genome.fa.s8.2.7.7.80.10.50.1000.171.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  171  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)
56658188--56658264	39	2.0	39	97	0	145	25	15	23	35	1.94
56663617--56663742	28	4.5	28	85	2	164	30	12	24	31	1.92
56664439--56664954	70	7.3	70	87	5	686	26	15	16	41	1.88
56664439--56664935	47	10.6	48	69	16	217	26	15	15	41	1.87
56664736--56664783	25	1.9	25	82	0	60	27	14	18	39	1.90
56664439--56664984	212	2.6	209	89	4	830	26	15	16	41	1.88
56668887--56669004	42	2.8	42	80	6	123	30	26	19	23	1.98
56668887--56669044	43	3.7	44	76	9	141	30	26	18	24	1.98
56670526--56670616	43	2.1	43	97	0	173	46	10	9	32	1.72
56670814--56670913	41	2.5	38	75	15	87	47	7	1	45	1.37
56671648--56671695	16	3.0	16	84	0	69	39	6	25	29	1.80
56674857--56674939	3	27.3	3	87	2	112	36	4	0	59	1.19
56680283--56681301	44	23.0	44	79	4	1037	29	24	14	31	1.95
56680283--56681301	133	7.7	131	80	5	1010	29	24	14	31	1.95
56680283--56681301	89	11.5	86	82	4	923	29	24	14	31	1.95
56683547--56683589	18	2.4	18	84	0	50	65	6	16	11	1.46
56685256--56685302	24	2.0	24	83	8	60	17	34	12	36	1.87
56690408--56690438	5	6.2	5	100	0	62	38	0	0	61	0.96
56696756--56696793	17	2.2	17	100	0	76	39	10	26	23	1.87
56696803--56696827	13	1.9	13	100	0	50	72	0	0	28	0.86
56702590--56702761	42	4.1	42	81	3	125	44	16	23	15	1.85
56702616--56702725	21	5.2	21	74	0	94	42	17	23	16	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56705886--56705973	31	3.0	31	68	19	98	51	13	9	26	1.71
56706129--56706194	31	2.1	31	83	5	80	40	13	10	34	1.79
56706791--56706828	17	2.2	17	90	0	58	39	0	0	60	0.97
56709788--56709814	2	13.5	2	100	0	54	51	0	0	48	1.00
56714087--56714140	25	2.0	28	82	10	69	48	1	1	48	1.23
56716562--56716629	35	1.9	35	93	0	118	35	16	30	17	1.92
56718555--56718585	16	1.9	16	100	0	62	0	38	16	45	1.47
56725632--56725696	30	2.2	30	86	5	87	46	9	13	30	1.75
56727092--56727121	3	10.0	3	100	0	60	66	0	0	33	0.92
56729990--56730051	22	2.7	22	90	5	88	48	1	1	48	1.21
56730025--56730081	16	3.6	16	90	0	87	47	3	3	45	1.37
56730135--56730191	28	2.1	27	86	3	78	40	3	7	49	1.47
56730131--56730288	83	2.0	82	86	12	229	39	4	7	48	1.52
56730131--56730240	40	2.8	40	73	18	133	37	4	8	50	1.53
56730335--56730381	22	2.1	22	84	7	60	57	4	2	36	1.30
56737734--56738599	49	17.6	48	64	10	300	34	21	19	23	1.97
56737729--56738699	98	9.8	98	84	2	1140	33	21	20	24	1.97
56737729--56738699	197	4.9	196	87	2	1169	33	21	20	24	1.97
56738787--56738979	88	2.3	83	81	6	217	28	20	23	26	1.99
56738750--56738948	44	4.6	43	77	7	188	29	21	24	25	1.99
56739353--56739378	4	6.5	4	100	0	52	76	0	23	0	0.78
56740535--56740570	3	11.7	3	94	5	63	30	2	0	66	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56740748--56740788	3	13.7	3	100	0	82	31	0	0	68	0.90
56742493--56742546	26	2.1	26	96	0	99	31	7	1	59	1.36
56742504--56742549	14	3.4	14	76	11	60	30	6	0	63	1.20
56746034--56746122	26	3.7	25	78	11	105	55	4	2	38	1.33
56755767--56755791	10	2.5	10	100	0	50	60	20	8	12	1.57
56758892--56758940	25	2.0	25	100	0	98	38	8	4	48	1.52
56759340--56759365	5	5.2	5	100	0	52	38	0	0	61	0.96
56759542--56759566	12	2.1	12	100	0	50	24	36	24	16	1.94
56759726--56759793	9	7.4	9	86	3	91	39	27	10	22	1.86
56760005--56760048	23	2.0	20	83	12	52	29	4	0	65	1.12
56764804--56764874	30	2.4	30	83	9	83	45	2	7	45	1.45
56774867--56775016	75	2.0	75	97	0	282	34	15	26	24	1.95
56776180--56776298	33	3.6	33	68	6	89	30	17	25	26	1.97
56778816--56778869	27	2.0	27	100	0	108	40	37	3	18	1.69
56781740--56781800	31	2.0	31	90	0	95	42	16	9	31	1.81
56783615--56783656	21	2.0	21	90	9	68	4	0	42	52	1.22
56783616--56783671	14	4.0	14	76	15	53	5	0	39	55	1.23
56783616--56783657	7	6.0	7	83	10	59	2	0	42	54	1.13
56783698--56784002	96	3.2	95	87	5	461	39	2	19	39	1.65
56784036--56784329	126	2.3	126	92	0	489	32	19	21	26	1.97
56785819--56785915	34	2.9	34	98	0	185	43	6	5	45	1.51
56788970--56789012	11	3.9	11	93	0	68	27	32	0	39	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56789010--56789054	24	1.9	24	90	4	74	31	8	4	55	1.51
56790156--56790193	20	1.9	20	100	0	76	28	10	13	47	1.76
56790183--56790208	7	3.7	7	100	0	52	26	0	15	57	1.38
56791794--56791993	33	5.5	33	69	22	123	21	18	27	33	1.96
56791715--56791993	75	3.7	75	91	0	441	21	18	27	32	1.97
56797166--56797231	17	3.7	17	74	18	71	63	1	3	31	1.19
56797166--56797239	17	4.2	17	73	19	62	64	1	2	31	1.15
56797214--56797319	50	2.1	52	84	5	137	57	5	7	29	1.49
56798936--56799226	126	2.3	125	89	1	456	28	19	17	34	1.95
56799273--56799501	96	2.4	96	89	3	363	38	18	2	41	1.63
56799567--56799613	16	2.9	17	84	9	62	48	27	0	23	1.51
56805855--56805943	46	1.9	46	86	4	126	31	14	16	37	1.89
56813722--56813769	22	2.2	22	81	7	53	39	2	2	56	1.23
56813763--56813810	24	2.0	24	83	0	60	62	0	8	29	1.24
56814340--56814370	16	1.9	16	100	0	62	0	38	16	45	1.47
56817271--56817297	13	2.1	13	100	0	54	29	14	22	33	1.94
56819367--56819412	21	2.2	21	88	3	67	36	6	0	56	1.25
56822580--56822611	16	2.0	16	100	0	64	75	0	0	25	0.81
56824150--56824193	24	1.9	22	81	9	52	38	9	13	38	1.77
56828631--56828696	25	2.9	23	77	8	64	36	0	3	60	1.12
56828668--56828707	21	1.9	21	84	0	53	35	0	2	62	1.09
56837252--56837295	23	1.9	23	86	9	63	38	22	4	34	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56838659--56838836	41	4.0	45	75	16	151	28	27	17	26	1.98
56838678--56838850	43	4.0	44	75	14	164	28	27	18	25	1.98
56845877--56845919	15	2.9	14	76	10	50	53	25	0	20	1.46
56849297--56849358	31	2.0	31	93	0	106	25	8	16	50	1.72
56853622--56853656	15	2.3	15	90	0	52	48	2	8	40	1.49
56854284--56855418	500	2.3	492	79	5	1180	36	11	13	38	1.81
56857495--56857556	22	2.7	22	90	5	88	48	1	1	48	1.21
56857530--56857586	16	3.6	16	90	0	87	47	3	3	45	1.37
56857569--56857710	70	2.0	70	100	0	284	40	9	2	46	1.52
56857867--56857913	22	2.1	22	84	7	60	57	4	2	36	1.30
56859621--56859668	19	2.5	19	89	3	69	37	0	6	56	1.25
56860989--56861045	21	2.6	22	91	8	82	42	15	7	35	1.75
56860998--56861045	21	2.3	21	100	0	96	43	16	8	31	1.78
56870901--56871103	46	4.3	46	80	13	207	35	14	21	28	1.92
56870909--56871092	98	1.9	91	87	7	260	35	15	20	28	1.94
56870850--56871140	105	3.1	98	81	14	335	35	14	21	27	1.93
56871020--56871214	74	2.5	83	83	11	250	36	15	21	26	1.93
56871067--56871212	37	4.0	37	93	1	242	36	16	21	24	1.94
56871903--56871949	19	2.6	18	80	12	51	44	0	4	51	1.21
56871909--56871956	19	2.5	19	89	3	69	37	0	6	56	1.25
56876345--56876391	21	2.2	22	92	3	78	21	19	38	21	1.94
56879118--56879163	11	4.5	11	76	15	53	76	8	0	15	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56879121--56879160	20	2.0	21	85	5	55	80	5	0	15	0.88
56879296--56879331	15	2.3	16	90	4	56	25	2	2	69	1.15
56879627--56879684	30	1.9	30	100	0	116	60	8	6	24	1.51
56889206--56889246	22	1.9	22	95	5	75	60	0	0	39	0.96
56889235--56889375	11	13.9	11	68	24	87	53	0	3	41	1.23
56889221--56889268	17	2.9	17	73	20	57	56	0	0	43	0.99
56889235--56889385	40	3.8	40	97	0	266	54	0	3	41	1.21
56889307--56889364	29	2.0	29	90	6	91	55	0	5	39	1.22
56889219--56889403	80	2.3	79	84	10	257	56	0	2	40	1.17
56892071--56892249	71	2.5	72	80	9	206	40	17	12	29	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