genome.fa.s7.2.7.7.80.10.50.1000.121.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  121  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)
41127538--41127589	25	2.1	25	100	0	104	34	7	23	34	1.83
41133984--41134101	55	2.1	55	82	3	139	17	25	28	27	1.98
41141530--41141561	13	2.5	13	100	0	64	12	31	31	25	1.92
41150175--41150232	30	1.9	30	93	6	100	15	29	34	20	1.94
41152084--41152119	6	6.2	6	93	6	65	83	0	0	16	0.65
41170091--41170156	19	3.2	21	87	6	64	36	19	9	34	1.84
41170108--41170186	19	4.2	19	90	9	126	35	16	10	37	1.82
41170130--41170186	17	3.5	15	88	11	53	35	15	10	38	1.82
41170108--41170186	36	2.1	39	90	9	128	35	16	10	37	1.82
41171114--41171243	47	2.8	47	87	0	188	24	15	26	33	1.95
41171320--41171364	20	2.2	20	96	0	81	33	17	33	15	1.92
41172640--41172699	30	2.0	30	100	0	120	20	10	26	43	1.83
41181151--41181200	11	4.4	11	80	9	64	38	14	8	40	1.75
41181579--41181614	18	1.9	19	88	5	56	22	25	2	50	1.63
41195912--41195949	20	1.9	20	88	0	58	39	18	7	34	1.80
41196008--41196057	17	3.0	17	75	13	50	66	2	0	32	1.03
41196259--41196419	29	5.5	27	73	16	90	31	6	1	61	1.28
41196288--41196343	9	6.1	9	78	15	53	28	3	1	66	1.19
41196289--41196453	10	17.4	9	75	14	113	30	4	0	64	1.17
41196280--41196453	19	9.2	19	73	14	128	32	4	0	63	1.17
41196613--41196779	85	2.0	85	82	9	207	38	7	14	38	1.74
41196613--41196807	86	2.2	87	81	8	220	38	8	14	38	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41198486--41198594	48	2.2	48	96	3	200	33	17	6	42	1.75
41199431--41199465	18	2.0	17	88	5	52	31	17	22	28	1.96
41205218--41205274	30	1.9	30	86	10	82	31	12	3	52	1.55
41218186--41218299	51	2.2	51	93	0	192	29	23	13	33	1.93
41219745--41219863	60	2.0	60	93	0	202	26	16	9	47	1.77
41225815--41226642	51	16.2	51	99	0	1629	32	23	11	31	1.91
41233193--41233499	154	2.0	154	96	0	569	29	20	15	33	1.94
41233615--41233994	196	1.9	196	97	0	715	34	20	17	28	1.95
41238286--41238339	27	2.0	27	89	7	83	61	3	0	35	1.14
41238303--41238352	20	2.8	17	81	18	66	64	0	0	36	0.94
41238284--41238346	10	6.6	10	72	20	55	63	3	0	33	1.10
41238302--41238367	17	3.8	17	77	16	64	63	0	1	34	1.04
41238285--41238394	25	4.5	25	75	14	95	63	1	0	33	1.11
41238887--41239048	9	17.7	9	71	17	77	32	3	2	62	1.24
41239007--41239055	25	2.0	25	88	8	73	34	0	2	63	1.06
41252980--41253094	27	4.2	27	90	5	178	34	25	22	17	1.95
41254715--41254822	26	4.2	26	88	4	155	37	24	6	32	1.81
41254715--41254822	52	2.1	52	91	0	171	37	24	6	32	1.81
41274706--41274763	26	2.2	26	81	0	71	32	25	10	31	1.89
41275650--41275775	45	2.8	45	87	0	171	21	23	17	38	1.93
41280667--41280932	47	5.7	47	74	11	224	28	20	29	21	1.98
41280660--41280934	94	2.9	94	77	10	249	28	20	29	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41288162--41288426	47	5.7	45	77	10	212	29	20	28	21	1.98
41295235--41295268	17	1.9	17	88	5	50	82	2	14	0	0.79
41300074--41300115	19	2.3	19	87	4	59	45	7	14	33	1.72
41302041--41302072	3	10.7	3	100	0	64	68	0	0	31	0.90
41302779--41302863	33	2.6	33	94	0	143	24	5	18	50	1.69
41308170--41308403	79	3.0	78	85	2	326	31	21	14	32	1.93
41308368--41308505	40	3.5	40	82	4	154	35	20	12	31	1.90
41313843--41314076	79	3.0	78	89	2	353	32	22	14	31	1.94
41313843--41314076	78	3.0	78	89	2	353	32	22	14	31	1.94
41314041--41314178	40	3.5	40	84	0	177	36	21	12	30	1.90
41315817--41315859	23	1.9	22	85	4	59	60	4	0	34	1.17
41319203--41319250	26	1.9	24	87	8	69	29	0	6	64	1.18
41325826--41325865	21	1.9	21	89	0	62	42	25	5	27	1.75
41326899--41327014	43	2.7	43	90	1	171	33	25	14	26	1.94
41329730--41329761	7	4.9	7	88	11	50	59	0	25	15	1.36
41330821--41330979	27	5.9	27	82	10	191	35	22	23	18	1.95
41330821--41330979	54	3.0	54	89	2	241	35	22	23	18	1.95
41331083--41331157	26	2.8	27	85	2	98	29	12	22	36	1.90
41332591--41332698	26	4.2	26	91	2	173	36	23	7	33	1.83
41342848--41342914	31	2.2	30	84	7	82	40	17	1	40	1.59
41345492--41345550	15	4.2	14	74	22	52	8	15	0	76	1.01
41345572--41345614	18	2.4	17	84	7	50	51	4	0	44	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41349415--41349469	28	2.0	27	82	13	67	67	1	5	25	1.22
41353675--41353825	30	5.0	30	100	0	302	33	0	16	50	1.46
41356262--41356298	18	2.1	18	90	10	58	59	0	5	35	1.20
41356862--41356939	9	8.7	9	81	5	77	44	20	8	25	1.80
41356870--41356938	18	3.8	18	86	0	93	42	21	10	26	1.84
41356861--41356947	27	3.2	27	76	9	79	47	19	8	25	1.77
41356967--41357007	6	6.5	6	86	5	55	17	2	2	78	0.98
41358520--41358578	31	2.0	28	83	9	73	49	0	1	49	1.11
41365760--41365803	14	3.2	14	80	6	54	25	4	2	68	1.20
41367317--41367378	24	2.6	22	76	14	61	56	3	20	19	1.56
41377210--41377236	14	1.9	14	100	0	54	33	14	22	29	1.94
41379247--41379340	47	2.0	47	95	0	170	38	8	19	34	1.82
41380381--41380447	34	2.0	34	87	0	98	41	11	31	14	1.83
41387377--41387423	15	3.2	14	82	14	51	46	8	2	42	1.46
41389403--41389439	19	1.9	19	94	0	65	35	29	8	27	1.85
41390162--41390219	30	1.9	30	85	0	80	43	1	34	20	1.62
41398381--41398447	31	2.1	33	83	5	84	23	32	31	11	1.91
41398904--41398970	35	1.9	35	84	6	91	20	19	25	34	1.96
41399947--41400009	31	2.0	31	100	0	126	19	6	19	55	1.63
41408087--41408170	37	2.3	35	82	13	100	34	1	2	61	1.16
41408794--41408825	16	1.9	17	93	6	57	68	0	0	31	0.90
41413023--41413088	32	2.0	33	82	2	80	46	4	6	42	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41413230--41413291	31	2.0	30	81	9	72	43	3	4	48	1.40
41415609--41415633	5	5.0	5	100	0	50	0	20	40	40	1.52
41430254--41430301	24	2.0	24	96	4	89	58	16	8	16	1.61
41432493--41432526	17	1.9	18	88	5	52	50	11	0	38	1.39
41432742--41432800	31	1.9	31	82	6	75	45	16	27	10	1.80
41436996--41437029	16	2.2	15	89	5	50	67	0	26	5	1.13
41437885--41437978	27	3.5	28	78	11	90	59	17	9	13	1.60
41438686--41438755	27	2.6	28	82	8	83	60	14	11	14	1.60
41439348--41439376	2	14.5	2	100	0	58	51	0	48	0	1.00
41441612--41441673	24	2.4	27	81	13	76	58	16	12	12	1.64
41445005--41445042	15	2.5	15	95	0	67	23	31	10	34	1.89
41445009--41445042	12	2.8	12	95	0	59	23	32	8	35	1.86
41450958--41451265	77	4.0	77	99	0	607	31	18	16	33	1.93
41454691--41454772	42	1.9	43	90	5	130	34	18	15	31	1.92
41459599--41459646	25	1.9	24	84	16	62	29	16	6	47	1.71
41459741--41459834	31	3.0	29	73	11	80	27	20	18	34	1.95
41462064--41462231	56	2.9	56	83	2	201	48	11	14	25	1.78
41462064--41462277	115	1.9	115	81	9	267	48	12	14	25	1.78
41465732--41465839	29	3.8	28	81	3	108	31	20	15	32	1.94
41473063--41473108	4	11.2	4	95	4	83	71	0	2	26	0.97
41474527--41474628	47	2.2	47	83	3	125	15	22	25	36	1.94
41474697--41474805	18	6.1	18	76	0	92	35	11	15	36	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41474715--41474800	36	2.4	36	78	0	109	38	12	13	34	1.84
41476568--41476883	137	2.3	138	82	3	377	20	23	14	41	1.89
41476568--41476886	46	7.0	46	84	2	365	21	23	14	41	1.89
41480427--41480551	26	5.0	26	69	14	93	39	22	20	17	1.93
41480511--41480588	26	3.1	26	75	10	81	42	19	16	21	1.89
41483861--41483904	18	2.5	17	81	3	52	18	27	36	18	1.94
41485323--41485362	21	1.9	21	85	10	55	57	2	5	35	1.34
41489745--41489863	44	2.8	41	83	8	141	30	25	20	24	1.99
41490428--41490473	23	2.0	23	91	0	74	45	15	10	28	1.79
41492054--41492094	20	2.0	22	90	9	68	36	7	7	48	1.59

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