genome.fa.s7.2.7.7.80.10.50.1000.250.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  250  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)
86255514--86255701	76	2.5	76	85	3	227	22	26	18	32	1.97
86257599--86257673	37	2.0	37	100	0	150	54	24	0	21	1.45
86269582--86269634	26	2.0	26	82	7	63	41	0	1	56	1.10
86275696--86275738	19	2.3	19	81	14	54	37	4	4	53	1.43
86276552--86276605	28	1.9	28	88	0	81	46	3	5	44	1.44
86289111--86289328	40	5.5	40	87	2	289	25	28	23	22	1.99
86291413--86291473	31	2.0	31	86	0	86	50	9	6	32	1.61
86292261--86292292	6	5.3	6	100	0	64	31	0	0	68	0.90
86295762--86295793	17	1.9	16	93	6	55	43	3	0	53	1.16
86295869--86295902	3	11.3	3	100	0	68	67	0	0	32	0.91
86299574--86299615	21	2.0	21	100	0	84	23	9	4	61	1.45
86302466--86302647	46	4.0	46	89	1	249	20	23	14	41	1.89
86304464--86304488	11	2.3	11	100	0	50	72	0	0	28	0.86
86306829--86306859	13	2.3	13	94	5	53	0	22	0	77	0.77
86308017--86308142	62	2.0	62	95	0	225	33	23	19	23	1.97
86308986--86309026	21	2.0	21	85	0	55	46	0	2	51	1.14
86309040--86309094	19	2.9	19	86	5	76	72	5	14	7	1.24
86309117--86309157	19	2.2	19	86	8	57	65	0	34	0	0.93
86310262--86310356	44	2.2	44	84	7	122	20	21	24	34	1.96
86310505--86310616	18	6.2	18	76	4	100	33	11	16	37	1.85
86312242--86312275	17	1.9	18	94	5	61	64	2	2	29	1.22
86312415--86312478	24	2.6	25	73	14	71	40	9	0	50	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
86312624--86312659	16	2.2	16	100	0	72	25	0	36	38	1.56
86312640--86312730	45	2.0	45	85	2	121	27	6	28	37	1.82
86312895--86312929	18	2.0	17	88	5	52	54	0	0	45	0.99
86313015--86313049	18	2.0	17	88	5	52	54	0	0	45	0.99
86313135--86313169	18	2.0	17	88	5	52	54	0	0	45	0.99
86312878--86313530	120	5.4	120	95	1	1103	49	4	2	43	1.36
86313471--86313754	91	3.0	93	86	6	317	47	3	3	45	1.37
86313571--86313631	28	2.2	28	85	5	81	50	3	0	45	1.17
86313578--86313721	47	3.1	46	65	23	113	49	4	2	44	1.33
86313546--86313758	91	2.3	91	95	0	372	46	4	3	46	1.40
86313596--86313735	47	3.0	47	67	17	139	48	4	2	44	1.37
86319579--86319630	18	2.8	19	71	8	54	53	1	1	42	1.23
86324452--86324482	16	1.9	16	100	0	62	45	19	19	16	1.86
86325052--86325097	21	2.2	20	88	7	65	15	0	2	82	0.76
86325066--86325107	7	5.5	8	94	5	54	11	2	0	85	0.68
86325059--86325098	7	5.9	7	94	5	73	12	0	0	87	0.54
86325039--86325131	8	11.8	8	76	17	54	22	1	4	72	1.09
86325691--86325733	15	3.0	15	83	6	54	46	32	0	20	1.51
86325696--86325782	22	4.0	22	67	7	52	45	31	0	22	1.53
86325757--86325782	7	3.7	7	100	0	52	46	38	0	15	1.46
86325879--86325920	15	2.9	15	82	3	50	40	30	0	28	1.57
86325928--86325970	21	2.0	21	82	8	52	30	48	4	16	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
86325940--86325997	14	4.1	14	71	6	55	36	43	0	20	1.52
86325940--86325970	7	4.4	7	91	0	53	32	51	0	16	1.44
86326257--86326343	41	2.2	40	85	2	111	65	6	4	22	1.36
86326534--86326780	81	3.0	80	85	2	316	21	21	20	36	1.96
86326534--86326780	41	6.1	40	87	2	316	21	21	20	36	1.96
86330330--86330495	35	4.6	35	82	8	172	31	10	24	33	1.90
86330330--86330500	75	2.4	75	85	7	221	31	11	23	33	1.90
86344028--86344087	29	2.1	29	100	0	120	13	21	13	51	1.75
86345411--86345499	33	2.8	33	81	8	96	43	7	11	37	1.70
86346465--86346513	24	2.0	24	88	0	71	42	18	10	28	1.83
86353571--86353638	33	2.1	33	83	5	84	25	23	13	38	1.91
86365817--86365955	60	2.3	59	84	8	165	26	26	20	26	1.99
86376276--86376447	93	1.8	93	92	0	290	28	30	20	20	1.98
86376269--86376444	46	3.8	46	76	15	182	29	30	20	19	1.97
86378660--86378738	39	2.0	39	97	0	149	44	15	17	22	1.86
86379333--86379377	20	2.2	20	96	0	81	15	24	35	24	1.94
86380951--86381118	72	2.3	72	85	4	205	30	29	17	22	1.97
86383769--86383808	19	2.2	18	90	4	62	50	5	0	45	1.23
86384946--86384983	17	2.2	18	85	4	51	36	7	5	50	1.54
86391544--86391592	22	2.2	22	85	7	64	75	2	2	20	1.00
86391841--86391896	29	1.9	29	82	13	71	51	8	12	26	1.69
86392032--86392174	76	1.9	76	95	2	261	39	33	3	23	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
86395309--86395333	12	2.1	12	100	0	50	16	24	20	40	1.91
86395372--86395472	53	1.9	53	89	0	157	21	16	19	41	1.90
86395610--86395680	18	3.9	18	70	9	54	30	8	15	45	1.76
86395689--86395757	18	3.8	19	75	11	56	36	10	14	39	1.80
86395689--86395769	36	2.2	36	82	0	90	37	8	13	40	1.75
86395697--86395760	18	3.6	18	80	0	74	39	10	12	37	1.78
86397124--86397207	41	2.0	41	100	0	168	32	16	11	39	1.85
86401513--86401563	20	2.6	19	81	15	59	62	15	0	21	1.32
86401506--86401563	20	3.1	18	79	20	57	62	13	0	24	1.32
86401531--86401652	20	5.9	20	70	17	81	52	21	0	26	1.47
86401547--86401652	41	2.5	41	86	8	135	51	20	0	27	1.47
86401561--86401634	22	3.5	21	71	17	64	48	21	0	29	1.50
86402003--86402072	23	3.2	22	71	17	65	47	2	0	50	1.16
86403959--86404149	54	3.6	54	88	3	278	26	14	23	36	1.93
86409385--86409596	67	3.2	66	87	3	280	36	13	25	25	1.92
86409561--86409629	33	2.1	33	97	0	129	39	14	24	21	1.91
86409608--86410063	67	6.8	67	76	5	386	37	14	22	25	1.92
86409593--86410056	134	3.5	133	80	2	486	37	14	22	25	1.92
86409594--86409979	201	1.9	201	82	2	488	38	14	21	24	1.91
86409594--86410063	201	2.3	201	79	4	484	37	14	22	24	1.92
86411842--86412113	135	2.0	135	91	2	440	38	9	20	31	1.85
86412129--86412245	43	2.8	42	75	7	128	35	15	22	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
86420592--86420616	13	1.9	13	100	0	50	44	8	8	40	1.63
86423297--86423472	21	8.5	21	73	2	131	48	16	17	18	1.82
86423284--86423365	42	2.0	42	87	0	119	47	18	19	14	1.82
86423297--86423472	62	2.8	62	91	0	271	48	16	17	18	1.82
86423667--86423705	7	5.6	7	90	9	62	41	12	0	46	1.42
86424756--86424801	13	3.5	13	100	0	92	13	52	17	17	1.75
86426535--86426559	12	2.1	12	100	0	50	32	0	16	52	1.44
86430378--86430409	16	2.0	16	100	0	64	31	31	6	31	1.82
86430620--86430662	21	2.0	21	90	0	68	11	23	13	51	1.74
86435431--86435710	43	6.5	43	80	3	296	29	28	16	25	1.97
86435795--86435862	34	2.0	35	82	8	86	55	2	2	38	1.30
86435902--86435972	12	5.7	12	75	15	63	67	1	1	29	1.07
86438993--86439148	42	3.6	41	84	8	170	30	26	13	30	1.94
86439591--86439770	31	5.8	31	86	5	247	26	26	18	28	1.98
86444043--86444110	29	2.3	29	85	5	93	27	30	13	27	1.94
86443932--86444259	174	1.9	174	95	0	593	31	24	14	29	1.94
86444212--86444290	29	2.7	30	82	13	110	30	30	13	25	1.94
86450553--86450597	24	1.9	23	95	0	72	48	24	2	24	1.62
86450543--86450599	24	2.5	21	76	17	60	45	26	3	24	1.69
86451508--86451611	42	2.5	42	93	0	172	28	25	16	29	1.97
86455641--86455935	115	2.6	115	75	7	264	37	21	13	27	1.91
86456700--86456752	21	2.5	21	81	3	61	28	47	5	18	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
86456713--86456773	21	2.9	22	82	4	72	31	44	4	19	1.72
86456742--86456848	14	7.5	14	73	11	74	43	32	0	22	1.60
86457179--86457285	49	2.2	49	89	0	160	28	21	19	29	1.98
86458601--86458661	30	2.1	29	93	3	104	34	22	18	24	1.96
86459824--86459970	40	3.7	40	76	8	147	31	20	17	29	1.96
86462466--86462512	21	2.2	21	100	0	94	42	10	12	34	1.78
86463864--86463896	16	1.9	18	88	11	52	51	18	12	18	1.76
86464433--86464600	43	4.0	43	86	1	241	25	31	19	23	1.98
86470010--86470042	16	2.0	17	88	5	50	30	0	24	45	1.53
86472178--86472215	17	2.2	17	86	9	51	44	10	18	26	1.82

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