genome.fa.s11.2.7.7.80.10.50.1000.33.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: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62681010

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   

This is table  33  of  210  ( 25152 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)
10589759--10589794	16	2.2	16	90	0	54	16	16	0	66	1.25
10592613--10592642	15	2.0	15	100	0	60	26	0	20	53	1.46
10594401--10594613	114	1.9	113	92	1	354	25	23	25	25	2.00
10594509--10594667	73	2.2	73	91	2	257	27	22	27	23	1.99
10594765--10594789	13	1.9	13	100	0	50	8	0	32	60	1.26
10594819--10594867	14	3.4	14	85	2	62	26	0	38	34	1.57
10595646--10595914	147	1.8	147	88	4	402	38	16	16	28	1.91
10597893--10597928	18	2.0	18	88	0	54	19	25	11	44	1.83
10598282--10598324	13	3.3	13	80	0	50	55	4	2	37	1.33
10599899--10600005	43	2.5	43	78	1	106	28	21	27	22	1.99
10600035--10600192	79	2.0	79	98	0	307	24	21	28	25	1.99
10604642--10604684	16	2.8	15	86	6	59	69	4	2	23	1.18
10604642--10604684	5	8.4	5	82	5	50	69	4	2	23	1.18
10606068--10606205	19	7.6	19	68	18	80	63	0	3	32	1.11
10606067--10606203	9	15.1	9	72	15	88	64	0	3	31	1.10
10606110--10606194	37	2.3	33	75	24	82	64	0	4	30	1.14
10606459--10606525	18	3.5	18	78	15	55	43	1	0	55	1.09
10606464--10606525	10	6.5	10	81	10	53	43	1	0	54	1.09
10611663--10611709	18	2.6	19	87	12	64	4	23	0	72	1.02
10611663--10611709	24	2.0	24	91	8	78	4	23	0	72	1.02
10612382--10612530	64	2.3	63	88	3	210	28	19	30	21	1.98
10620654--10620693	9	4.4	9	93	0	71	25	12	22	40	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10620990--10621049	30	2.0	31	83	3	77	20	41	0	38	1.52
10634327--10634351	10	2.5	10	100	0	50	84	0	0	16	0.63
10635522--10635619	49	2.0	50	87	2	144	43	9	17	29	1.80
10638433--10638457	10	2.5	10	100	0	50	16	8	12	64	1.49
10640029--10640126	49	2.0	50	87	2	144	45	7	16	30	1.74
10642760--10642883	38	3.2	38	63	15	101	33	16	6	42	1.74
10642758--10642913	77	2.0	77	100	0	312	32	17	6	42	1.75
10644265--10644363	49	2.0	49	100	0	198	41	20	16	22	1.90
10658703--10659367	222	3.0	223	95	0	1188	36	15	15	32	1.89
10670756--10670874	25	4.8	25	84	6	134	29	22	22	25	1.99
10670755--10670874	50	2.4	50	85	0	168	29	23	22	25	1.99
10680557--10681050	244	2.0	243	95	1	891	24	16	19	40	1.91
10694987--10695133	76	1.9	76	98	0	285	22	17	16	44	1.87
10699696--10699763	31	2.2	31	91	0	109	38	11	17	32	1.86
10701365--10701421	29	2.0	29	92	0	96	31	26	10	31	1.90
10702479--10702509	15	2.1	15	100	0	62	25	12	6	54	1.62
10706768--10706792	7	3.6	7	100	0	50	40	0	0	60	0.97
10707624--10707662	11	3.2	12	82	10	53	71	7	0	20	1.10
10707717--10707782	27	2.4	27	87	5	98	22	25	37	13	1.91
10715701--10715776	23	3.3	23	86	0	116	31	27	19	21	1.97
10717149--10717178	15	2.0	15	93	0	51	56	0	0	43	0.99
10717160--10717215	28	2.0	28	82	6	69	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10719451--10719483	16	2.1	16	100	0	66	18	0	12	69	1.18
10719552--10719611	20	3.0	20	90	2	95	21	6	5	66	1.34
10719848--10719886	16	2.4	16	91	0	60	56	7	0	35	1.28
10727410--10727570	43	3.8	43	75	12	136	36	25	16	21	1.94
10727380--10727521	43	3.4	41	76	12	153	33	26	17	22	1.96
10727373--10727577	85	2.4	85	85	0	259	35	24	16	22	1.95
10734796--10734905	43	2.6	42	74	11	109	33	26	18	21	1.96
10734797--10735005	86	2.5	85	81	3	233	34	24	16	24	1.95
10742037--10742069	17	1.9	17	93	0	57	6	27	0	66	1.15
10742764--10742894	45	2.8	46	87	2	174	40	16	22	20	1.91
10742973--10743056	27	3.1	27	77	0	87	39	11	26	22	1.89
10744367--10744708	172	2.0	173	92	1	571	41	20	11	26	1.86
10747378--10747421	23	1.9	22	82	17	54	36	25	0	38	1.56
10747466--10747559	45	2.1	45	91	0	152	30	23	19	26	1.98
10747554--10747751	51	3.9	50	78	4	227	29	26	17	25	1.98
10747563--10747747	101	1.8	101	90	3	300	30	26	17	24	1.97
10750086--10750181	42	2.3	42	89	3	140	39	14	25	20	1.91
10763194--10763324	60	2.1	60	83	9	158	56	2	1	39	1.21
10763206--10763324	61	2.0	57	81	15	134	53	2	1	42	1.24
10771304--10771370	34	1.9	35	87	3	100	44	14	8	31	1.76
10793671--10793805	41	3.3	41	89	4	209	53	5	21	19	1.66
10793774--10793870	24	4.0	24	82	4	115	53	6	21	18	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10793774--10793868	48	2.0	49	89	4	149	54	6	21	17	1.65
10793789--10793872	24	3.5	24	86	1	116	52	4	22	20	1.65
10795686--10795730	21	2.1	21	100	0	90	28	0	8	62	1.25
10800453--10800509	30	1.9	30	88	0	87	47	15	14	22	1.82
10810033--10810146	42	2.7	43	75	15	103	28	28	18	24	1.98
10813538--10813594	26	2.3	25	72	6	53	68	1	3	26	1.15
10813568--10813605	18	2.1	18	85	9	51	73	5	0	21	1.02
10816510--10816566	29	1.9	30	86	10	82	54	7	24	14	1.64
10820062--10820092	3	10.3	3	100	0	62	32	0	0	67	0.91
10822576--10822608	15	2.2	15	100	0	66	81	0	12	6	0.85
10823909--10824270	50	7.3	49	68	7	176	30	20	22	25	1.99
10823841--10824437	100	6.0	98	83	3	678	29	21	22	25	1.99
10823841--10824436	199	3.0	200	87	2	819	30	21	22	25	1.99
10823837--10824439	299	2.0	298	88	2	890	29	22	22	25	1.99
10826963--10826995	16	2.1	16	88	5	50	63	12	0	24	1.28
10829982--10830080	26	3.9	26	80	2	103	20	19	21	39	1.93
10830110--10830176	26	2.7	26	82	11	79	14	20	22	41	1.89
10830121--10830177	26	2.2	26	87	6	80	14	19	22	43	1.86
10832958--10833007	20	2.6	19	84	6	66	48	6	2	44	1.39
10838715--10838742	5	5.6	5	100	0	56	39	0	0	60	0.97
10838709--10838751	15	2.8	15	83	16	61	44	0	0	55	0.99
10850365--10850455	43	2.1	43	93	2	157	36	16	23	24	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10851407--10851438	16	2.0	16	93	0	55	65	0	0	34	0.93
10857028--10857065	16	2.3	16	95	4	67	28	7	10	52	1.64
10861302--10861417	37	3.1	37	91	1	178	39	18	12	30	1.87
10866705--10866771	24	3.1	24	68	31	78	35	16	11	35	1.86
10866721--10866751	16	1.9	16	100	0	62	41	19	0	38	1.51
10874471--10874508	19	2.0	19	100	0	76	21	21	10	47	1.80
10874904--10874957	27	2.0	28	85	3	74	20	9	29	40	1.83
10878430--10879026	134	4.5	134	79	1	633	31	16	14	37	1.88
10878979--10879062	36	2.3	36	91	0	132	29	17	17	34	1.94
10884855--10885325	161	2.9	161	99	0	924	38	21	11	28	1.89
10892970--10893036	32	2.1	32	85	0	89	37	23	11	26	1.90
10894268--10894321	26	2.1	26	82	6	65	46	5	7	40	1.55
10895713--10896126	133	3.1	133	93	1	690	25	24	21	28	1.99
10896106--10896443	89	3.8	87	82	7	351	26	22	22	28	1.99
10896117--10896443	178	1.8	178	83	1	431	26	22	22	28	1.99
10904656--10904686	6	5.0	6	96	4	53	16	19	0	64	1.29
10904656--10904693	12	3.1	13	88	11	62	15	18	0	65	1.27
10915239--10915308	35	2.0	35	97	0	131	32	25	12	28	1.93
10925842--10925876	15	2.4	15	90	4	54	48	0	8	42	1.33
10928077--10928101	13	1.9	13	100	0	50	40	24	4	32	1.73
10928409--10928635	48	4.6	48	72	13	149	35	20	25	18	1.95
10928441--10928634	24	7.9	25	69	15	118	37	21	24	17	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10928384--10928634	25	10.2	25	70	10	151	34	20	25	18	1.96
10928694--10928750	24	2.4	24	88	5	80	35	15	33	15	1.90
10929247--10929313	29	2.3	29	82	5	73	40	13	4	41	1.64
10934888--10934936	22	2.2	21	80	16	55	51	4	4	40	1.40
10939359--10939398	21	1.9	21	85	10	55	35	10	12	42	1.76
10944187--10944381	98	2.0	98	95	0	354	36	24	9	29	1.86
10944661--10944685	9	2.8	9	100	0	50	68	8	0	24	1.16
10945737--10945811	19	3.8	19	91	6	123	34	16	12	37	1.85
10958300--10958336	2	18.5	2	94	0	65	51	2	45	0	1.15
10960170--10960199	6	5.0	6	91	0	51	80	0	0	20	0.72

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