120	93	1.8	93	93	0	293	26	31	21	20	1.98
12989941--12990116	46	3.8	46	76	10	187	27	31	21	19	1.97
12989992--12990135	46	3.1	44	70	21	107	28	29	20	21	1.98
12991156--12991294	72	1.9	72	98	0	269	38	17	8	34	1.81
12992974--12993139	40	4.2	40	89	2	237	28	28	21	22	1.99
12995690--12995769	15	5.4	15	78	12	76	60	12	16	11	1.60
12995701--12995778	15	5.2	15	81	9	88	57	14	15	12	1.65
12995690--12995778	30	3.0	30	81	14	103	58	14	15	11	1.63
12998723--12998893	93	1.8	93	92	0	288	28	30	20	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12998722--12998889	46	3.6	46	75	16	175	28	30	20	20	1.98
12998970--12999062	46	2.0	46	95	0	168	27	25	15	31	1.95
13012061--13012110	20	2.5	20	87	6	66	24	18	24	34	1.96
13013520--13013561	18	2.4	17	92	4	66	66	7	9	16	1.42
13017778--13017963	40	4.7	40	82	7	184	24	21	26	27	1.99
13017896--13018202	153	2.0	153	99	0	605	28	17	24	29	1.97
13024021--13024045	7	3.6	7	100	0	50	0	28	0	72	0.86
13027256--13027316	30	2.1	29	96	3	113	36	22	16	24	1.94
13031308--13031345	16	2.4	16	86	8	51	7	2	2	86	0.74
13048522--13048562	20	2.0	20	86	9	57	26	0	19	53	1.45
13049032--13049056	11	2.3	11	100	0	50	36	16	16	32	1.90
13050377--13050481	51	2.1	51	100	0	210	35	24	11	28	1.90
13051662--13051744	43	1.9	43	83	9	107	28	26	19	25	1.98
13059758--13059841	43	2.0	43	83	9	109	27	27	19	26	1.99
13066662--13066839	27	6.6	27	83	3	205	26	15	28	29	1.96
13066663--13066818	82	1.9	81	88	3	233	26	15	28	29	1.96
13066659--13066839	82	2.2	81	83	2	229	27	15	27	29	1.96
13071467--13071558	28	3.3	28	95	3	159	33	28	7	30	1.85
13071674--13071753	27	2.9	28	83	5	108	20	25	22	32	1.98
13071674--13071764	27	3.2	28	81	4	94	20	26	20	31	1.98
13071674--13071778	55	1.9	56	82	5	133	19	24	20	35	1.96
13075481--13075560	15	5.4	15	73	18	69	61	12	15	11	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13075490--13075569	30	2.7	30	81	11	92	58	13	15	12	1.63
13075492--13075569	15	5.2	15	72	20	56	58	14	14	12	1.63
13077634--13077776	72	2.0	72	98	0	277	34	16	15	33	1.90
13081650--13081687	18	2.2	18	85	4	51	15	44	26	13	1.83
13085224--13085279	23	2.4	24	79	8	62	69	16	3	10	1.30
13086320--13086391	25	2.8	26	80	4	83	25	25	22	27	2.00
13088811--13091087	752	3.0	757	85	4	3117	38	21	13	25	1.90
13094107--13094154	20	2.4	20	92	0	78	31	0	29	39	1.57
13094242--13094348	35	3.1	34	71	9	108	16	27	28	28	1.97
13094207--13094638	35	12.2	35	67	15	102	21	24	22	31	1.98
13094186--13094391	69	3.0	69	83	3	245	19	27	24	28	1.99
13094349--13094433	44	1.9	44	85	4	118	28	25	16	29	1.97
13094281--13094504	113	2.0	113	82	3	272	22	25	20	30	1.99
13094395--13094592	69	2.9	69	78	4	159	22	23	21	32	1.98
13094402--13094597	34	5.7	34	73	7	117	21	22	22	32	1.98
13094212--13094540	182	1.8	182	86	0	460	21	24	22	31	1.98
13094500--13094629	69	1.9	69	83	0	170	22	22	22	33	1.98
13103640--13103762	22	6.1	22	63	21	72	11	16	30	41	1.83
13103647--13103756	38	2.9	37	86	5	148	11	18	30	39	1.86
13104874--13104920	16	2.8	16	76	17	51	31	10	4	53	1.55
13109343--13109530	40	4.7	40	92	0	313	21	27	20	30	1.98
13113400--13113512	57	2.0	57	91	3	183	35	1	54	7	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13113439--13113547	49	2.2	49	86	3	157	33	1	55	8	1.40
13118583--13118617	16	2.2	16	94	0	61	14	37	28	20	1.91
13119052--13119085	15	2.2	16	89	5	52	50	26	0	23	1.50
13119868--13119921	27	2.0	27	85	7	74	18	18	12	50	1.78
13122387--13122423	19	1.9	19	88	0	56	29	2	8	59	1.40
13122902--13122944	21	2.0	21	86	8	61	41	4	13	39	1.66
13127284--13127324	20	2.0	20	100	0	82	39	9	9	41	1.71
13131780--13131825	19	2.5	19	89	3	67	21	10	54	13	1.69
13131791--13131833	19	2.3	19	100	0	86	20	9	53	16	1.70
13133121--13133200	18	4.4	18	87	0	97	38	20	11	30	1.87

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