genome.fa.s7.2.7.7.80.10.50.1000.135.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  135  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)
45755580--45755643	22	3.0	21	82	12	78	43	18	4	32	1.71
45755975--45756034	24	2.5	24	81	8	68	28	35	23	13	1.92
45761663--45761773	53	2.1	53	93	0	186	26	20	8	45	1.79
45764983--45765157	94	1.9	94	97	0	332	29	24	24	21	1.99
45766281--45766321	20	2.0	20	85	0	55	29	17	14	39	1.89
45770546--45770614	20	3.5	20	74	7	77	60	8	13	17	1.56
45770529--45770624	40	2.4	40	84	5	113	55	7	18	18	1.65
45772845--45772926	19	4.3	19	77	7	76	59	8	17	14	1.59
45772846--45772937	18	4.8	19	75	16	66	60	7	16	15	1.56
45772868--45772940	21	3.6	21	80	12	73	63	6	13	16	1.51
45773269--45773311	21	2.1	20	83	12	52	53	11	18	16	1.72
45773769--45773818	14	3.5	14	70	24	50	38	2	10	50	1.48
45776984--45777142	46	3.4	47	82	10	170	24	30	18	27	1.98
45784820--45784867	20	2.4	20	100	0	96	20	47	8	22	1.77
45792590--45792650	30	2.0	30	83	0	77	31	22	8	37	1.84
45795533--45795571	19	2.1	19	100	0	78	56	15	7	20	1.63
45795982--45796016	18	1.9	18	88	0	52	77	11	0	11	1.00
45803591--45803637	20	2.3	20	82	7	60	34	4	27	34	1.77
45806985--45807084	27	3.7	26	81	9	101	18	24	20	38	1.93
45806974--45807084	54	2.1	54	84	6	145	17	23	22	36	1.94
45814076--45814114	19	2.0	19	85	5	51	43	12	5	38	1.65
45818079--45818130	26	2.0	26	96	0	95	34	25	7	32	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45821223--45821334	58	1.9	58	94	0	197	23	9	26	40	1.86
45821589--45822490	26	34.7	26	99	0	1786	30	7	26	34	1.84
45824110--45824222	27	4.2	27	82	3	120	16	23	23	37	1.94
45824108--45824222	54	2.1	54	87	3	160	16	22	23	37	1.94
45825065--45825159	47	2.0	47	97	0	181	15	18	18	46	1.84
45828209--45828318	26	4.2	26	96	0	184	34	4	24	36	1.76
45829760--45829830	26	2.7	26	84	4	79	33	21	12	32	1.91
45829938--45830050	27	4.2	27	82	3	120	17	23	22	36	1.95
45829936--45830048	54	2.1	54	86	3	156	17	23	21	37	1.94
45833193--45833233	20	2.0	20	85	0	55	58	2	9	29	1.43
45833786--45833847	28	2.2	28	85	5	81	40	9	1	48	1.46
45837329--45837367	21	1.9	20	89	5	60	41	28	0	30	1.57
45846179--45846284	26	4.1	26	92	0	176	35	23	6	33	1.81
45847790--45847847	29	2.0	29	89	0	89	25	34	5	34	1.78
45852935--45853042	26	4.2	26	84	4	146	36	21	9	33	1.85
45852935--45853042	52	2.1	52	89	0	162	36	21	9	33	1.85
45856524--45856931	94	4.4	94	76	10	286	29	20	28	21	1.98
45856524--45856931	48	8.7	45	73	15	194	29	20	28	21	1.98
45870657--45870708	19	2.7	18	78	21	61	17	25	26	30	1.97
45872096--45872135	21	1.9	21	85	10	55	47	2	20	30	1.63
45872224--45872269	22	2.1	22	84	4	58	43	0	8	47	1.34
45876419--45876497	35	2.2	35	82	8	97	40	26	15	17	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45883056--45883235	48	3.9	48	73	12	176	25	21	25	28	1.99
45884469--45884508	21	2.0	21	90	5	64	20	27	40	12	1.88
45885553--45885863	47	6.6	47	73	13	189	23	29	18	28	1.98
45885745--45885869	46	2.7	46	80	9	137	20	27	20	32	1.97
45885553--45885912	94	3.8	93	76	12	285	23	29	18	28	1.98
45890901--45890961	29	2.1	29	96	0	113	34	26	14	24	1.94
45897338--45897393	23	2.5	22	77	11	60	26	21	14	37	1.92
45904409--45904539	68	1.9	68	98	0	253	33	16	16	34	1.90
45907735--45907776	15	2.9	15	82	3	50	45	14	0	40	1.45
45907757--45907796	21	2.0	20	85	5	53	42	12	2	42	1.56
45910190--45911078	443	2.0	443	100	0	1778	39	18	13	28	1.88
45911347--45911469	41	3.0	41	81	8	149	31	24	14	29	1.95
45916486--45916747	40	6.6	40	91	1	377	26	25	22	24	2.00
45922358--45922448	42	2.1	43	82	6	114	31	25	12	30	1.92
45924435--45924464	4	7.5	4	100	0	60	23	0	0	76	0.78
45929614--45929738	3	42.3	3	68	15	64	33	4	2	59	1.32
45929640--45929677	20	1.9	20	88	0	58	31	2	2	63	1.22
45929640--45929689	20	2.5	20	80	3	55	36	2	2	60	1.20
45929889--45930000	26	4.3	26	73	4	93	31	3	4	60	1.33
45929889--45929936	15	3.5	15	72	21	59	29	0	6	64	1.18
45929956--45930009	26	2.1	26	82	0	63	33	3	3	59	1.33
45930092--45930131	22	1.9	22	90	10	66	22	5	7	65	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45935536--45935592	20	2.8	20	86	7	80	84	1	1	12	0.79
45935530--45935606	25	2.9	25	83	13	84	83	1	3	11	0.85
45935531--45935592	12	5.9	11	78	21	62	83	1	1	12	0.79
45935530--45935606	13	5.6	14	73	15	54	83	1	3	11	0.85
45935529--45935577	6	8.0	6	88	4	71	83	0	2	14	0.73
45936908--45937505	44	13.5	44	65	12	195	29	16	25	28	1.97
45936862--45937680	177	4.6	177	85	1	996	28	16	25	28	1.97
45939243--45939289	15	3.3	14	79	11	51	23	6	2	68	1.24
45943486--45943908	49	8.5	49	86	2	558	29	26	17	26	1.98
45943486--45943908	99	4.3	99	94	0	686	29	26	17	26	1.98
45952163--45952210	23	2.2	22	78	10	53	43	14	10	31	1.79
45954983--45955476	247	2.0	247	97	0	927	23	24	14	37	1.92
45967458--45967653	40	4.9	40	83	7	263	23	27	22	25	2.00
45967465--45967649	80	2.3	80	91	1	300	24	27	23	24	2.00
45975408--45975632	40	5.6	40	85	2	290	23	27	24	25	2.00
45975372--45975632	80	3.3	80	83	3	312	23	26	24	25	2.00
45978710--45978867	43	3.7	43	77	6	142	27	17	25	30	1.97
45985345--45985402	30	1.9	30	89	0	89	25	22	34	17	1.96
45988313--45988484	93	1.8	93	96	0	317	27	29	21	20	1.98
45988306--45988481	46	3.8	46	79	12	216	28	29	21	20	1.98
45993442--45993569	64	2.0	63	90	1	202	24	24	24	26	1.99
45995416--45995676	93	2.8	95	90	5	392	30	29	18	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45995416--45995670	46	5.5	46	87	8	374	30	30	17	21	1.96
45997266--45997400	43	3.1	42	75	12	123	27	17	22	33	1.96
46003504--46003763	56	4.6	56	96	0	448	26	15	25	33	1.95
46004330--46004421	47	2.0	46	91	4	150	18	6	23	51	1.70
46011134--46011250	58	2.0	58	93	0	198	45	15	1	37	1.56
46018721--46018896	46	3.8	46	79	12	216	20	21	29	28	1.98
46018718--46018889	93	1.8	93	96	0	317	20	21	29	27	1.98
46026299--46026474	46	3.8	46	79	12	216	20	19	29	30	1.97
46026296--46026467	93	1.8	93	96	0	317	20	20	29	29	1.98
46040789--46041103	27	11.7	27	86	2	355	38	18	18	24	1.93
46040793--46041103	81	3.8	81	88	2	428	38	18	18	23	1.93
46041683--46041776	6	15.3	6	75	16	86	19	18	14	47	1.82
46041683--46041767	37	2.3	37	91	0	134	18	18	14	48	1.81
46043333--46043374	22	1.9	22	85	9	59	50	23	0	26	1.50
46044146--46044266	43	2.8	43	84	2	136	31	24	18	25	1.97
46045531--46045555	12	2.1	12	100	0	50	36	24	16	24	1.94
46050415--46050557	40	3.6	40	88	1	207	23	23	27	24	2.00
46055682--46055857	47	3.8	46	77	10	153	22	30	19	27	1.98
46055682--46055901	95	2.4	95	78	7	238	23	29	18	28	1.98
46062157--46062282	55	2.3	55	88	2	191	30	31	15	21	1.95
46063150--46063264	49	2.4	46	83	8	133	21	32	18	27	1.97
46084806--46084942	46	3.0	46	84	0	175	26	30	8	35	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46084916--46085859	47	20.1	47	99	0	1798	23	31	14	30	1.94
46089115--46089198	42	2.0	42	92	0	141	39	17	14	28	1.89
46097990--46098078	5	17.8	5	82	0	106	41	21	1	35	1.61
46098775--46098803	12	2.4	12	100	0	58	27	51	13	6	1.66
46103474--46103514	16	2.4	17	88	8	57	41	0	2	56	1.13
46103483--46103560	16	4.6	16	74	16	59	33	2	2	61	1.23
46103483--46103541	20	3.2	18	83	11	66	33	1	3	61	1.23
46103479--46103561	36	2.4	34	80	9	98	34	3	2	59	1.28
46103483--46103541	10	6.3	9	74	18	50	33	1	3	61	1.23
46103483--46103541	3	19.0	3	74	19	50	33	1	3	61	1.23

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