genome.fa.s9.2.7.7.80.10.50.1000.98.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  98  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)
32385300--32385347	24	2.0	25	83	4	62	16	0	27	56	1.41
32385474--32385900	126	3.4	126	90	0	651	38	14	18	28	1.90
32389026--32389222	61	3.3	59	71	18	174	54	5	3	37	1.40
32388948--32389298	117	3.0	117	92	2	580	55	4	4	35	1.41
32389403--32389442	21	1.9	21	89	0	62	10	7	40	42	1.67
32389802--32389867	30	2.2	30	83	0	78	10	19	42	27	1.84
32390364--32390389	7	3.7	7	100	0	52	57	15	0	26	1.38
32391535--32391574	21	1.9	21	90	10	64	45	7	22	25	1.78
32391564--32391607	11	4.1	11	88	11	65	45	0	34	20	1.51
32394336--32394378	20	2.1	21	87	12	63	37	11	9	41	1.74
32398921--32399075	63	2.4	63	81	9	177	23	28	16	30	1.96
32398977--32399103	68	1.9	68	83	6	168	23	29	15	31	1.96
32402191--32402227	18	2.1	18	89	0	56	35	13	10	40	1.80
32406738--32406896	27	5.9	27	78	11	157	33	22	25	19	1.97
32406773--32406896	54	2.3	54	92	0	212	33	23	26	16	1.96
32407001--32407063	26	2.3	26	83	5	72	30	7	23	38	1.84
32408812--32408919	26	4.2	26	93	0	189	36	24	7	32	1.83
32411455--32411514	21	2.9	21	87	5	77	63	0	0	36	0.95
32411448--32411544	29	3.4	29	73	18	78	63	1	1	34	1.08
32411580--32411634	19	2.8	21	78	13	71	65	0	5	29	1.15
32411440--32411630	10	19.4	10	65	20	64	63	1	4	30	1.23
32413254--32413302	25	1.9	26	83	4	64	69	8	2	20	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32417571--32417829	110	2.4	110	81	2	306	39	15	10	34	1.81
32417910--32418152	132	1.8	131	83	2	317	39	15	9	35	1.80
32418793--32418843	24	2.1	24	92	0	84	50	0	7	41	1.31
32418955--32418985	11	2.8	11	95	0	53	45	3	19	32	1.66
32420243--32420306	31	2.1	31	82	5	76	29	15	23	31	1.95
32421310--32421366	30	1.9	30	92	0	96	12	22	40	24	1.88
32423170--32423262	6	15.3	6	68	16	50	75	3	2	19	1.05
32423192--32423387	6	30.7	6	71	14	76	73	4	2	19	1.12
32423301--32423393	9	11.2	8	81	14	93	81	1	0	17	0.75
32423312--32423387	6	11.8	6	89	8	82	82	0	0	17	0.66
32423302--32423390	7	13.1	7	84	9	98	82	1	0	16	0.74
32423426--32423478	5	10.2	5	78	11	54	71	1	0	26	0.96
32423337--32423478	7	17.6	8	70	20	61	70	0	2	26	1.03
32423170--32423475	17	16.9	18	65	22	62	70	3	2	22	1.16
32426440--32426466	10	2.7	10	100	0	54	51	7	0	40	1.30
32427762--32427791	10	3.1	10	90	9	53	60	0	20	20	1.37
32427867--32427903	18	2.1	18	94	0	65	64	0	18	16	1.29
32428053--32428122	26	2.7	26	90	0	113	38	7	18	35	1.78
32429244--32429446	101	2.0	101	98	0	388	29	19	19	31	1.97
32430515--32430544	14	2.1	14	100	0	60	23	13	20	43	1.86
32440321--32440416	28	3.4	28	76	11	79	62	3	6	28	1.34
32443190--32443761	290	2.0	290	98	0	1117	33	17	13	35	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32452092--32452174	18	4.1	20	68	28	52	45	3	28	21	1.68
32452103--32452196	18	4.8	18	72	22	73	47	1	27	23	1.58
32452088--32452173	42	2.0	42	93	0	145	46	3	26	23	1.68
32452151--32452204	13	4.3	12	78	15	56	48	0	27	24	1.52
32455592--32455654	26	2.3	29	83	13	96	33	14	14	38	1.86
32455607--32455664	27	2.2	26	84	3	71	36	15	12	36	1.85
32457841--32457868	5	5.6	5	100	0	56	39	0	0	60	0.97
32457844--32457881	12	3.3	12	89	7	53	39	0	2	57	1.12
32459576--32459680	45	2.3	45	86	0	147	20	18	18	42	1.89
32459804--32459991	18	10.4	18	75	6	139	36	11	14	37	1.83
32459789--32459991	54	3.8	54	76	6	160	36	11	13	37	1.81
32459789--32460084	36	8.0	36	71	9	184	36	11	14	37	1.83
32459789--32460084	18	16.1	18	69	8	130	36	11	14	37	1.83
32460488--32460556	32	2.1	33	94	2	122	31	13	15	39	1.86
32460840--32460868	9	3.0	10	90	10	51	58	0	20	20	1.39
32461123--32461185	26	2.4	26	81	5	74	41	9	14	34	1.78
32461334--32461405	35	2.1	35	100	0	144	40	22	18	19	1.92
32469913--32469941	14	2.0	15	93	6	51	24	0	0	75	0.80
32475091--32475130	2	20.0	2	100	0	80	50	50	0	0	1.00
32477558--32477602	10	4.5	10	88	0	72	66	0	11	22	1.22
32477930--32477973	22	2.0	22	100	0	88	40	13	13	31	1.84
32479192--32479229	14	2.7	14	95	0	67	36	7	7	47	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32479700--32479761	27	2.3	26	78	8	70	37	0	11	51	1.38
32479757--32479788	10	3.3	10	95	4	57	31	6	0	62	1.20
32485875--32485932	3	20.3	3	79	10	68	24	0	0	75	0.80
32485882--32485953	22	3.0	24	78	12	76	26	0	0	73	0.83
32485878--32485942	31	2.1	32	88	8	98	24	0	0	75	0.81
32485875--32485936	22	2.9	22	87	2	81	24	0	0	75	0.80
32485865--32485955	15	6.5	15	75	20	65	28	0	0	71	0.86
32485872--32485953	9	9.8	8	75	17	69	26	0	0	73	0.84
32488433--32488714	115	2.4	115	97	1	521	23	15	30	29	1.95
32488764--32488788	9	2.8	9	100	0	50	92	0	8	0	0.40
32490636--32490717	31	2.6	31	88	0	128	13	34	29	23	1.93
32492663--32492738	31	2.5	31	82	0	107	39	7	23	28	1.83
32495462--32495579	57	2.1	58	86	1	166	27	20	6	44	1.76
32497473--32497578	52	2.0	52	96	0	194	48	16	12	23	1.79
32503084--32503142	22	2.6	23	73	10	59	23	16	28	30	1.97
32504174--32504330	56	2.8	56	99	0	305	46	8	22	22	1.78
32508128--32508254	64	2.0	64	98	0	245	33	18	24	23	1.96
32512069--32512240	79	2.2	79	84	3	220	25	21	27	25	1.99
32512016--32512238	40	5.6	39	81	8	209	25	21	27	25	1.99
32512096--32512273	79	2.2	80	80	3	191	25	21	28	24	1.99
32516368--32516460	46	2.0	46	97	0	177	31	15	31	22	1.94
32524285--32524309	9	2.8	9	100	0	50	44	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32525551--32525590	20	2.0	20	85	9	55	75	0	7	17	1.03
32528248--32528354	52	2.1	52	100	0	214	41	17	12	28	1.86
32532667--32532733	30	2.3	30	94	2	118	53	13	2	29	1.54
32534094--32534153	26	2.3	26	82	5	68	30	11	10	48	1.72
32535021--32535062	20	2.1	20	100	0	84	40	21	14	23	1.90
32536188--32536214	14	1.9	14	100	0	54	37	0	18	44	1.50
32536511--32536554	22	2.0	22	86	0	61	52	0	0	47	1.00
32536574--32536615	13	2.9	14	80	13	50	54	0	0	45	0.99
32536578--32536614	16	2.3	16	86	13	58	59	0	0	40	0.97
32536647--32536698	15	3.2	15	73	19	50	53	1	0	44	1.11
32548889--32548919	11	2.8	11	95	0	53	19	48	3	29	1.64
32549467--32549523	18	3.2	18	92	0	96	26	24	17	31	1.97
32553577--32553607	11	2.8	11	95	0	53	19	48	3	29	1.64
32554825--32554854	7	4.1	7	95	4	51	40	0	0	60	0.97
32557857--32557947	47	1.9	48	84	10	125	52	0	12	35	1.39
32558737--32559015	129	2.2	129	99	0	549	37	12	13	35	1.83
32560552--32560611	14	4.1	14	76	23	61	31	46	13	8	1.72
32560555--32560636	30	2.7	30	88	3	110	36	40	13	9	1.78
32560566--32560639	30	2.5	30	90	0	112	35	40	13	10	1.80
32560555--32560659	30	3.5	28	79	12	93	33	40	15	10	1.81
32560716--32560758	18	2.4	18	88	0	59	18	27	6	46	1.75
32564944--32565692	126	6.0	126	93	0	1284	26	20	18	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32565690--32565730	19	2.2	19	86	4	57	43	19	2	34	1.64
32565803--32565875	19	3.8	19	78	7	67	45	20	2	31	1.65
32565932--32565989	7	8.3	7	76	14	57	50	36	0	13	1.42
32565932--32565989	14	4.1	15	75	20	63	50	36	0	13	1.42
32565931--32565989	21	2.8	21	100	0	118	49	35	0	15	1.45
32566218--32566263	21	2.1	22	84	11	60	65	0	4	30	1.12
32569428--32569553	47	2.7	47	82	8	150	30	15	22	30	1.95
32569522--32569604	42	2.0	43	87	2	123	37	14	25	22	1.92
32573678--32573712	17	2.1	17	94	0	61	28	8	17	45	1.77
32578873--32578911	3	13.0	3	100	0	78	0	33	0	66	0.92

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