genome.fa.s9.2.7.7.80.10.50.1000.123.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  123  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)
40893217--40893886	335	2.0	335	99	0	1331	27	21	22	28	1.99
40909819--40909878	24	2.5	22	75	15	57	40	1	1	56	1.19
40910253--40910305	20	2.7	20	79	2	54	18	11	18	50	1.76
40911327--40911425	50	1.9	52	87	4	148	33	12	13	41	1.81
40911326--40911445	50	2.4	50	81	8	145	32	13	13	40	1.83
40924231--40924287	26	2.2	26	83	3	69	26	19	19	35	1.95
40925538--40925574	5	7.2	5	93	6	65	78	0	21	0	0.75
40925511--40925574	15	4.0	16	76	13	69	68	0	28	3	1.04
40926494--40926537	19	2.4	18	85	7	54	40	9	0	50	1.34
40927799--40927847	19	2.7	19	78	15	50	20	4	0	75	0.96
40934119--40934348	50	4.6	49	79	8	232	29	26	17	25	1.98
40940416--40940556	69	2.0	69	100	0	282	43	11	13	31	1.79
40941361--40941590	50	4.6	50	76	7	216	30	26	17	25	1.97
40944239--40944288	10	5.0	10	76	13	50	20	8	2	70	1.23
40947906--40948055	67	2.2	67	81	8	171	32	17	28	21	1.96
40947930--40948113	67	2.8	64	77	8	194	29	17	29	22	1.97
40954006--40954180	46	3.8	46	78	13	214	29	30	20	20	1.97
40954014--40954182	93	1.8	93	94	0	302	28	30	20	20	1.98
40957655--40957712	29	2.0	29	96	0	107	39	0	25	34	1.56
40963859--40963911	23	2.4	22	76	20	56	9	18	1	69	1.25
40973919--40973978	19	3.2	19	97	0	111	43	11	5	40	1.63
40978479--40978575	42	2.3	41	84	8	133	48	14	4	32	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40978592--40978631	19	2.2	18	86	4	53	47	12	2	37	1.55
40985591--40985643	25	2.2	25	86	3	72	24	15	26	33	1.95
40989462--40989636	86	2.0	86	100	0	350	42	14	24	18	1.88
40989740--40989843	6	16.8	6	73	4	73	8	18	2	70	1.26
40989723--40989778	21	2.7	21	72	5	51	10	17	1	69	1.26
40989740--40989843	18	5.6	18	75	5	91	8	18	2	70	1.26
40989728--40989845	12	9.4	12	73	15	62	7	18	3	70	1.26
40989926--40989986	10	6.1	10	74	12	54	32	13	24	29	1.93
40989927--40989987	20	3.0	20	83	9	79	32	13	26	27	1.93
40990730--40990856	43	3.0	43	80	5	159	24	14	25	34	1.94
40994915--40994953	20	2.0	20	94	0	69	28	23	17	30	1.97
40995114--40995170	30	2.0	28	86	6	78	14	29	3	52	1.58
40996232--40996264	12	2.9	11	91	8	57	18	9	9	63	1.49
41000519--41000705	99	1.9	100	93	1	322	29	25	19	26	1.98
41000514--41000707	49	3.9	49	77	4	183	28	25	18	26	1.98
41000527--41000700	49	3.5	49	77	4	206	29	25	17	27	1.98
41001926--41001966	22	1.9	22	95	5	75	17	29	43	9	1.80
41002928--41003143	107	2.0	107	98	0	414	32	5	20	41	1.74
41004642--41004793	43	3.6	43	88	2	227	25	20	28	26	1.99
41004633--41004793	86	1.9	85	89	3	252	24	19	28	26	1.99
41032454--41032492	20	1.9	20	89	5	60	61	2	0	35	1.10
41033694--41033794	53	1.9	53	100	0	202	41	12	28	16	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41047036--41047094	26	2.3	26	96	0	109	13	38	16	30	1.88
41048023--41048119	40	2.4	40	82	3	124	34	16	15	34	1.90
41052313--41052343	16	1.9	16	93	0	53	6	29	45	19	1.75
41052497--41052577	41	2.0	41	92	0	135	25	25	27	20	1.99
41056570--41056611	18	2.3	18	100	0	84	33	4	19	42	1.72
41057750--41058160	47	8.7	47	97	0	750	32	8	30	29	1.86
41058279--41058357	37	2.1	37	90	0	122	24	18	31	25	1.98
41059445--41059509	32	2.0	32	100	0	130	26	15	15	43	1.86
41062580--41062604	13	1.9	13	100	0	50	44	16	32	8	1.76
41063692--41063735	22	2.0	22	90	0	70	34	4	25	36	1.76
41064618--41064730	38	2.9	38	88	2	145	23	23	27	25	2.00
41064634--41064736	38	2.7	38	90	0	152	22	23	26	28	1.99
41064734--41064888	43	3.6	43	99	0	301	9	26	34	29	1.88
41065218--41065325	45	2.5	42	85	8	128	23	24	26	25	2.00
41069485--41069564	38	2.1	38	90	0	124	20	22	28	28	1.98
41069557--41069638	43	1.9	43	92	0	137	12	25	34	28	1.92
41069955--41070066	45	2.5	45	83	8	124	25	22	26	25	2.00
41069968--41070081	45	2.6	45	84	6	137	26	21	29	21	1.99
41084189--41084227	20	2.1	19	85	9	53	2	28	17	51	1.59
41086176--41086238	32	2.0	32	96	0	117	28	28	19	23	1.98
41100855--41100940	40	2.2	39	87	2	118	24	15	29	31	1.95
41105196--41105228	2	16.5	2	100	0	66	51	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41109145--41109327	39	4.7	39	92	0	303	30	20	26	23	1.98
41119518--41119551	12	2.8	12	81	0	50	17	38	0	44	1.49
41123649--41123704	22	2.5	22	94	0	94	44	26	0	28	1.54
41124682--41124720	20	2.0	20	85	5	53	30	15	2	51	1.57
41128747--41128843	30	3.2	30	72	8	99	28	16	26	27	1.97
41129905--41130137	117	2.0	117	97	0	439	41	17	13	27	1.87
41142241--41142337	30	3.2	30	76	2	97	29	13	26	29	1.94
41143303--41143433	27	4.9	27	79	0	129	26	15	19	38	1.92
41158278--41158338	10	6.1	10	74	12	54	32	13	24	29	1.93
41158279--41158339	20	3.0	20	83	9	79	32	13	26	27	1.93
41159553--41159649	45	2.2	44	92	1	158	27	22	25	23	2.00
41165454--41165550	30	3.2	30	73	2	97	27	15	27	28	1.96
41167656--41167738	30	2.7	30	81	9	89	12	21	1	65	1.33
41167807--41167863	5	11.0	5	75	20	55	3	17	1	77	1.00
41167807--41167863	16	3.7	14	82	15	60	3	17	1	77	1.00
41167805--41167874	20	3.3	20	73	18	63	4	18	1	75	1.04
41170420--41170516	30	3.2	30	76	2	106	27	16	27	27	1.97
41172443--41172502	22	2.7	23	73	19	63	66	6	0	26	1.16
41172452--41172485	4	8.0	4	90	9	50	73	2	0	23	0.97
41173839--41173891	23	2.4	22	76	20	56	9	18	1	69	1.25
41178433--41178495	21	3.0	21	88	2	90	30	3	33	33	1.74
41182334--41182370	12	3.1	12	100	0	74	16	10	0	72	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41184534--41184577	19	2.3	19	84	7	54	22	38	25	13	1.91
41187186--41187241	28	2.0	28	85	0	76	30	12	25	32	1.92
41200208--41200280	26	2.8	26	93	0	128	24	21	26	27	2.00
41200330--41200382	9	5.4	10	78	17	58	33	18	11	35	1.87
41207585--41207644	29	2.1	29	96	0	111	35	11	16	36	1.85
41208417--41209251	20	41.8	20	95	0	1490	32	20	12	34	1.90
41208417--41209250	40	20.9	40	100	0	1668	32	20	12	35	1.90
41208417--41209269	9	85.4	10	72	18	509	32	19	12	34	1.90
41214518--41214575	10	5.7	10	78	13	57	22	1	18	56	1.50
41214520--41214576	23	2.7	21	84	10	73	22	1	17	57	1.49
41214518--41214576	9	5.9	9	78	18	55	22	1	18	57	1.49
41215398--41215429	15	2.1	15	100	0	64	21	25	12	40	1.88
41225128--41225171	22	2.0	22	100	0	88	31	22	13	31	1.93
41225169--41225223	25	2.3	24	90	6	85	32	10	14	41	1.81
41226417--41226624	53	3.9	53	75	4	202	23	22	15	37	1.93
41236316--41236375	27	2.3	26	85	2	75	35	20	23	21	1.96
41236414--41236465	27	2.0	26	88	3	77	38	23	23	15	1.92
41243451--41243565	29	4.0	29	76	6	92	27	29	14	27	1.95
41243776--41243806	16	1.9	16	93	0	53	12	19	22	45	1.84
41246973--41247047	29	2.6	28	83	8	87	28	26	18	26	1.98
41247280--41247310	16	1.9	16	93	0	53	12	19	22	45	1.84
41249942--41250038	28	3.5	28	90	2	133	31	27	13	26	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41251940--41252044	53	2.0	53	88	0	156	21	23	17	37	1.94
41251957--41252084	53	2.4	53	82	2	148	21	21	17	38	1.93
41261329--41261353	10	2.5	10	100	0	50	36	0	36	28	1.58
41275353--41275482	67	1.9	67	93	0	224	35	16	14	33	1.90
41278746--41278873	42	3.0	41	81	10	150	29	28	20	21	1.98
41281717--41281821	43	2.5	42	85	4	147	30	31	26	11	1.91
41281826--41281900	38	2.0	38	83	0	96	32	24	20	24	1.98
41293182--41293378	50	3.9	50	79	1	207	26	17	26	29	1.98
41297668--41298653	40	24.6	40	98	0	1843	24	20	27	27	1.99
41308199--41308382	40	4.6	40	81	6	212	26	23	25	25	2.00

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