genome.fa.s7.2.7.7.80.10.50.1000.157.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_chr3
Parameters: 2 7 7 80 10 50 1000
Length:  100348136

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   

This is table  157  of  290  ( 34714 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)
53499681--53499725	24	1.9	23	86	4	63	46	22	20	11	1.81
53501351--53501392	21	2.0	21	85	0	57	21	16	42	19	1.89
53503573--53503632	30	2.0	30	90	0	93	30	25	8	36	1.85
53505574--53505698	29	4.3	29	90	1	180	24	13	32	29	1.94
53507173--53507205	17	1.9	17	100	0	66	57	6	12	24	1.57
53507789--53507993	48	4.3	48	98	0	383	33	27	4	34	1.78
53509865--53510043	85	2.1	85	98	0	349	26	26	8	38	1.85
53514055--53514088	14	2.4	14	90	0	50	35	5	20	38	1.77
53515212--53515336	62	2.0	62	95	0	223	28	7	17	46	1.75
53518824--53519125	151	2.0	151	100	0	604	27	17	21	32	1.96
53526977--53527161	40	4.7	40	80	7	191	24	22	27	24	2.00
53526977--53527184	79	2.6	78	81	6	215	26	22	26	25	2.00
53531068--53531100	16	2.1	16	100	0	66	30	24	12	33	1.91
53535177--53535229	6	8.5	6	83	4	61	18	5	0	75	0.99
53548198--53548385	49	3.8	49	81	2	241	26	18	26	28	1.98
53548193--53548380	100	1.9	100	95	0	340	25	19	26	28	1.99
53549713--53550076	48	7.6	48	88	0	480	22	28	19	29	1.98
53557266--53557416	48	3.1	48	79	0	149	25	29	17	26	1.98
53560626--53560937	144	2.2	143	88	4	459	22	27	18	30	1.97
53560626--53560937	48	6.5	48	85	2	396	22	27	18	30	1.97
53564310--53564372	20	3.1	20	65	13	56	34	14	31	19	1.91
53564302--53564392	41	2.2	41	88	1	139	31	14	29	24	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53573560--53573706	42	3.4	42	78	12	147	27	18	23	31	1.97
53579827--53580164	27	12.6	27	81	7	359	39	20	9	31	1.84
53579930--53580207	81	3.4	81	83	6	239	39	17	10	33	1.83
53580693--53580718	11	2.4	11	100	0	52	26	0	19	53	1.45
53580779--53581518	370	2.0	370	99	0	1471	31	19	21	27	1.97
53582565--53582594	3	9.7	3	92	7	51	33	3	0	63	1.11
53588755--53588783	12	2.4	12	100	0	58	82	0	0	17	0.66
53591782--53591840	20	2.9	21	73	14	61	37	0	15	47	1.45
53591779--53591845	20	3.3	20	69	19	59	35	0	14	49	1.44
53603316--53603619	40	7.7	40	90	4	431	25	21	27	25	1.99
53606897--53607054	45	3.6	43	81	5	174	35	26	15	22	1.94
53614779--53614920	43	3.3	43	76	13	130	23	13	26	36	1.92
53614838--53614920	42	2.0	42	88	7	123	22	13	26	37	1.91
53614834--53614951	43	2.8	42	79	6	130	24	15	25	34	1.94
53623099--53623348	45	5.6	45	90	2	387	30	28	18	22	1.97
53623085--53623348	90	2.9	90	94	1	442	29	29	18	22	1.97
53623099--53623351	135	1.9	135	93	1	436	30	28	18	22	1.97
53630042--53630106	32	2.0	32	96	0	121	36	18	18	26	1.94
53634550--53634772	79	2.8	78	82	9	265	24	27	22	25	2.00
53634550--53634772	39	5.7	40	86	8	266	24	27	22	25	2.00
53642565--53642749	79	2.3	82	84	7	238	25	27	22	24	2.00
53642546--53642749	40	5.1	40	82	8	238	25	27	22	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53645209--53645360	43	3.5	43	83	1	153	28	13	25	32	1.94
53645805--53645882	33	2.4	33	86	4	104	39	16	20	23	1.92
53650681--53650852	93	1.8	93	90	2	274	27	29	22	20	1.99
53650673--53650848	46	3.8	46	74	12	180	28	28	22	21	1.99
53652754--53652809	15	3.7	15	86	9	87	60	10	16	12	1.58
53656514--53658371	929	2.0	929	100	0	3716	33	20	16	29	1.94
53659368--53659409	21	2.0	21	85	0	57	69	2	14	14	1.30
53660851--53660973	55	2.2	56	88	2	176	26	12	28	33	1.92
53660851--53660973	28	4.4	28	90	2	176	26	12	28	33	1.92
53660876--53660986	28	4.0	27	90	3	116	28	11	26	33	1.91
53665681--53665719	21	1.9	20	84	5	51	25	5	17	51	1.66
53668285--53668346	30	2.1	30	100	0	124	35	14	16	33	1.89
53672175--53672281	42	2.5	42	77	14	121	32	25	16	25	1.96
53672175--53672303	43	3.0	41	75	15	120	33	25	16	24	1.96
53673672--53673725	21	2.6	21	87	0	81	31	18	29	20	1.96
53679531--53679581	24	2.1	24	96	0	93	29	17	11	41	1.85
53686828--53687001	62	2.8	62	80	8	208	22	20	30	26	1.98
53686828--53687018	63	3.0	63	80	3	215	21	20	29	27	1.98
53687669--53687722	22	2.5	22	90	6	83	16	12	16	53	1.73
53694853--53694896	18	2.5	18	88	3	63	50	4	0	45	1.22
53697750--53697788	16	2.6	14	81	14	51	61	0	0	38	0.96
53697753--53697786	16	2.1	16	94	0	59	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53698290--53698321	6	5.3	6	92	0	55	18	3	0	78	0.89
53698488--53698562	36	2.1	36	100	0	150	45	8	2	44	1.47
53698698--53698727	5	5.8	5	92	7	51	83	0	0	16	0.65
53701975--53702152	27	6.6	27	84	3	205	29	28	15	26	1.96
53701996--53702151	82	1.9	81	88	3	233	29	28	15	26	1.96
53705768--53705797	5	5.8	5	92	7	51	83	0	0	16	0.65
53706755--53706802	25	1.9	25	86	0	69	45	2	31	20	1.63
53710236--53710287	22	2.4	22	90	0	86	7	28	30	32	1.85
53721154--53721192	20	2.0	20	89	0	60	53	5	7	33	1.51
53721162--53721204	20	2.2	20	86	0	59	53	6	2	37	1.41
53721092--53721340	110	2.3	110	82	6	281	49	7	10	32	1.64
53721591--53721708	60	2.0	59	93	1	200	33	6	12	47	1.68
53721947--53722014	32	2.1	32	97	0	127	23	23	7	45	1.78
53726915--53726942	8	3.5	8	100	0	56	64	0	0	35	0.94
53726995--53727025	4	7.8	4	92	0	53	74	0	25	0	0.82
53741436--53741579	43	3.4	43	81	4	148	23	17	28	30	1.97
53741485--53741596	43	2.6	42	81	1	125	24	15	29	31	1.95
53748967--53749285	48	6.6	47	76	8	311	27	19	27	25	1.99
53748951--53749285	96	3.5	96	85	3	379	26	18	28	26	1.98
53748967--53749288	144	2.2	146	87	4	456	27	19	27	25	1.99
53760439--53760787	132	2.6	131	83	4	409	33	19	19	27	1.96
53764709--53764767	8	7.4	8	84	0	82	50	22	22	5	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53764709--53764767	16	3.7	16	86	0	91	50	22	22	5	1.68
53764983--53765056	29	2.6	29	88	0	103	28	17	25	28	1.98
53764983--53765067	29	2.9	28	82	6	98	29	18	24	27	1.98
53774682--53774755	31	2.4	31	83	0	94	24	20	16	39	1.92
53822547--53822778	56	4.1	56	98	0	446	22	21	9	45	1.81
53825145--53825498	47	7.6	45	73	10	239	28	21	28	21	1.99
53825147--53825507	94	3.9	92	74	12	319	28	20	28	21	1.98
53825144--53825507	141	2.6	140	75	9	330	28	21	28	21	1.99
53838713--53838980	134	2.0	134	100	0	536	31	20	11	36	1.88
53840873--53841091	46	4.8	46	97	0	393	21	20	28	30	1.98
53844182--53844261	15	5.4	15	77	7	83	10	18	13	57	1.64
53844173--53844260	30	3.0	30	80	11	92	10	18	15	55	1.68
53850965--53851035	34	2.1	34	82	7	83	45	32	12	9	1.75
53852703--53853020	49	6.6	48	72	14	201	27	17	29	25	1.98
53852697--53853024	142	2.3	141	82	5	372	26	17	29	26	1.98
53853599--53853632	16	2.1	16	88	0	50	41	5	23	29	1.78
53858528--53858590	27	2.3	28	83	8	85	25	14	12	47	1.79
53860181--53860206	10	2.6	10	100	0	52	42	23	0	34	1.54
53864737--53864775	16	2.4	16	95	0	69	51	35	5	7	1.53
53865983--53866027	16	2.8	16	82	0	54	53	15	22	8	1.69
53865991--53866043	24	2.2	24	93	0	88	52	15	20	11	1.72
53866276--53866347	29	2.5	29	83	0	90	29	15	34	20	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53873366--53873402	16	2.3	16	90	0	56	48	16	24	10	1.77
53873505--53873551	19	2.5	19	86	3	60	27	17	36	19	1.93
53873624--53873732	29	3.8	29	75	6	96	28	15	32	23	1.95
53877174--53877517	30	11.5	30	81	3	336	34	12	25	27	1.92
53884708--53884751	18	2.4	18	78	14	54	40	15	13	29	1.86
53886431--53886979	292	1.9	292	100	0	1098	32	16	24	26	1.96
53893597--53893820	40	5.6	40	91	1	308	24	20	28	26	1.99
53893558--53893820	80	3.3	80	85	3	318	23	20	28	26	1.99
53893558--53893820	120	2.2	120	82	4	318	23	20	28	26	1.99
53895225--53895312	28	3.3	26	90	4	131	17	21	25	36	1.94

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