genome.fa.s7.2.7.7.80.10.50.1000.160.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_chr3
Parameters: 2 7 7 80 10 50 1000
Length:  100348136

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   

This is table  160  of  290  ( 34714 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)
54701946--54701970	11	2.3	11	100	0	50	60	8	0	32	1.26
54724074--54724120	20	2.3	20	89	7	69	31	19	10	38	1.86
54731979--54732075	26	3.8	26	93	1	162	25	23	24	25	2.00
54731979--54732075	51	1.9	51	95	4	178	25	23	24	25	2.00
54732125--54732199	20	3.8	20	91	6	111	34	18	9	37	1.83
54732125--54732180	11	5.5	11	71	16	57	32	19	10	37	1.86
54732142--54732198	9	5.8	10	76	15	57	35	19	8	36	1.83
54742131--54742159	13	2.2	13	100	0	58	55	13	0	31	1.39
54748784--54748952	60	2.8	61	76	8	159	26	24	20	27	1.99
54748945--54748988	20	2.3	19	84	11	54	27	29	18	25	1.98
54757908--54757996	27	3.3	26	87	4	115	39	19	16	24	1.92
54759709--54759874	40	4.2	40	82	8	144	27	27	19	24	1.99
54759744--54759929	80	2.3	80	83	9	220	28	27	20	23	1.99
54759746--54759874	40	3.2	40	88	2	197	28	27	19	24	1.98
54759749--54759929	40	4.5	40	81	7	154	27	27	20	23	1.99
54764685--54764780	40	2.4	41	82	6	117	28	18	29	23	1.98
54774617--54774689	38	1.9	38	100	0	146	30	13	23	32	1.93
54775874--54776018	40	3.6	39	84	6	173	25	24	26	24	2.00
54779042--54779092	25	2.0	25	100	0	102	43	23	3	29	1.72
54782084--54782146	32	2.0	32	93	6	110	20	20	25	33	1.97
54785719--54786605	66	13.4	66	99	0	1731	27	30	27	15	1.96
54787777--54787900	43	2.9	42	76	8	133	31	25	15	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54797502--54797625	43	2.9	42	76	8	133	31	25	15	28	1.95
54808145--54808296	40	3.8	40	90	2	225	25	28	21	23	1.99
54813302--54813813	256	2.0	256	92	0	862	29	24	22	23	1.99
54816424--54816670	40	6.2	40	88	1	309	29	27	19	23	1.98
54819925--54820493	285	2.0	285	95	0	1030	27	22	23	26	1.99
54826444--54826651	40	5.2	41	78	9	216	25	20	27	25	1.99
54826504--54826655	79	1.9	79	85	7	211	26	19	27	26	1.99
54829317--54829351	16	2.2	16	95	5	63	34	14	17	34	1.90
54853692--54853729	14	2.9	13	81	11	51	57	10	13	18	1.63
54860553--54860659	33	3.3	33	86	1	126	41	32	10	15	1.81
54862292--54862457	57	2.9	57	81	3	190	23	24	17	34	1.96
54865774--54865881	47	2.3	47	90	0	162	50	13	10	25	1.74
54867047--54867075	12	2.3	13	94	5	51	6	6	3	82	0.93
54873932--54873981	24	2.1	24	96	0	91	14	30	20	36	1.91
54874106--54874135	14	2.1	14	100	0	60	33	6	0	60	1.23
54878627--54878677	24	2.1	24	100	0	102	39	17	3	39	1.68
54879788--54879819	15	2.1	15	100	0	64	40	0	28	31	1.57
54881020--54881046	14	1.9	14	100	0	54	29	18	14	37	1.91
54883820--54883859	11	3.5	11	83	12	53	50	0	0	50	1.00
54883827--54883854	13	2.2	13	100	0	56	35	0	0	64	0.94
54885797--54885848	25	2.1	25	100	0	104	40	15	15	28	1.88
54887329--54887544	47	4.7	46	77	12	185	25	18	31	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54887374--54887544	91	1.8	95	82	9	228	26	19	30	22	1.98
54890944--54890987	19	2.4	19	85	7	56	50	0	9	40	1.34
54890961--54891135	54	3.3	54	69	24	181	42	2	9	45	1.49
54890933--54891145	105	2.0	105	98	0	408	41	1	10	46	1.49
54891049--54891092	19	2.4	19	85	7	56	50	0	9	40	1.34
54896414--54896598	79	2.3	81	81	7	209	24	22	28	25	1.99
54896414--54896598	40	4.7	40	81	6	207	24	22	28	25	1.99
54896467--54896631	79	2.1	79	82	6	192	26	21	27	24	1.99
54902061--54902227	84	2.0	84	98	0	325	28	16	19	35	1.93
54903498--54903664	86	1.9	86	96	0	307	20	16	23	40	1.91
54904555--54904733	40	4.6	39	78	12	172	25	22	27	24	2.00
54904604--54904733	39	3.3	38	87	7	165	25	22	27	24	2.00
54904604--54904733	38	3.3	38	85	9	149	25	22	27	24	2.00
54912460--54912810	176	2.0	176	97	0	666	27	18	24	29	1.98
54912694--54912872	40	4.6	39	78	12	172	25	22	27	24	2.00
54912743--54912872	39	3.3	38	87	7	165	25	22	27	24	2.00
54912743--54912872	38	3.3	38	85	9	149	25	22	27	24	2.00
54924822--54924904	35	2.3	36	85	6	107	31	3	28	36	1.75
54929947--54930054	6	18.0	6	70	16	64	74	0	20	4	1.06
54929952--54930032	24	3.4	24	76	19	80	74	1	18	6	1.10
54929956--54930032	19	3.8	19	72	21	59	72	1	19	6	1.13
54929955--54930064	43	2.6	41	83	12	125	71	0	20	6	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54931560--54931584	12	2.1	12	100	0	50	24	0	36	40	1.55
54937708--54937781	25	3.0	25	78	11	64	29	20	22	27	1.98
54939031--54939055	11	2.3	11	100	0	50	64	8	0	28	1.22
54944784--54944828	16	2.9	15	78	15	56	33	4	8	53	1.52
54944785--54944818	17	2.1	16	88	5	50	32	2	8	55	1.45
54946099--54946132	16	2.2	16	89	5	52	64	0	8	26	1.22
54947961--54948083	50	2.3	53	82	10	137	26	19	31	22	1.98
54948346--54948384	20	2.0	20	90	10	62	56	5	23	15	1.59
54951082--54951122	17	2.4	17	83	0	55	82	0	12	4	0.81
54951081--54951133	23	2.3	23	78	9	63	77	0	16	5	0.96
54970522--54970566	23	2.0	23	82	8	56	8	6	13	71	1.31
54974141--54974172	14	2.3	14	94	0	55	68	0	15	15	1.21
54983674--54983866	50	3.9	50	79	7	196	21	26	22	29	1.99
54984255--54984314	30	2.0	29	84	9	77	30	25	6	38	1.81
54990621--54990880	41	6.3	40	78	9	213	35	25	18	20	1.95
54990632--54990861	82	2.8	81	82	10	245	36	25	17	20	1.95
54990665--54990876	82	2.6	82	82	4	257	35	25	19	19	1.95
54990621--54990945	123	2.6	123	78	8	290	34	25	19	20	1.96
54995136--54995172	13	2.7	14	87	8	58	64	8	0	27	1.21
54997014--54997110	45	2.2	44	85	7	124	19	22	7	50	1.72
55000323--55000355	16	2.0	17	88	5	50	54	0	0	45	0.99
55012085--55012123	20	2.0	20	90	10	62	58	0	5	35	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55016675--55016912	40	6.0	40	80	4	191	25	28	21	24	1.99
55016675--55016830	80	2.0	80	89	0	240	26	28	21	23	1.99
55016692--55016945	80	3.2	78	80	7	246	25	28	22	24	1.99
55016772--55016945	40	4.4	39	78	12	158	23	28	22	25	1.99
55017252--55017330	29	2.7	29	86	5	106	27	32	15	24	1.95
55019189--55019392	40	5.1	40	78	8	211	24	28	22	25	1.99
55029101--55029308	27	7.7	27	77	12	160	25	14	19	40	1.89
55029102--55029308	54	3.8	52	79	7	200	25	14	18	41	1.89
55029102--55029308	81	2.6	81	82	3	229	25	14	18	41	1.89
55029515--55029549	17	2.0	18	88	5	54	20	40	28	11	1.87
55030696--55030749	25	2.2	25	86	0	72	18	48	9	24	1.77
55033752--55036906	656	4.8	658	93	2	5253	29	18	16	35	1.93
55053098--55053223	40	3.2	40	83	1	155	31	18	21	28	1.97
55053125--55053247	39	3.1	39	80	2	138	30	22	20	26	1.98
55053153--55053745	155	3.9	149	77	10	487	31	16	21	30	1.95
55053922--55053961	21	1.9	21	84	0	53	20	0	25	55	1.44
55054115--55054224	28	4.0	28	70	15	77	20	0	30	48	1.56
55054181--55054222	20	2.1	20	82	8	50	14	0	35	50	1.43
55054115--55054224	14	7.9	14	70	11	57	20	0	30	48	1.56
55054683--55054738	18	3.1	18	89	0	85	5	42	17	33	1.72
55056457--55056751	9	32.1	9	70	16	151	46	17	1	34	1.58
55056436--55056598	54	3.0	54	91	7	244	49	14	0	34	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55056644--55056751	57	1.9	57	94	0	189	42	22	0	34	1.60
55062457--55062589	42	3.1	43	75	10	123	33	13	24	28	1.93
55062482--55062642	43	3.8	43	84	2	191	29	15	24	31	1.96
55062473--55062651	86	2.1	85	83	6	227	28	16	26	29	1.97
55062683--55062712	15	2.0	15	100	0	60	20	20	26	33	1.97
55065451--55065509	11	5.4	11	75	0	55	37	45	3	13	1.60
55065451--55065513	22	2.9	22	85	0	90	38	42	3	15	1.63
55071786--55071821	18	2.0	18	100	0	72	38	27	0	33	1.57
55073945--55074114	40	4.3	40	90	0	225	26	27	21	24	1.99
55073950--55074167	80	2.7	79	80	4	206	26	27	20	24	1.99

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