genome.fa.s7.2.7.7.80.10.50.1000.122.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  122  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)
41493486--41493531	23	2.0	23	86	0	65	34	23	26	15	1.94
41493587--41493656	27	2.7	25	79	16	63	37	15	25	21	1.93
41494896--41494955	5	11.8	5	74	15	52	36	3	1	58	1.25
41497811--41498002	24	7.9	25	72	10	109	34	23	25	16	1.95
41497809--41497988	96	1.9	97	82	4	229	34	23	25	16	1.95
41497838--41498003	24	7.0	24	72	9	126	35	22	25	16	1.95
41504231--41504260	3	10.0	3	92	0	51	30	33	33	3	1.74
41505439--41505506	16	4.2	16	96	0	127	26	0	35	38	1.57
41505742--41505776	18	2.0	17	88	5	52	54	0	0	45	0.99
41505862--41505896	18	2.0	17	88	5	52	54	0	0	45	0.99
41505725--41506227	120	4.2	120	99	0	997	48	4	2	43	1.37
41505982--41506016	18	2.0	17	88	5	52	54	0	0	45	0.99
41506102--41506136	18	2.0	17	88	5	52	54	0	0	45	0.99
41511676--41511737	27	2.3	26	76	13	63	38	1	11	48	1.49
41515370--41515454	6	14.3	6	82	11	88	17	3	0	78	0.88
41515370--41515453	30	2.8	29	81	10	107	17	3	0	78	0.89
41516804--41516856	1	53.0	1	76	0	52	88	0	11	0	0.51
41516804--41516855	10	4.7	11	83	11	63	88	0	11	0	0.52
41516804--41516856	18	3.1	17	89	5	79	88	0	11	0	0.51
41517401--41517462	27	2.3	26	76	13	63	38	1	11	48	1.49
41525452--41525572	43	2.8	43	82	5	129	28	12	25	33	1.92
41526902--41526983	28	2.9	28	92	1	137	15	35	30	18	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41526900--41526977	13	5.7	13	67	21	52	16	35	28	19	1.93
41526980--41527043	32	2.0	32	93	0	110	29	12	17	40	1.86
41528585--41528618	17	1.9	18	88	5	52	61	2	0	35	1.11
41532567--41533162	78	7.7	78	86	2	797	35	22	8	33	1.85
41532567--41533156	234	2.5	233	89	1	887	35	22	8	33	1.85
41533878--41533984	40	2.7	41	78	10	114	27	21	19	31	1.97
41534158--41534217	22	2.8	22	68	12	52	25	0	25	50	1.50
41534240--41534308	36	1.9	36	82	5	86	18	1	39	40	1.60
41534055--41535206	308	3.8	308	96	1	2053	29	1	23	44	1.64
41534548--41534616	36	1.9	36	82	5	86	18	1	39	40	1.60
41534856--41534924	36	1.9	36	82	5	86	18	1	39	40	1.60
41535121--41535168	15	3.3	15	88	5	71	18	0	33	47	1.49
41535116--41535165	22	2.3	21	82	3	64	22	0	30	48	1.51
41535116--41535162	7	6.6	7	82	4	58	21	0	27	51	1.48
41535157--41535197	14	2.9	15	85	7	59	19	2	43	34	1.64
41535150--41535189	21	1.9	21	84	0	53	15	2	42	40	1.60
41545264--41545376	60	1.9	60	96	0	208	22	24	30	23	1.99
41545324--41545434	39	2.8	39	91	0	186	18	24	30	26	1.98
41548363--41548422	30	2.0	30	83	6	77	21	31	21	25	1.98
41559352--41559396	22	2.0	22	95	0	81	46	11	17	24	1.81
41565013--41565038	3	8.7	3	100	0	52	30	0	0	69	0.89
41567244--41567291	25	2.0	25	84	8	64	45	0	2	52	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41567394--41567444	20	2.5	20	90	0	75	60	3	1	33	1.26
41573748--41573840	43	2.2	44	90	3	145	51	12	6	29	1.65
41578488--41578584	43	2.3	44	89	5	146	49	13	6	30	1.66
41578655--41579464	64	12.7	64	98	0	1516	37	16	10	35	1.84
41579612--41579650	20	2.0	19	85	5	51	69	0	15	15	1.20
41597397--41597472	40	1.9	40	91	0	125	18	14	30	36	1.91
41606153--41606235	34	2.4	34	85	2	103	31	21	22	24	1.98
41606042--41606337	143	2.1	143	88	1	432	33	23	21	21	1.97
41606113--41606335	74	3.1	72	70	14	197	34	22	20	22	1.97
41609782--41609814	17	1.9	17	93	0	57	75	18	0	6	1.00
41609776--41609822	14	3.1	14	77	16	58	72	19	0	8	1.10
41612148--41612198	26	2.0	24	82	14	59	33	7	21	37	1.82
41614467--41614496	14	2.1	14	93	0	51	46	36	0	16	1.47
41619614--41619656	13	2.9	16	77	22	58	79	0	16	4	0.90
41619598--41619650	14	3.6	14	76	16	54	79	0	11	9	0.94
41620721--41620750	15	1.9	16	93	6	53	60	10	10	20	1.57
41620776--41620983	64	3.2	64	92	0	353	30	17	14	37	1.90
41621337--41621528	44	4.3	44	66	22	114	28	16	25	29	1.97
41621256--41621518	133	2.0	133	88	3	395	27	19	25	27	1.98
41621750--41621982	44	5.2	44	70	9	157	32	16	23	27	1.96
41621563--41621969	137	3.0	135	84	4	462	29	18	23	27	1.98
41621887--41621982	43	2.2	45	83	3	124	33	14	21	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41621838--41622232	177	2.2	178	80	4	442	32	18	21	27	1.97
41626036--41626068	11	2.8	12	86	13	50	51	33	3	12	1.54
41627337--41627387	24	2.0	26	85	7	70	37	3	1	56	1.29
41627515--41627617	26	4.2	24	78	15	104	28	3	6	61	1.39
41627345--41627601	26	10.0	24	69	17	117	30	5	5	59	1.42
41629301--41629401	28	3.6	28	86	0	121	58	8	12	19	1.61
41630285--41630336	12	4.3	12	79	18	63	26	11	0	61	1.30
41630805--41630862	30	2.0	29	86	10	82	60	1	1	36	1.17
41631728--41631784	28	2.0	28	96	0	105	28	10	19	42	1.84
41635631--41635691	30	2.0	31	84	9	81	29	24	6	39	1.80
41636761--41636798	20	1.9	20	84	10	51	42	13	23	21	1.88
41638696--41638923	46	5.0	46	86	1	278	39	14	23	21	1.91
41639628--41639667	21	1.9	21	89	0	62	45	7	0	47	1.31
41646205--41646309	37	2.8	37	76	12	99	52	0	11	35	1.44
41646596--41646652	22	2.6	23	78	18	75	64	3	7	24	1.34
41647861--41648378	44	11.8	44	68	11	172	28	22	17	31	1.97
41658434--41658572	71	2.0	71	87	5	201	46	6	20	26	1.75
41660640--41660671	5	6.6	5	92	7	57	18	0	0	81	0.70
41660640--41660670	9	3.3	9	91	8	53	19	0	0	80	0.71
41665092--41665123	5	6.6	5	92	7	57	18	0	0	81	0.70
41665092--41665122	9	3.3	9	91	8	53	19	0	0	80	0.71
41666092--41666146	22	2.4	22	82	14	67	30	0	18	50	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41666654--41666691	18	2.1	18	90	9	60	68	7	10	13	1.39
41668353--41668530	27	6.6	27	83	3	205	26	15	28	29	1.96
41668354--41668509	82	1.9	81	88	3	233	26	15	28	29	1.96
41668350--41668530	82	2.2	81	83	2	229	27	15	27	29	1.96
41683599--41683684	43	2.0	43	90	0	136	20	19	30	29	1.97
41689879--41689979	43	2.3	43	73	10	98	28	29	16	24	1.97
41697728--41697790	31	2.0	31	84	6	83	55	4	25	14	1.58
41698207--41698422	46	4.6	46	80	10	215	29	20	28	20	1.98
41704031--41704069	20	1.9	20	84	5	51	35	2	10	51	1.50
41705524--41705937	215	1.9	216	92	0	695	33	10	19	36	1.85
41715704--41715773	35	2.0	34	97	2	131	32	20	8	37	1.83
41721752--41721837	43	2.0	43	95	0	154	51	11	17	19	1.76
41724833--41724899	35	1.9	35	96	0	125	25	19	31	23	1.98
41728851--41728884	15	2.3	15	89	0	50	20	11	17	50	1.77
41734485--41734541	27	2.1	29	87	9	84	57	14	10	17	1.64
41735297--41735344	16	2.8	17	81	15	55	29	12	6	52	1.63
41741082--41741139	22	2.6	22	86	5	73	39	5	3	51	1.41
41747288--41747346	29	2.0	29	96	0	109	40	20	27	11	1.87
41754949--41755024	40	1.9	40	86	0	107	21	14	30	34	1.93
41755039--41755109	28	2.5	28	83	0	97	32	9	28	29	1.89
41764430--41764576	56	2.6	53	82	8	143	19	19	33	27	1.96
41780537--41780652	28	4.1	28	84	0	133	28	11	28	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41780676--41780788	57	2.0	57	98	0	217	33	10	16	38	1.83
41783999--41784066	34	2.0	34	100	0	136	35	8	32	23	1.86
41784448--41784510	32	2.0	32	96	0	117	23	14	15	46	1.83
41804786--41804814	10	2.9	10	100	0	58	37	41	0	20	1.53
41805558--41805750	42	4.6	42	90	0	287	29	24	16	30	1.97
41808639--41808676	14	2.8	14	85	14	53	63	0	23	13	1.30
41813171--41813296	61	2.1	60	80	7	139	42	14	5	38	1.69
41820274--41820685	48	8.7	47	78	5	425	28	19	27	24	1.98
41820274--41820685	96	4.3	95	85	3	476	28	19	27	24	1.98
41821871--41821910	21	2.0	20	90	5	62	15	37	27	20	1.92

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