genome.fa.s25.2.7.7.80.10.50.1000.139.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_chr12
Parameters: 2 7 7 80 10 50 1000
Length:  101062743

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   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   

This is table  139  of  297  ( 35593 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)
47824342--47824505	40	4.1	40	80	12	169	25	23	27	24	2.00
47824342--47824492	79	1.9	80	82	6	191	25	23	27	23	2.00
47842760--47842792	9	3.8	9	88	4	50	57	0	3	39	1.14
47847023--47847058	17	2.1	17	89	0	54	75	11	0	13	1.06
47859073--47859588	47	11.0	47	97	0	933	33	11	28	25	1.91
47859562--47859652	46	2.0	46	86	0	128	32	8	31	26	1.87
47864976--47865146	69	2.5	68	83	4	202	40	15	19	25	1.90
47869651--47869697	20	2.3	21	78	7	53	59	17	4	19	1.53
47869802--47869860	31	1.9	31	85	0	82	30	16	16	35	1.92
47871736--47871948	47	4.6	48	75	10	160	25	30	16	27	1.97
47871832--47871999	46	3.6	45	77	9	176	25	27	17	29	1.97
47879120--47879145	13	2.0	13	100	0	52	15	38	30	15	1.88
47891133--47891194	28	2.1	28	94	5	106	41	0	6	51	1.27
47891150--47891506	170	2.1	170	100	0	714	44	3	10	42	1.55
47892503--47892603	47	2.1	47	85	3	132	23	17	20	37	1.94
47892658--47892806	39	3.8	39	81	1	174	43	10	10	36	1.72
47908688--47908721	16	2.2	15	89	5	50	67	0	0	32	0.91
47910573--47910660	25	3.5	25	76	3	79	25	17	19	38	1.92
47913275--47913426	27	5.6	27	92	3	232	27	13	28	30	1.94
47913275--47913426	55	2.8	55	92	0	241	27	13	28	30	1.94
47922694--47922898	28	7.4	28	87	3	272	26	12	29	31	1.93
47922719--47922898	55	3.3	55	94	1	299	27	12	28	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47922719--47922898	83	2.2	82	92	1	297	27	12	28	30	1.93
47925199--47925234	5	7.2	5	100	0	72	58	0	0	41	0.98
47925569--47925609	9	4.4	9	87	6	64	53	14	0	31	1.41
47931592--47931635	6	7.0	6	92	7	70	15	4	0	79	0.89
47931598--47931642	12	3.8	12	88	2	56	17	4	0	77	0.92
47931598--47931645	18	2.8	17	87	3	69	18	4	0	77	0.93
47932962--47933907	473	2.0	473	100	0	1892	30	12	19	38	1.88
47935970--47936002	17	1.9	17	88	11	50	30	21	0	48	1.50
47938316--47938356	22	1.9	21	90	5	64	51	0	0	48	1.00
47942305--47942329	13	1.9	13	100	0	50	4	40	32	24	1.73
47944990--47945023	16	2.1	17	88	5	52	35	14	0	50	1.44
47955039--47955077	17	2.3	17	90	0	60	46	2	2	48	1.29
47955048--47955159	58	1.9	58	81	3	136	53	2	1	41	1.25
47955101--47955264	72	2.3	72	87	5	224	50	3	2	43	1.33
47955137--47955286	72	2.1	73	91	2	250	49	3	2	44	1.33
47955342--47955403	17	3.5	17	70	12	54	58	0	1	40	1.08
47956527--47956559	12	2.8	12	90	4	50	48	3	15	33	1.60
47970362--47970476	57	2.0	57	100	0	230	39	29	10	20	1.86
47973308--47973415	26	4.2	26	90	2	155	33	7	23	36	1.83
47973308--47973415	52	2.1	52	91	0	171	33	7	23	36	1.83
47976561--47976591	12	2.6	12	100	0	62	9	25	51	12	1.70
47981460--47981567	26	4.2	26	93	0	189	32	7	24	36	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47986129--47986216	44	2.0	44	86	4	124	22	20	28	28	1.99
47988189--47988216	12	2.3	12	100	0	56	32	17	14	35	1.90
47989761--47989930	45	3.6	45	72	16	132	24	30	18	26	1.98
47999867--47999897	15	2.0	16	93	6	55	61	0	0	38	0.96
48003372--48003613	117	2.1	116	82	8	287	45	11	15	28	1.81
48004297--48004335	19	2.0	20	85	14	55	76	2	0	20	0.90
48005570--48005750	44	4.1	44	73	5	132	24	21	19	33	1.97
48005598--48006126	44	11.9	44	69	9	173	24	22	19	33	1.97
48006122--48006239	44	2.6	46	79	2	132	28	25	18	27	1.98
48006791--48006898	26	4.2	26	95	0	198	29	7	26	36	1.84
48012301--48012476	46	3.8	45	80	10	203	21	21	28	28	1.98
48012297--48012468	93	1.8	93	93	0	299	21	21	29	27	1.99
48030564--48030805	117	2.1	116	80	8	260	45	11	15	27	1.80
48031486--48031524	19	2.0	20	85	14	55	76	2	0	20	0.90
48032822--48032917	43	2.2	43	81	7	104	30	20	19	29	1.97
48032744--48032939	44	4.5	43	72	8	135	24	22	18	33	1.97
48032796--48033322	44	11.8	44	65	12	160	23	24	19	32	1.97
48032942--48033096	46	3.3	46	67	13	136	21	24	20	33	1.97
48032924--48033418	94	5.5	91	81	7	471	21	24	20	33	1.97
48032911--48033418	268	1.9	270	81	5	616	22	24	20	33	1.97
48033456--48033550	46	2.1	45	86	2	127	27	23	18	30	1.98
48035705--48036577	431	2.0	431	97	0	1658	54	8	9	27	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48036871--48036904	18	1.9	18	88	5	52	58	8	0	32	1.29
48040232--48040269	18	2.2	18	85	4	51	50	2	0	47	1.15
48048253--48048313	25	2.4	25	83	0	77	19	14	22	42	1.88
48048299--48048361	25	2.5	25	82	10	92	20	7	30	41	1.81
48055662--48055702	21	2.0	21	90	9	66	39	2	24	34	1.69
48062020--48062060	21	2.0	21	90	9	66	39	2	24	34	1.69
48064792--48064912	51	2.4	50	83	8	138	40	10	19	28	1.85
48065484--48065530	23	2.0	22	88	8	67	10	8	40	40	1.70
48071129--48071154	12	2.2	12	100	0	52	50	7	7	34	1.60
48079924--48080022	23	4.2	24	93	2	166	29	21	19	30	1.97
48080072--48080112	20	2.0	20	95	0	73	34	21	9	34	1.87
48085465--48085513	19	2.6	19	84	15	66	44	8	2	44	1.45
48085100--48085712	307	2.0	308	90	1	962	38	15	8	37	1.78
48090405--48090669	40	6.7	40	85	5	286	26	27	21	24	1.99
48090372--48090669	80	3.7	80	79	9	263	25	27	21	25	1.99
48090601--48090678	40	1.9	41	82	10	97	26	28	20	24	1.99
48098353--48098580	40	5.7	40	98	0	438	21	27	20	30	1.98
48106390--48106720	47	6.9	47	86	5	421	33	9	29	26	1.89
48106701--48106837	46	3.0	46	82	4	168	35	9	29	25	1.87
48108208--48108458	40	6.3	40	91	0	376	25	19	27	27	1.99
48108490--48108624	57	2.4	57	77	12	134	21	19	31	27	1.97
48109011--48109158	48	3.0	48	87	7	235	35	6	26	31	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48109011--48109155	50	2.9	50	89	6	233	35	6	26	31	1.83
48109011--48109179	48	3.4	50	80	14	208	33	7	28	31	1.84
48110571--48110901	40	8.3	40	88	0	491	24	19	28	28	1.98
48110571--48110901	80	4.1	80	96	0	581	24	19	28	28	1.98
48110933--48111067	57	2.4	57	78	9	141	22	18	29	28	1.98
48113967--48114199	117	2.0	117	99	0	457	37	12	18	31	1.89
48114841--48114951	51	2.3	49	87	7	163	34	9	28	27	1.89
48115021--48115276	46	5.6	46	93	0	415	35	9	31	23	1.87
48115459--48115607	37	4.0	37	94	0	253	22	18	30	28	1.97
48116417--48116587	39	4.4	39	93	0	297	29	29	21	19	1.98
48128883--48128992	27	4.1	27	76	10	109	38	22	23	15	1.92
48136748--48136852	27	3.9	28	81	9	119	37	20	24	18	1.94
48143124--48143154	12	2.5	12	94	5	53	0	12	0	87	0.55
48143144--48143177	16	2.1	16	88	0	50	20	8	8	61	1.52
48144139--48144250	27	4.1	27	85	7	138	37	22	24	16	1.93
48144139--48144250	54	2.1	54	86	3	154	37	22	24	16	1.93
48154986--48155017	17	1.9	17	93	6	57	81	0	0	18	0.70
48156889--48156947	31	1.9	31	89	0	91	55	22	6	15	1.63
48163097--48163133	15	2.6	15	87	8	51	8	35	27	29	1.85
48169120--48169152	16	2.1	16	94	0	57	51	3	0	45	1.16
48169131--48169174	22	2.0	22	86	0	61	52	0	0	47	1.00
48169193--48169236	13	3.3	14	84	9	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48169267--48169323	15	3.5	15	71	17	51	49	1	1	47	1.22
48169961--48170035	34	2.2	34	95	0	132	25	2	16	56	1.53
48169982--48170037	19	3.2	19	62	27	50	28	5	16	50	1.67
48173113--48173272	10	17.4	9	66	22	50	64	2	2	30	1.20
48173104--48173237	26	5.0	26	67	21	64	66	2	2	29	1.16
48173196--48173228	16	2.1	16	100	0	66	69	6	0	24	1.10
48173212--48173272	20	3.1	20	74	9	63	63	3	3	29	1.26
48173194--48173272	19	4.2	19	72	18	58	65	3	2	27	1.22
48173098--48173254	82	1.9	82	82	7	194	64	1	2	30	1.17
48173209--48173305	36	2.6	36	84	9	115	58	3	5	32	1.35

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   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297