genome.fa.s13.2.7.7.80.10.50.1000.19.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_chr11
Parameters: 2 7 7 80 10 50 1000
Length:  102024878

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   298   299   300   301   302   303   304   
          305   306   307   308   309   310   

This is table  19  of  310  ( 37082 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)
4893669--4893799	54	2.4	54	84	0	154	41	19	14	25	1.89
4897029--4897120	34	2.7	35	76	10	91	31	19	23	25	1.98
4909341--4910241	53	16.9	53	97	1	1671	37	8	15	39	1.77
4909343--4910249	18	51.3	19	78	11	319	37	8	15	39	1.76
4913428--4913452	12	2.1	12	100	0	50	76	0	24	0	0.80
4915980--4916022	15	2.8	16	85	3	61	86	0	13	0	0.58
4915980--4916028	12	4.2	11	80	19	55	85	0	12	2	0.68
4915980--4916028	15	3.2	14	80	11	53	85	0	12	2	0.68
4915980--4916028	21	2.4	21	83	10	57	85	0	12	2	0.68
4915980--4916028	24	2.0	24	84	7	64	85	0	12	2	0.68
4916985--4917211	44	5.3	44	66	10	173	30	22	21	25	1.98
4917029--4917163	41	3.2	41	67	10	128	31	26	20	21	1.98
4916975--4917432	85	5.4	85	87	5	628	30	22	22	25	1.99
4917312--4917433	43	2.9	41	72	15	115	31	20	23	24	1.98
4917557--4918476	207	4.5	207	93	0	1511	29	17	23	29	1.97
4917557--4918476	413	2.2	413	91	0	1518	29	17	23	29	1.97
4918841--4919042	18	11.3	18	88	3	302	34	10	17	37	1.85
4918841--4919044	53	3.8	53	98	1	390	34	11	17	37	1.85
4926853--4926886	13	2.6	13	90	0	50	88	0	11	0	0.52
4927941--4928053	48	2.4	46	79	16	124	55	2	1	39	1.24
4927959--4928053	49	1.9	50	89	6	149	56	1	2	40	1.18
4934991--4935128	27	5.1	26	85	4	123	36	23	22	18	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4934991--4935130	54	2.6	54	82	2	156	37	22	22	17	1.94
4935238--4935308	28	2.7	26	86	4	88	32	9	21	36	1.86
4936518--4936592	26	2.9	26	97	0	141	36	25	5	33	1.79
4958553--4958646	40	2.4	39	85	3	118	14	10	36	38	1.81
4960074--4960107	13	2.6	13	90	0	50	41	0	2	55	1.15
4967035--4967061	11	2.5	11	100	0	54	55	7	7	29	1.55
4968822--4969151	73	4.5	72	84	7	398	33	19	15	31	1.93
4968816--4969631	147	5.4	147	72	18	472	33	19	16	30	1.93
4969084--4969329	88	2.8	87	84	4	289	34	19	18	28	1.95
4969354--4969614	75	3.5	74	87	4	366	30	20	15	33	1.94
4982745--4982785	17	2.4	17	87	4	55	14	2	2	80	0.92
4984753--4984786	13	2.6	13	95	0	59	41	0	0	58	0.98
4988813--4988928	6	18.8	6	73	15	94	46	13	20	18	1.83
4988813--4988919	37	2.9	37	88	4	153	46	14	21	17	1.83
4988825--4988928	31	3.4	31	75	15	115	45	14	21	19	1.85
4988861--4988928	25	2.7	25	88	0	100	44	14	20	20	1.87
4989047--4989153	27	4.0	27	82	10	112	36	17	23	22	1.95
4989310--4989361	22	2.4	22	80	0	59	32	21	25	21	1.98
4989673--4989736	27	2.4	28	76	7	69	37	26	18	17	1.93
4989716--4990254	27	20.0	27	88	0	756	23	21	18	35	1.95
4990246--4990584	27	12.6	27	78	7	260	30	8	21	39	1.82
5001113--5001489	193	2.0	193	89	1	585	27	27	13	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5004349--5004445	28	3.5	27	80	2	86	19	23	21	35	1.96
5004346--5004458	27	4.2	26	83	8	127	17	23	22	37	1.94
5004346--5004458	55	2.1	54	85	5	147	17	23	22	37	1.94
5006224--5006366	71	2.0	71	91	0	232	30	16	13	38	1.88
5008463--5008503	18	2.2	17	87	12	55	70	4	0	24	1.06
5008460--5008504	20	2.3	20	88	7	67	68	4	0	26	1.08
5010333--5010371	20	2.0	20	94	0	69	38	5	5	51	1.46
5010684--5010765	41	2.0	41	97	0	155	15	21	10	51	1.75
5013981--5014157	86	2.1	86	93	0	309	36	9	20	32	1.85
5015424--5015458	17	2.1	17	94	0	61	28	17	28	25	1.97
5028980--5029023	22	2.0	22	82	8	54	47	6	34	11	1.66
5031842--5031903	18	3.4	18	79	16	58	30	0	0	69	0.89
5031851--5031886	14	2.5	14	90	4	54	30	0	0	69	0.89
5031862--5031903	15	2.9	14	86	13	50	28	0	0	71	0.86
5033740--5033834	50	1.9	50	91	6	158	41	2	2	54	1.24
5034319--5034379	27	2.3	27	91	5	99	44	8	6	40	1.60
5034319--5034387	27	2.6	27	86	6	79	40	8	7	43	1.63
5034429--5034462	14	2.4	14	85	0	50	41	8	8	41	1.67
5036376--5036401	2	13.0	2	100	0	52	50	50	0	0	1.00
5037185--5037267	41	2.0	41	97	0	157	20	19	33	26	1.96
5037200--5037268	21	3.3	21	66	11	61	18	17	36	27	1.94
5049079--5049103	11	2.3	11	100	0	50	72	0	0	28	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5051621--5051666	18	2.6	18	89	3	67	21	30	36	10	1.88
5065657--5065714	24	2.4	25	83	13	68	18	0	43	37	1.51
5065668--5065738	22	3.2	22	72	16	65	18	1	42	38	1.59
5065671--5065745	21	3.4	21	78	14	64	18	2	41	37	1.65
5065891--5065935	7	6.4	7	84	0	54	24	0	24	51	1.49
5065891--5065935	14	3.2	14	87	0	63	24	0	24	51	1.49
5065899--5065944	21	2.2	21	88	0	65	26	0	28	45	1.54
5066314--5066353	13	2.9	13	85	7	53	80	0	0	20	0.72
5073340--5073388	19	2.7	17	81	9	53	24	2	2	71	1.07
5073340--5073388	17	2.7	18	84	6	55	24	2	2	71	1.07
5074206--5074289	41	2.0	41	100	0	168	42	16	11	28	1.84
5080025--5080053	15	1.9	15	100	0	58	27	62	0	10	1.28
5083806--5083855	20	2.5	20	100	0	100	36	20	16	28	1.93
5086074--5086139	11	5.8	12	84	8	84	74	6	7	12	1.22
5086087--5086139	23	2.3	23	93	6	90	75	3	5	15	1.13
5086087--5086139	12	4.6	12	90	2	74	75	3	5	15	1.13
5087045--5087094	21	2.4	21	86	6	66	80	4	16	0	0.87
5087045--5087112	5	13.0	5	75	17	59	77	2	16	2	1.00
5087056--5087112	16	3.7	14	80	17	60	77	1	17	3	1.00
5087160--5087190	12	2.6	12	100	0	62	45	12	16	25	1.83
5090776--5090807	6	5.3	6	100	0	64	15	50	0	34	1.45
5094156--5094208	23	2.4	22	76	20	56	9	18	1	69	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5105061--5105132	29	2.5	29	93	2	119	37	8	6	47	1.61
5105479--5105608	65	2.0	65	98	0	251	36	11	12	40	1.79
5110185--5110227	9	4.8	9	94	0	68	39	27	9	23	1.85
5113954--5113999	21	2.2	21	88	7	67	54	2	0	43	1.12
5117160--5117200	21	2.0	21	95	0	73	31	21	26	19	1.97
5123655--5123685	16	1.9	16	93	0	53	54	3	0	41	1.16
5123762--5123795	18	1.9	17	88	5	50	29	2	11	55	1.50
5123762--5123795	17	1.9	18	88	5	52	29	2	11	55	1.50
5126726--5126788	25	2.4	27	73	14	62	46	0	4	49	1.23
5132425--5132816	96	4.1	96	88	2	529	31	19	14	34	1.92
5132455--5132858	51	8.6	45	70	12	197	31	20	14	33	1.93
5132394--5132816	191	2.2	190	86	2	589	30	19	14	34	1.92
5132492--5132769	51	5.7	51	71	11	242	32	18	14	34	1.91
5153682--5153720	15	2.5	15	87	4	51	48	0	2	48	1.15
5161294--5161345	16	3.2	16	94	0	86	28	0	36	34	1.58
5166040--5166107	31	2.3	30	80	16	79	23	14	11	50	1.76
5166754--5166787	17	2.0	17	94	0	59	44	0	0	55	0.99
5166738--5166806	23	3.0	24	83	10	81	46	0	0	53	1.00
5167119--5167173	28	2.0	28	85	0	74	36	7	21	34	1.81
5172387--5172470	43	2.0	43	90	0	132	30	4	30	33	1.78
5172576--5172638	28	2.2	28	91	0	99	31	6	30	31	1.83
5173515--5173560	23	2.0	22	87	4	65	26	2	8	63	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5180476--5180517	22	1.9	22	95	0	75	19	14	28	38	1.90
5185965--5186022	29	2.0	29	100	0	116	44	17	3	34	1.65
5189763--5189802	21	1.9	21	100	0	80	40	15	25	20	1.90
5195889--5195988	25	4.0	25	80	5	103	19	22	20	39	1.93
5202414--5202518	51	2.1	51	96	0	192	20	22	34	22	1.97
5205208--5205272	21	3.2	20	77	4	58	53	3	9	33	1.48
5205230--5205308	30	2.6	31	86	7	76	54	3	11	30	1.54
5205250--5205309	30	2.0	29	93	3	102	56	3	10	30	1.48
5206833--5207026	73	2.6	74	83	4	228	34	19	14	31	1.92
5206984--5207192	54	3.8	55	91	5	327	36	19	13	30	1.90

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   298   299   300   301   302   303   304   
          305   306   307   308   309   310