genome.fa.s4.2.7.7.80.10.50.1000.85.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_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

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   

This is table  85  of  235  ( 28198 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)
29546270--29546352	27	3.1	27	78	0	85	21	26	12	39	1.88
29549579--29549618	19	2.0	20	85	4	55	67	15	2	15	1.34
29549579--29549618	20	2.0	20	85	9	55	67	15	2	15	1.34
29562822--29562855	15	2.2	16	89	5	52	55	5	17	20	1.62
29564491--29564627	60	2.3	60	85	8	172	26	25	19	28	1.99
29564490--29564591	28	3.5	27	71	19	80	24	28	20	26	1.99
29565244--29565291	8	6.0	8	92	0	69	6	25	18	50	1.70
29565244--29565291	16	3.0	16	90	0	78	6	25	18	50	1.70
29565246--29565291	24	1.9	24	100	0	92	4	23	19	52	1.64
29575277--29575562	142	2.0	142	98	0	554	38	7	22	31	1.82
29577263--29577784	49	10.9	49	94	2	866	28	30	9	31	1.88
29577263--29577781	192	2.7	192	92	1	898	28	30	9	31	1.89
29580053--29580205	48	3.2	48	83	1	173	25	16	30	26	1.97
29584794--29585048	55	4.8	54	77	9	242	36	17	24	22	1.95
29584801--29585001	108	1.8	110	87	4	300	34	17	24	23	1.96
29585240--29585270	16	1.9	16	93	0	53	41	0	22	35	1.54
29589551--29589876	48	6.8	48	88	2	451	23	17	30	28	1.97
29597826--29597862	19	1.9	19	94	0	65	37	0	8	54	1.30
29608109--29608138	14	2.1	14	93	0	51	56	0	0	43	0.99
29611535--29611674	61	2.3	61	82	10	171	42	12	6	37	1.69
29625267--29625340	26	2.8	26	70	13	62	40	1	1	56	1.16
29627197--29627230	14	2.4	14	95	0	59	47	0	2	50	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29630443--29630566	43	2.9	43	74	1	133	29	24	17	29	1.97
29632224--29632298	28	2.7	28	87	0	105	36	13	22	28	1.92
29632653--29632727	28	2.7	28	87	0	105	36	13	22	28	1.92
29632051--29632910	429	2.0	429	100	0	1720	33	12	21	33	1.91
29633137--29633177	21	1.9	22	85	5	57	39	4	24	31	1.76
29635087--29635152	29	2.3	29	81	5	71	30	25	1	42	1.64
29640626--29640690	15	4.4	15	79	9	71	7	15	15	61	1.55
29640622--29640690	30	2.3	30	82	7	88	7	14	18	59	1.58
29646931--29646962	16	1.9	17	93	6	57	56	0	0	43	0.99
29651362--29651393	16	1.9	17	93	6	57	56	0	0	43	0.99
29653162--29653213	20	2.6	20	84	9	70	17	46	28	7	1.75
29661477--29661549	28	2.6	28	100	0	146	46	8	26	19	1.77
29662214--29662249	8	4.4	8	89	3	54	58	0	0	41	0.98
29662373--29662404	16	1.9	17	93	6	57	56	0	0	43	0.99
29662153--29662471	158	2.0	161	97	1	608	53	2	10	33	1.50
29664185--29664231	20	2.3	20	92	0	76	21	44	25	8	1.80
29675723--29675778	29	2.0	28	92	3	94	19	16	28	35	1.93
29679049--29679183	72	1.9	71	83	5	177	40	5	6	48	1.52
29680118--29680314	106	1.9	107	90	4	319	58	4	19	17	1.55
29682625--29682655	5	6.4	5	92	7	55	19	0	0	80	0.71
29700585--29700630	20	2.3	20	82	14	60	28	28	17	26	1.98
29714666--29714854	105	1.8	105	94	2	335	23	15	16	44	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29731068--29731133	29	2.2	30	81	2	80	13	15	4	66	1.40
29733613--29733788	46	3.8	46	78	14	200	20	21	28	30	1.98
29733610--29733781	93	1.8	93	93	2	301	20	21	28	29	1.98
29735246--29735281	18	2.0	18	100	0	72	50	22	0	27	1.50
29741998--29742150	76	2.0	75	89	1	234	43	11	26	16	1.83
29745493--29745597	39	2.6	39	83	5	113	24	21	27	25	2.00
29745456--29745597	40	3.6	40	78	12	141	24	21	28	25	1.99
29745822--29745989	47	3.6	47	88	0	237	34	8	29	27	1.86
29756202--29756250	24	2.0	24	96	0	89	36	22	16	24	1.94
29760210--29760276	33	2.0	33	94	0	116	25	4	16	53	1.61
29760219--29760271	15	3.3	15	75	14	61	22	5	16	54	1.63
29760623--29760702	30	2.7	30	88	3	108	25	32	26	16	1.96
29770529--29770555	10	2.7	10	100	0	54	85	0	14	0	0.61
29772006--29772054	19	2.5	20	87	9	75	34	0	8	57	1.29
29772613--29772693	31	2.6	29	79	11	81	46	3	1	48	1.27
29772613--29772692	30	2.5	32	80	9	85	47	3	1	47	1.28
29772681--29772720	17	2.6	16	84	15	57	60	0	0	40	0.97
29775094--29775136	22	1.9	22	95	4	77	37	13	6	41	1.72
29785428--29785476	11	4.3	11	75	10	53	36	2	2	59	1.21
29785396--29785475	27	3.0	27	70	18	76	40	1	3	55	1.26
29785423--29785478	24	2.3	24	81	3	67	39	1	1	57	1.20
29787643--29787851	46	4.5	46	86	1	276	39	16	24	20	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29795627--29795666	21	2.0	20	85	5	53	32	2	27	37	1.70
29799531--29799645	42	2.7	42	82	0	140	31	18	24	26	1.97
29799576--29799699	65	1.9	65	89	0	194	30	17	24	27	1.97
29799641--29799799	42	3.8	42	83	1	210	30	15	24	29	1.96
29799534--29799750	107	2.0	107	94	0	380	30	17	24	27	1.97
29799645--29799818	85	2.1	84	81	3	197	29	14	25	29	1.95
29806231--29806353	42	3.0	41	78	2	111	30	26	13	30	1.93
29806276--29806366	42	2.2	42	82	4	103	35	24	10	29	1.90
29809540--29809581	22	1.9	22	85	0	57	40	0	26	33	1.56
29810039--29810202	42	3.9	42	87	1	229	33	15	21	28	1.95
29810039--29810202	85	1.9	84	86	1	229	33	15	21	28	1.95
29810348--29810471	65	1.9	65	90	3	196	31	16	23	28	1.96
29810413--29810566	42	3.6	42	84	1	200	31	14	24	30	1.94
29811815--29811874	31	1.9	31	96	0	111	48	5	28	18	1.69
29812192--29812508	94	3.4	92	79	6	325	23	30	20	25	1.98
29816226--29816297	32	2.3	32	92	2	119	25	22	13	38	1.91
29818698--29818739	20	2.1	20	100	0	84	14	16	33	35	1.89
29818655--29818786	66	2.0	66	92	2	221	20	19	29	30	1.97
29827357--29827381	6	4.2	6	100	0	50	68	0	32	0	0.90
29832428--29832516	39	2.2	40	86	4	126	29	14	20	35	1.92
29834259--29834441	49	3.7	49	80	3	213	27	27	19	25	1.98
29834246--29834439	100	1.9	101	86	1	273	27	26	19	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29841775--29841957	79	2.3	81	82	7	214	25	27	22	24	2.00
29841773--29841957	40	4.6	39	82	6	203	25	28	22	24	1.99
29855055--29855095	21	2.0	21	95	0	73	36	0	26	36	1.57
29855076--29855335	48	5.3	48	95	3	466	36	5	26	31	1.80
29855083--29855376	96	3.0	99	90	5	395	35	7	26	30	1.83
29855482--29855590	37	2.9	37	95	0	191	22	19	31	26	1.98
29858600--29859669	27	39.3	27	76	6	861	39	20	8	31	1.82
29858600--29859669	54	20.1	54	84	3	1188	39	20	8	31	1.82
29858600--29859669	81	13.4	81	81	4	1152	39	20	8	31	1.82
29859027--29859110	42	2.0	42	85	0	114	50	16	4	28	1.66
29859000--29859137	69	2.0	69	86	0	195	45	18	6	28	1.74
29859661--29859715	27	2.0	29	89	7	87	36	20	10	32	1.87
29859671--29859727	27	2.1	27	83	6	71	35	26	10	28	1.89
29859710--29859783	27	2.7	26	76	13	78	35	22	8	33	1.84
29859768--29860037	27	10.0	27	82	5	287	36	18	20	24	1.95
29859772--29860037	54	4.9	54	85	0	327	36	18	20	24	1.95
29859765--29860037	81	3.4	80	81	6	327	36	18	20	24	1.95
29860286--29860337	27	2.0	26	84	3	68	17	23	21	38	1.93
29860267--29860420	67	2.3	67	96	0	281	18	27	22	31	1.97
29860353--29860404	27	2.0	26	84	3	68	19	25	21	34	1.96
29860523--29860600	6	12.7	6	74	15	70	19	19	14	47	1.82
29860523--29860600	31	2.5	31	91	0	120	19	19	14	47	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29863724--29863781	27	2.1	27	90	0	89	15	25	20	37	1.92
29864554--29864596	21	2.0	21	90	0	68	34	16	11	37	1.85
29882274--29882535	39	6.7	40	87	7	337	25	22	27	24	2.00
29890354--29890537	40	4.7	40	82	8	209	26	21	27	25	2.00
29890406--29890560	79	2.0	79	81	10	183	27	20	27	25	1.99
29898897--29898943	22	2.2	21	84	3	58	36	21	8	34	1.84
29898914--29898992	19	4.2	19	87	9	117	36	16	10	36	1.82
29899780--29900254	41	11.4	42	64	20	192	25	21	22	30	1.99
29899733--29900260	166	3.2	163	86	6	690	24	22	22	30	1.99
29899733--29900259	250	2.1	249	90	4	828	24	22	22	30	1.99

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