genome.fa.s7.2.7.7.80.10.50.1000.146.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  146  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)
49641122--49641171	17	2.9	16	88	11	73	24	24	6	46	1.75
49645752--49645798	17	2.8	17	90	0	76	25	25	6	42	1.78
49650865--49650889	12	2.1	12	100	0	50	44	0	16	40	1.47
49650793--49650976	86	2.1	85	81	8	212	52	2	8	36	1.45
49658658--49658699	20	2.1	20	86	0	57	47	0	7	45	1.30
49664219--49664257	12	3.2	12	82	13	53	0	51	0	48	1.00
49665124--49665157	15	2.2	16	94	5	61	23	0	5	70	1.09
49665178--49665232	18	2.9	19	77	20	62	40	0	3	56	1.17
49669549--49669573	2	12.5	2	100	0	50	52	0	48	0	1.00
49670332--49670380	22	2.2	22	81	0	62	36	0	0	63	0.95
49670704--49670737	11	3.1	11	86	0	50	47	2	8	41	1.50
49672819--49672857	21	1.9	21	89	5	62	10	20	28	41	1.85
49672949--49673082	43	3.1	43	82	1	153	29	32	15	21	1.95
49677219--49677435	107	2.0	108	89	2	330	30	11	11	47	1.74
49677718--49677915	105	1.9	105	91	0	324	27	10	11	50	1.71
49678571--49678611	7	5.9	7	82	0	55	31	48	0	19	1.49
49678634--49678675	14	2.9	14	82	6	57	35	35	0	28	1.58
49678630--49678676	15	3.3	15	82	8	62	40	31	0	27	1.57
49678862--49678912	15	3.5	15	81	2	68	33	43	0	23	1.54
49679242--49679777	114	4.7	113	87	3	752	25	25	23	24	2.00
49682071--49682159	21	4.2	21	70	8	54	21	22	13	42	1.87
49683934--49683972	16	2.4	16	95	0	69	48	10	0	41	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49685615--49685664	22	2.3	21	86	6	73	28	14	6	52	1.65
49687187--49687375	72	2.6	73	84	4	222	42	21	19	16	1.89
49704970--49705024	26	2.1	27	80	16	71	30	0	16	52	1.44
49705862--49705999	1	138.0	1	67	0	78	15	0	0	84	0.63
49705860--49705998	6	23.2	6	100	0	278	16	0	0	83	0.65
49706013--49706076	26	2.3	29	84	7	80	32	0	1	65	1.02
49706486--49706578	26	3.8	24	83	13	109	23	25	20	30	1.99
49709279--49709355	32	2.4	32	80	0	91	24	24	6	44	1.77
49711125--49711150	3	8.7	3	100	0	52	0	34	0	65	0.93
49713801--49713877	32	2.4	32	80	0	91	24	24	6	44	1.77
49714314--49714462	34	4.4	34	98	0	280	37	32	12	17	1.87
49715936--49715983	25	1.9	25	83	8	62	45	4	4	45	1.41
49718339--49718364	2	13.0	2	100	0	52	0	50	0	50	1.00
49724985--49725225	91	2.7	90	79	5	236	33	10	25	31	1.89
49724980--49725242	90	2.9	90	77	4	271	31	11	25	31	1.90
49725217--49725363	73	2.0	73	97	0	276	26	21	15	36	1.93
49730517--49730541	13	1.9	13	100	0	50	48	0	8	44	1.32
49735072--49735141	22	3.1	22	70	27	58	37	15	20	27	1.93
49735073--49735141	23	3.0	23	85	12	88	37	14	20	27	1.91
49735081--49735151	22	3.2	21	84	11	88	36	12	21	29	1.90
49735081--49735162	23	3.6	21	83	8	74	35	14	21	28	1.93
49760273--49760348	38	2.0	38	87	2	109	34	10	27	27	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49761024--49761082	29	2.0	29	96	0	109	32	11	28	27	1.92
49766144--49766302	42	3.7	43	74	13	141	32	25	18	23	1.97
49768994--49769122	46	2.8	46	93	0	213	20	20	27	30	1.98
49772074--49772142	15	4.6	15	83	0	84	11	17	13	57	1.64
49772065--49772152	30	3.0	30	81	8	99	10	17	15	56	1.66
49776633--49776703	35	2.0	35	94	0	124	30	18	23	26	1.97
49784179--49784292	42	2.7	42	82	4	149	31	25	14	28	1.94
49793735--49793796	31	2.0	32	87	3	90	38	19	20	20	1.93
49793812--49793864	27	2.0	26	85	3	70	30	20	26	22	1.98
49800468--49800629	43	3.8	42	78	8	148	33	24	16	25	1.96
49811482--49811513	12	2.6	13	85	14	50	0	34	0	65	0.93
49812610--49812648	16	2.4	17	91	4	62	12	2	33	51	1.54
49814668--49814755	6	14.3	6	75	17	83	48	14	18	18	1.81
49814677--49814755	31	2.5	31	87	4	115	49	13	18	17	1.80
49814976--49815026	27	1.9	26	84	4	66	35	19	27	17	1.94
49815289--49815321	17	1.9	17	93	0	57	21	12	30	36	1.90
49815305--49815431	27	4.7	27	81	5	141	22	18	20	37	1.94
49815305--49815431	54	2.3	53	84	5	164	22	18	20	37	1.94
49815413--49815502	27	3.3	27	76	10	94	28	5	26	38	1.79
49815522--49815697	27	6.5	27	86	0	235	32	7	19	39	1.81
49815466--49815697	81	2.9	80	83	2	275	32	7	20	39	1.80
49815450--49815697	27	9.2	27	79	1	228	32	7	20	39	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49818592--49818650	30	2.0	30	89	0	91	47	22	6	23	1.75
49819667--49819697	15	2.1	15	93	0	53	19	0	25	54	1.44
49821594--49821658	27	2.4	27	82	10	71	33	13	21	30	1.92
49821672--49822012	27	12.6	28	79	8	221	41	19	9	28	1.83
49821698--49821988	107	2.7	107	80	8	290	42	19	8	29	1.81
49821667--49822015	81	4.3	80	76	6	269	41	19	9	29	1.83
49822234--49822352	41	2.9	41	93	0	193	21	21	30	26	1.99
49822756--49822803	22	2.2	22	92	0	78	10	16	29	43	1.81
49844703--49844880	27	6.6	27	83	3	205	26	15	28	29	1.96
49844704--49844859	82	1.9	81	88	3	233	26	15	28	29	1.96
49844700--49844880	82	2.2	81	83	2	229	27	15	27	29	1.96
49868016--49868260	49	4.9	49	81	3	301	28	25	18	26	1.98
49868017--49868260	100	2.5	99	85	2	319	29	25	18	26	1.98
49871484--49871704	46	4.7	46	71	17	141	27	19	29	22	1.98
49871480--49871702	94	2.4	94	78	7	220	27	20	29	22	1.98
49875431--49875471	15	2.7	15	79	20	50	14	7	17	60	1.55
49878026--49878208	46	3.9	47	75	9	158	31	16	25	26	1.97
49878082--49878305	48	4.7	47	75	9	186	30	17	29	22	1.97
49878036--49878252	94	2.3	94	89	0	317	31	17	27	23	1.97
49884646--49884689	21	2.1	21	83	8	54	25	9	2	63	1.35
49896905--49897129	40	5.7	40	87	5	296	24	22	28	25	2.00
49904918--49905182	40	6.7	40	89	2	338	24	21	28	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49908921--49909096	46	3.8	45	81	10	212	21	21	29	28	1.98
49908917--49909088	93	1.8	93	94	0	308	20	21	30	27	1.98
49911529--49911566	12	3.2	13	85	14	55	23	42	0	34	1.55
49912275--49912450	41	4.0	45	75	13	150	25	15	27	32	1.95
49919572--49919639	23	2.9	24	76	8	77	26	22	16	35	1.94
49921234--49921299	18	3.7	18	77	0	78	37	16	22	22	1.93
49921648--49921749	27	3.8	27	79	7	100	34	17	17	30	1.93
49924535--49924692	43	3.7	43	75	10	153	31	28	16	24	1.96
49926943--49927252	56	5.5	56	87	0	433	34	24	15	25	1.95
49940556--49940707	75	2.0	75	98	0	295	40	9	25	24	1.86
49940938--49941049	24	4.7	24	94	0	188	17	13	29	39	1.88
49950236--49950381	71	2.1	71	97	0	274	30	21	19	28	1.98
49954514--49954804	75	3.9	74	86	4	379	23	21	24	30	1.99
49954514--49954809	113	2.6	114	87	3	402	22	21	25	30	1.99
49954514--49954804	38	7.7	38	88	4	385	23	21	24	30	1.99
49954802--49954883	43	1.9	43	89	0	128	12	24	34	29	1.91
49980117--49980151	17	2.0	18	94	5	63	11	34	37	17	1.85
49980375--49980539	27	6.1	27	82	3	190	23	15	20	41	1.90
49985330--49985451	42	2.9	41	77	9	120	24	22	27	24	2.00
49993250--49993369	39	3.1	39	96	0	222	25	21	24	28	1.99
50002219--50002366	43	3.5	43	88	1	208	27	28	20	24	1.99
50006522--50006606	21	3.8	20	71	19	71	44	24	2	28	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50006506--50006595	46	2.0	46	95	0	162	42	24	3	30	1.71
50006561--50006614	7	7.7	7	78	0	54	50	25	0	24	1.50
50006771--50006949	41	4.4	40	89	3	234	17	21	21	39	1.93
50006771--50006979	41	5.1	40	88	3	233	18	21	21	38	1.93
50007003--50007028	12	2.2	12	100	0	52	46	30	15	7	1.74
50025321--50025349	15	1.9	15	100	0	58	48	13	20	17	1.81
50036612--50036817	103	2.0	103	97	0	385	34	21	9	33	1.86
50044890--50044944	27	2.0	27	96	0	101	29	12	10	47	1.76
50050291--50050402	27	4.2	26	84	7	134	38	23	22	16	1.93
50050291--50050402	54	2.1	54	86	3	154	38	23	22	16	1.93

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