genome.fa.s25.2.7.7.80.10.50.1000.153.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  153  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)
52406052--52406090	18	2.2	18	86	9	53	53	17	0	28	1.44
52407961--52408023	24	2.6	24	80	9	67	25	4	6	63	1.38
52407982--52408038	24	2.4	24	81	0	69	26	3	8	61	1.42
52408228--52408345	23	5.3	21	71	18	71	34	3	2	59	1.28
52408230--52408310	25	3.1	25	76	16	76	35	1	2	60	1.18
52408228--52408306	41	2.0	39	85	9	106	36	1	2	59	1.19
52408253--52408310	14	4.2	14	76	17	59	34	0	3	62	1.12
52408483--52408550	3	22.0	3	79	11	75	30	5	1	61	1.28
52408506--52408566	6	10.3	6	92	1	52	29	6	1	62	1.30
52420986--52421516	44	12.2	44	89	3	799	29	17	31	21	1.96
52422802--52422836	8	4.4	8	100	0	70	51	0	0	48	1.00
52425751--52426068	38	8.3	38	87	2	456	29	25	22	22	1.99
52425751--52426068	78	4.1	76	86	3	456	29	25	22	22	1.99
52425750--52426067	116	2.7	116	94	0	537	29	25	23	22	1.99
52434707--52434747	21	2.0	21	90	0	64	19	29	21	29	1.98
52441093--52441135	16	2.7	15	86	10	59	6	6	2	83	0.88
52441948--52442289	3	112.3	3	66	13	94	27	9	3	59	1.44
52442001--52442041	16	2.7	14	88	11	55	24	17	0	58	1.38
52441977--52442141	89	1.8	89	85	3	231	28	12	1	57	1.45
52442104--52442163	28	2.2	26	82	5	66	28	6	3	61	1.37
52442129--52442201	22	3.4	22	81	5	78	27	9	5	57	1.52
52446612--52446816	27	7.6	27	76	2	155	40	20	9	29	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52446605--52446762	81	2.0	81	89	2	246	41	20	8	29	1.83
52446674--52446832	54	3.0	54	80	3	151	40	20	9	30	1.84
52446799--52446864	27	2.4	27	71	0	69	40	22	6	30	1.78
52446855--52447194	27	12.7	27	79	6	334	36	18	19	25	1.94
52446855--52447193	81	4.2	81	84	3	414	36	18	19	25	1.94
52446868--52447210	54	6.4	53	84	4	393	35	18	20	25	1.95
52447568--52447617	22	2.3	23	79	10	59	22	28	18	32	1.97
52447774--52447838	27	2.4	27	79	5	78	20	21	23	35	1.96
52447986--52448081	6	15.7	6	74	16	81	17	17	16	47	1.82
52447992--52448061	31	2.3	31	89	0	104	17	20	17	45	1.85
52448806--52448839	17	2.0	17	88	0	50	41	2	8	47	1.50
52448929--52448998	29	2.4	30	80	2	79	35	4	17	42	1.69
52454191--52454255	33	2.0	33	85	8	89	44	0	0	55	0.99
52454189--52454270	40	2.0	40	97	0	155	42	0	0	57	0.98
52456041--52456066	6	4.3	6	100	0	52	61	0	0	38	0.96
52466228--52467036	3	269.7	3	100	0	1618	33	0	0	66	0.92
52467189--52467237	23	2.0	26	88	11	77	48	0	20	30	1.50
52478842--52478881	21	1.9	21	85	10	55	22	7	15	55	1.65
52488781--52488824	13	3.5	13	87	3	63	34	0	0	65	0.93
52488792--52488839	15	2.8	18	73	23	50	37	0	0	62	0.95
52488804--52488847	21	2.0	23	82	8	56	43	0	0	56	0.99
52490170--52490201	3	10.7	3	100	0	64	0	34	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52496667--52496706	21	1.9	21	100	0	80	27	15	27	30	1.96
52497528--52497560	3	11.0	3	100	0	66	0	33	0	66	0.92
52500494--52500563	28	2.5	27	81	11	70	44	1	2	51	1.25
52505316--52505500	50	3.7	50	99	0	361	16	32	23	26	1.96
52505595--52505626	13	2.5	13	94	0	55	56	12	0	31	1.37
52505838--52505895	30	1.9	30	89	0	89	31	24	3	41	1.71
52518995--52519142	73	2.0	73	89	0	224	35	24	7	32	1.83
52520248--52520341	19	4.8	19	70	13	66	27	3	1	68	1.12
52524599--52524650	24	2.2	24	89	0	77	57	11	0	30	1.34
52526566--52526617	24	2.2	24	85	0	68	55	11	1	30	1.46
52530814--52530861	25	1.9	25	83	8	62	47	6	4	41	1.48
52530891--52530959	31	2.3	30	80	9	77	44	8	8	37	1.66
52532221--52532621	200	2.0	200	99	0	793	26	20	15	38	1.92
52537351--52537535	46	4.0	46	90	0	289	36	9	24	29	1.88
52540800--52541048	50	4.8	50	84	4	275	20	28	24	26	1.99
52540799--52541048	100	2.4	104	87	6	348	20	28	24	26	1.99
52541143--52541174	13	2.5	13	94	0	55	56	12	0	31	1.37
52541386--52541443	30	1.9	30	85	0	80	32	20	3	43	1.69
52555209--52555248	16	2.4	16	83	4	53	57	2	2	37	1.26
52558096--52558138	5	9.4	5	90	10	58	0	18	0	81	0.69
52558096--52558144	9	5.4	9	85	7	64	2	18	0	79	0.83
52563014--52563115	29	3.7	27	76	16	86	51	0	0	46	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52563009--52563091	28	3.0	28	76	16	84	50	1	1	46	1.16
52563014--52563103	29	3.1	29	79	7	87	51	1	1	46	1.15
52563227--52563331	34	3.1	34	92	0	183	15	26	18	40	1.90
52565547--52565593	12	3.9	12	88	0	67	25	17	0	57	1.40
52565538--52565591	24	2.3	24	93	3	92	24	12	0	62	1.30
52570392--52570520	50	2.5	51	86	7	174	37	15	22	24	1.93
52570496--52570640	31	4.7	31	88	3	220	28	17	27	26	1.97
52570673--52570786	42	2.6	45	80	12	146	28	15	27	28	1.96
52572987--52573058	34	2.1	34	84	2	92	58	12	1	27	1.43
52573092--52573131	20	2.0	21	90	5	64	52	12	2	32	1.52
52573525--52573615	25	3.7	24	68	20	71	37	2	2	58	1.23
52573741--52573775	16	2.2	16	89	0	52	28	11	5	54	1.59
52578261--52578309	22	2.2	22	81	0	62	22	10	8	59	1.56
52599699--52599745	24	1.9	24	82	4	58	40	8	23	27	1.83
52599795--52599831	16	2.2	18	86	13	53	8	10	5	75	1.17
52599807--52600051	121	2.0	121	98	0	472	29	15	13	40	1.86
52600208--52600402	99	2.0	97	96	2	363	39	8	22	30	1.83
52600243--52600403	51	3.2	51	61	21	122	41	9	21	27	1.84
52600420--52600618	95	2.1	94	95	2	364	22	23	11	41	1.86
52609342--52609838	249	2.0	248	96	0	913	38	18	20	22	1.94
52610357--52610595	118	2.0	117	97	1	453	39	19	20	20	1.93
52611104--52611139	11	3.4	11	96	3	65	86	5	8	0	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52612002--52612574	74	7.7	75	85	5	731	29	16	23	30	1.96
52612448--52612689	127	1.9	128	92	1	405	30	16	26	26	1.97
52612523--52612628	54	2.0	54	94	0	185	31	17	32	18	1.95
52612575--52612958	75	5.0	74	76	11	364	28	16	21	33	1.95
52612381--52612776	202	2.0	200	89	2	614	28	17	25	28	1.98
52612810--52612947	72	1.9	74	85	5	192	31	16	21	30	1.95
52612938--52612972	14	2.5	14	100	0	70	17	20	5	57	1.60
52612631--52613035	158	2.5	159	81	6	476	28	16	20	34	1.94
52612881--52613123	88	2.7	89	86	8	316	27	17	20	33	1.95
52613492--52613528	16	2.2	18	86	13	53	8	10	5	75	1.17
52616635--52616713	40	1.9	42	92	5	135	39	11	3	45	1.58
52617668--52617718	21	2.5	22	70	23	56	31	1	5	60	1.31
52619361--52619415	27	2.0	27	100	0	110	50	9	25	14	1.72
52621795--52621905	55	2.1	54	89	6	172	26	19	10	43	1.84
52634997--52635029	13	2.5	13	85	14	50	15	9	0	75	1.03
52636734--52636768	18	1.9	18	100	0	70	65	28	0	5	1.15
52636741--52636785	23	2.0	23	81	0	54	55	40	0	4	1.20
52639140--52639248	42	2.6	42	76	5	121	39	17	17	25	1.91
52641303--52641334	15	2.1	15	100	0	64	59	6	25	9	1.52
52642194--52642262	34	2.0	34	91	0	111	33	7	15	43	1.75
52655625--52655690	33	2.0	32	97	2	123	37	21	15	25	1.92
52658177--52658242	33	2.0	32	97	2	123	37	21	15	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52658848--52658955	26	4.2	26	91	0	180	33	7	23	36	1.83
52660442--52660494	26	2.0	26	85	7	72	37	22	15	24	1.92
52662198--52662309	48	2.3	48	80	3	118	34	25	17	22	1.96
52662881--52662923	21	2.1	21	86	4	61	48	23	2	25	1.62
52664203--52664285	41	2.0	41	85	0	112	39	27	16	15	1.89
52665079--52665103	10	2.5	10	100	0	50	24	0	8	68	1.16
52667648--52667685	19	2.0	19	85	10	51	55	2	0	42	1.14
52668262--52668310	25	2.0	25	84	4	64	63	4	0	32	1.13
52668274--52668338	25	2.9	23	80	17	75	66	7	0	26	1.19
52668300--52668338	19	2.0	20	95	5	71	71	10	0	17	1.12

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