genome.fa.s9.2.7.7.80.10.50.1000.159.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_chr10
Parameters: 2 7 7 80 10 50 1000
Length:  95480121

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   

This is table  159  of  284  ( 34012 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)
53328623--53328761	53	2.6	55	87	4	194	34	23	24	17	1.96
53330281--53330365	43	2.0	43	97	0	161	31	20	9	38	1.84
53330424--53330504	26	3.2	26	79	10	105	38	27	3	30	1.74
53335862--53335906	19	2.3	19	84	3	54	26	6	4	62	1.39
53338322--53338462	73	1.9	73	97	0	264	34	9	26	29	1.87
53340326--53340386	21	2.8	21	80	5	68	37	26	21	14	1.92
53340313--53340400	44	2.1	41	82	6	104	39	21	20	18	1.92
53341270--53341307	17	2.2	17	86	9	51	36	21	0	42	1.53
53341575--53341599	9	2.8	9	100	0	50	56	0	8	36	1.29
53349896--53349926	12	2.5	13	94	5	55	16	25	0	58	1.38
53351813--53351851	18	2.0	20	85	14	55	48	0	5	46	1.24
53357745--53357812	33	2.1	33	97	0	127	29	22	8	39	1.84
53360837--53360941	23	4.3	25	72	18	80	33	20	20	25	1.97
53360837--53360941	22	4.3	23	79	9	86	33	20	20	25	1.97
53362918--53362993	40	1.9	40	91	0	125	38	25	7	28	1.84
53366613--53366990	50	7.5	50	75	4	357	26	16	25	30	1.97
53366606--53366998	151	2.6	151	90	1	635	26	17	25	30	1.97
53367196--53367227	16	2.0	16	93	0	55	46	0	18	34	1.49
53367555--53367882	181	1.8	181	88	1	505	37	10	17	35	1.83
53371872--53372024	41	3.7	41	82	8	175	29	25	16	28	1.97
53371872--53372034	42	3.9	42	83	6	170	28	24	17	29	1.97
53376540--53376715	46	3.8	46	75	11	171	21	18	28	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53376537--53376707	93	1.8	93	87	5	256	21	18	29	30	1.97
53380065--53380248	40	4.6	41	81	12	199	26	22	26	24	2.00
53380117--53380281	79	2.1	79	82	8	194	27	21	26	24	1.99
53382368--53382524	43	3.7	43	76	5	149	27	16	22	33	1.96
53382690--53382727	20	1.9	20	84	10	51	34	0	23	42	1.55
53393364--53393459	42	2.3	43	85	1	131	26	18	25	30	1.98
53393319--53393477	43	3.7	43	75	7	144	25	18	24	32	1.97
53393631--53393686	19	2.9	19	71	10	51	33	3	23	39	1.72
53393643--53393680	20	1.9	20	84	10	51	34	0	23	42	1.55
53398729--53398758	15	1.9	16	93	6	53	40	26	0	33	1.57
53398945--53399094	43	3.5	43	90	2	214	29	23	16	30	1.96
53398921--53399126	43	4.9	42	85	3	209	29	24	16	29	1.97
53398921--53399124	85	2.4	85	80	5	207	29	24	16	29	1.96
53400645--53400690	24	2.0	23	83	12	58	10	4	30	54	1.55
53401185--53401230	16	2.8	16	83	9	58	36	2	0	60	1.09
53401155--53401230	17	4.9	15	74	22	61	31	1	2	64	1.15
53401658--53401720	10	6.4	10	76	9	58	31	1	1	65	1.12
53401667--53401746	19	4.2	19	78	9	67	28	1	2	67	1.11
53401674--53401746	20	3.7	19	82	8	85	30	1	2	65	1.15
53404826--53404852	2	13.5	2	100	0	54	0	51	0	48	1.00
53408123--53408170	16	3.0	16	87	0	69	58	6	12	22	1.57
53408248--53408283	15	2.4	16	82	17	51	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53409776--53409801	8	3.2	8	100	0	52	76	0	23	0	0.78
53410006--53410125	48	2.5	48	90	5	181	15	36	13	35	1.86
53413021--53413045	9	2.8	9	100	0	50	24	0	0	76	0.80
53413247--53413284	19	2.0	20	94	5	69	15	0	10	73	1.09
53420308--53420424	62	1.9	62	86	5	168	49	4	4	41	1.42
53421766--53421797	15	2.1	15	94	0	55	68	9	6	15	1.36
53422953--53423004	23	2.3	23	86	0	68	34	5	36	23	1.79
53441153--53441282	57	2.3	57	84	0	179	33	15	23	26	1.95
53448056--53448162	53	2.0	53	98	0	205	30	15	26	27	1.96
53450685--53450910	48	4.7	48	86	2	319	36	28	15	19	1.93
53453754--53453928	47	3.8	45	78	8	165	22	28	18	29	1.98
53453754--53453926	94	1.8	94	85	2	240	23	28	19	29	1.98
53455838--53455881	19	2.2	19	84	8	52	38	20	4	36	1.73
53456942--53457217	137	2.0	135	98	1	534	43	15	18	23	1.88
53461378--53461403	12	2.2	12	100	0	52	42	0	7	50	1.31
53463694--53463719	13	2.0	13	100	0	52	38	30	7	23	1.83
53467514--53467554	21	2.0	21	90	0	64	17	24	17	41	1.89
53469105--53469155	21	2.4	21	90	0	84	19	29	11	39	1.87
53474520--53474633	27	4.2	26	81	8	113	33	21	25	19	1.97
53474532--53474633	27	3.7	28	84	3	118	32	21	26	19	1.97
53494561--53494635	21	3.5	21	70	22	57	5	22	1	70	1.15
53494663--53494719	25	2.3	24	81	3	60	40	5	0	54	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53497974--53498131	45	3.7	43	78	8	171	30	28	17	24	1.97
53503267--53503376	41	2.6	42	82	4	141	30	16	26	27	1.97
53503260--53503379	42	2.9	42	81	5	152	30	15	25	27	1.96
53506487--53506602	48	2.4	48	85	0	151	25	22	28	23	1.99
53534133--53534245	9	11.8	9	68	21	61	68	2	1	27	1.13
53534161--53534234	10	7.3	10	73	14	71	66	1	2	29	1.14
53534133--53534234	20	5.3	19	75	15	79	68	1	1	27	1.11
53534471--53534523	9	5.7	10	80	13	60	30	3	0	66	1.10
53534490--53534570	9	8.7	9	74	12	65	32	2	2	62	1.21
53534485--53534569	29	3.0	28	81	5	100	34	2	2	61	1.22
53534697--53534881	92	2.0	90	81	7	212	37	10	16	35	1.83
53538301--53538519	46	4.7	45	76	9	183	22	27	19	30	1.98
53538163--53538514	140	2.5	142	80	7	383	23	28	19	29	1.98
53541732--53541770	19	2.0	20	85	5	53	33	0	10	56	1.33
53541703--53541814	59	1.9	59	88	0	170	25	8	14	51	1.69
53548741--53548862	47	2.6	47	92	0	199	36	14	22	25	1.93
53548852--53549257	55	7.4	54	71	15	266	34	17	24	23	1.96
53548788--53549243	208	2.1	213	90	5	715	35	16	23	23	1.95
53548788--53549119	101	3.2	101	77	9	391	35	15	23	24	1.94
53549106--53549131	12	2.2	12	100	0	52	50	7	19	23	1.73
53549126--53549257	53	2.4	55	83	7	173	34	19	25	20	1.96
53549480--53549516	9	4.1	9	85	0	56	45	16	10	27	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53550733--53550786	25	2.2	25	100	0	108	38	7	25	27	1.83
53567602--53567692	35	2.5	37	83	8	114	41	9	12	36	1.76
53567602--53567692	19	4.9	19	85	8	125	41	9	12	36	1.76
53567602--53567716	19	5.9	22	82	12	80	40	8	13	37	1.75
53568177--53568241	20	3.1	20	71	20	53	18	9	10	61	1.54
53575524--53576060	107	5.0	107	98	0	1029	43	5	9	42	1.60
53577913--53577960	4	12.8	4	75	20	50	20	0	2	77	0.88
53577902--53577946	23	2.0	23	100	0	90	20	0	4	75	0.97
53577911--53577956	10	4.3	10	79	15	56	19	0	2	78	0.86
53577905--53577953	23	2.2	23	92	3	82	22	0	4	73	1.00
53577956--53578043	22	3.8	22	74	18	72	42	0	2	55	1.12
53578031--53578088	21	2.7	22	84	10	75	41	0	0	58	0.98
53577989--53578070	35	2.3	35	85	8	105	43	0	0	56	0.99
53578034--53578095	20	3.0	22	72	25	62	45	0	0	54	0.99
53578151--53578221	10	6.5	11	76	17	51	38	1	2	57	1.22
53578205--53578235	16	2.0	15	93	6	53	45	0	0	54	0.99
53578144--53578318	52	3.3	51	71	13	131	39	2	2	55	1.27
53578290--53578332	16	2.8	16	86	13	63	39	0	0	60	0.97
53578322--53578389	22	3.1	21	79	6	64	44	1	1	52	1.19
53578348--53578394	21	2.3	20	78	10	51	40	0	0	59	0.97
53584649--53584763	27	4.3	26	77	9	106	37	21	22	18	1.94
53584649--53584763	54	2.1	54	84	6	144	37	21	22	18	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53586381--53586490	26	4.2	26	96	0	184	36	24	5	33	1.79
53598322--53598465	46	3.2	46	85	3	157	20	20	15	43	1.88
53598345--53598480	46	3.0	46	87	2	175	21	22	14	41	1.89
53600906--53600973	30	2.3	30	84	5	84	27	19	4	48	1.68
53607206--53607248	16	2.6	16	82	13	52	81	11	6	0	0.87
53610307--53610360	27	2.0	27	92	0	90	42	20	11	25	1.85
53611370--53611429	23	2.6	23	84	5	68	45	16	13	25	1.84
53617756--53617802	24	2.0	24	91	0	76	36	2	38	23	1.67
53619225--53619331	27	3.9	27	82	9	128	15	23	22	38	1.93
53619225--53619334	54	2.0	54	87	3	159	15	23	21	39	1.92

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