genome.fa.s11.2.7.7.80.10.50.1000.16.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  16  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)
5651731--5651911	87	2.1	86	80	9	197	29	9	22	38	1.86
5652224--5652261	20	1.9	20	89	10	60	39	2	13	44	1.57
5663368--5663410	17	2.4	19	81	14	56	60	4	0	34	1.17
5664102--5664149	13	3.6	14	73	23	50	70	6	2	20	1.19
5664102--5664150	12	3.8	13	76	23	50	69	6	2	22	1.21
5671786--5671903	6	19.7	6	99	0	173	67	10	16	5	1.38
5671786--5671948	6	27.2	6	98	0	164	63	11	16	9	1.52
5675735--5675788	27	2.0	27	96	0	99	42	11	5	40	1.64
5676674--5676716	11	3.8	11	80	17	52	30	2	2	65	1.18
5676677--5676720	23	1.9	23	90	0	70	31	2	4	61	1.28
5681709--5681744	18	2.1	18	89	5	56	38	22	2	36	1.69
5694940--5694990	26	1.9	26	84	11	68	54	11	11	21	1.68
5696625--5696667	4	10.8	4	85	9	61	25	0	0	74	0.82
5697873--5697905	17	1.9	17	93	0	57	48	0	15	36	1.45
5702774--5702848	33	2.3	33	83	0	105	16	46	18	18	1.84
5704756--5704821	34	1.9	34	87	0	96	30	10	3	56	1.49
5712330--5712386	23	2.4	23	82	8	62	33	1	3	61	1.23
5712344--5712389	24	2.0	23	91	4	74	30	2	2	65	1.16
5712763--5712797	15	2.3	15	95	0	61	22	0	14	62	1.31
5712771--5712804	15	2.3	15	89	0	50	23	2	11	61	1.43
5724359--5724988	131	4.8	131	90	1	958	28	15	25	30	1.96
5724359--5724988	263	2.4	262	90	2	985	28	15	25	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5724359--5725015	132	5.0	131	88	2	899	28	15	25	29	1.96
5725293--5725615	44	7.5	44	69	11	186	28	18	23	28	1.98
5725293--5725660	44	8.5	44	70	13	176	29	19	23	27	1.98
5725584--5725701	45	2.6	45	82	2	130	29	25	22	22	1.99
5727183--5727229	24	2.0	24	91	0	76	29	2	2	65	1.15
5729020--5729049	8	3.8	8	90	0	51	46	16	10	26	1.78
5729154--5729188	18	1.9	18	94	0	61	11	37	28	22	1.89
5735702--5735739	11	3.3	11	92	7	58	84	0	15	0	0.63
5735703--5735733	16	2.0	15	93	6	53	90	0	9	0	0.46
5735704--5735751	21	2.2	22	81	3	62	83	2	12	2	0.83
5737966--5738000	18	1.9	18	94	0	61	25	31	8	34	1.86
5738534--5738792	29	8.9	29	76	18	245	44	27	0	27	1.60
5738635--5738715	23	3.6	23	83	14	114	46	25	1	25	1.60
5738649--5738709	21	2.8	22	87	9	81	49	22	0	27	1.50
5738594--5738782	35	5.3	35	72	21	160	44	28	0	26	1.58
5741878--5742229	124	2.8	126	89	4	527	33	22	15	29	1.94
5741878--5742229	126	2.8	123	88	5	519	33	22	15	29	1.94
5756748--5756790	21	2.0	21	82	8	52	32	0	6	60	1.23
5756782--5756845	32	1.9	32	87	6	92	42	1	3	53	1.26
5757026--5757117	44	2.0	46	87	8	136	35	26	5	32	1.79
5757099--5757169	16	4.4	16	92	3	99	29	28	7	35	1.83
5758292--5758360	27	2.6	27	100	0	138	37	36	2	23	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5758899--5758942	22	1.9	24	90	9	74	25	20	0	54	1.45
5759291--5759337	22	2.1	22	81	14	53	0	21	8	70	1.14
5759533--5759589	5	11.6	5	75	17	57	57	1	0	40	1.09
5761860--5761885	13	2.0	13	100	0	52	46	0	23	30	1.53
5765662--5765695	6	5.7	6	100	0	68	14	50	0	35	1.44
5766450--5766485	15	2.4	15	100	0	72	16	30	36	16	1.91
5766859--5766915	19	2.9	19	86	2	78	33	0	14	52	1.41
5766835--5767169	22	15.1	21	74	17	245	31	0	12	55	1.41
5766969--5767246	49	5.7	49	84	4	359	31	0	13	54	1.45
5766969--5767193	27	9.1	25	76	19	215	32	0	12	54	1.44
5766973--5767188	97	2.2	98	96	0	398	31	0	12	55	1.43
5767580--5767618	16	2.5	16	87	4	62	41	2	2	53	1.28
5769245--5769288	6	7.3	6	92	0	61	31	36	31	0	1.58
5769242--5769288	24	2.0	24	91	0	76	29	38	31	0	1.58
5772558--5772602	22	2.1	21	87	4	63	2	31	2	64	1.18
5772668--5772743	27	2.8	28	82	7	95	23	38	21	17	1.93
5773481--5773512	5	6.2	5	96	3	55	21	0	0	78	0.76
5797652--5797676	12	2.1	12	100	0	50	60	0	8	32	1.26
5797920--5797960	2	20.5	2	94	0	73	51	2	0	46	1.14
5799530--5800451	132	7.0	132	91	1	1422	24	24	19	31	1.98
5799530--5800451	262	3.5	263	91	1	1472	24	24	19	31	1.98
5799560--5800428	44	19.8	44	63	11	192	24	25	18	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5799530--5800451	394	2.3	393	90	1	1452	24	24	19	31	1.98
5814670--5814694	12	2.1	12	100	0	50	60	0	8	32	1.26
5814939--5814985	2	23.5	2	95	0	85	51	2	0	46	1.13
5823524--5823549	13	2.0	13	100	0	52	46	7	7	38	1.61
5825169--5825254	41	2.1	41	91	0	136	36	6	12	44	1.70
5826789--5826842	26	2.1	26	89	3	83	35	20	22	22	1.96
5831121--5831166	24	2.0	24	83	12	60	43	26	8	21	1.81
5840093--5840128	18	2.0	18	94	0	63	38	30	11	19	1.86
5842296--5842338	22	2.0	22	90	0	68	30	0	0	69	0.88
5842830--5842920	42	2.2	42	86	4	121	31	30	13	24	1.93
5843891--5843944	24	2.3	24	80	3	65	46	18	14	20	1.84
5848111--5848456	41	8.8	41	77	11	339	29	25	23	21	1.99
5848302--5848358	28	2.0	28	89	0	87	21	21	29	28	1.98
5848262--5848399	69	2.0	69	92	0	231	27	24	25	22	2.00
5848221--5848441	110	2.0	110	91	1	354	28	25	24	21	1.99
5848427--5848558	40	3.4	39	73	7	115	21	19	21	37	1.95
5848926--5848954	2	14.5	2	100	0	58	48	0	0	51	1.00
5848892--5848934	22	2.0	22	81	9	52	39	13	4	41	1.66
5849474--5849510	19	1.9	19	88	0	56	51	2	0	45	1.15
5852446--5852476	4	7.8	4	92	0	53	70	0	0	29	0.87
5854513--5854592	38	2.1	38	100	0	160	38	12	16	32	1.86
5858145--5858283	40	3.5	39	79	6	147	31	23	17	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5858442--5858488	24	2.0	24	84	16	62	51	17	0	31	1.46
5861410--5861474	10	6.4	10	79	10	60	40	4	0	55	1.21
5861411--5861468	31	1.9	31	85	3	82	37	5	0	56	1.21
5861431--5861473	21	2.0	21	86	0	59	44	4	0	51	1.22
5861411--5861469	30	2.0	30	83	6	75	38	5	0	55	1.22
5882634--5882847	4	54.0	4	98	1	414	50	25	0	24	1.50
5886224--5886277	27	2.1	25	86	6	72	44	1	0	53	1.11
5889244--5889383	42	3.3	42	84	2	192	35	12	21	30	1.91
5891161--5891380	91	2.5	88	81	7	225	34	16	20	29	1.94
5902787--5902844	28	2.0	30	86	10	84	62	1	0	36	1.06
5909680--5909907	114	2.0	114	98	0	438	34	20	18	25	1.96
5910469--5910813	170	2.0	170	96	0	636	33	13	21	30	1.93
5915316--5915362	16	2.8	17	80	6	60	2	40	0	57	1.11
5915315--5915365	17	3.1	17	80	5	68	1	37	0	60	1.08
5922585--5922609	5	5.0	5	100	0	50	20	20	20	40	1.92
5932474--5932576	45	2.2	45	86	3	134	29	24	16	30	1.96
5932592--5932631	21	1.9	21	84	0	53	37	15	12	35	1.85
5934586--5934621	16	2.3	15	90	4	54	2	22	0	75	0.94
5934883--5934981	48	2.0	49	96	3	182	15	26	2	56	1.50
5937034--5937085	24	2.2	24	89	6	79	30	1	9	57	1.42
5938750--5938814	20	3.3	20	70	16	55	32	0	6	61	1.21
5938917--5939034	18	6.7	18	68	23	72	36	1	2	59	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5938839--5939034	87	2.2	88	91	2	313	33	3	3	60	1.27
5940779--5940825	19	2.5	19	80	16	53	61	2	2	34	1.20
5944523--5944559	2	18.5	2	100	0	74	48	0	0	51	1.00
5947540--5947589	22	2.2	23	82	3	57	42	14	8	36	1.74
5953179--5953219	20	2.0	20	100	0	82	14	29	9	46	1.77
5954893--5954943	24	2.2	24	77	22	56	33	0	5	60	1.21
5958692--5958744	13	4.1	13	85	0	79	35	24	7	32	1.84
5961009--5961050	16	2.6	16	78	14	50	16	14	16	52	1.75
5962375--5962404	3	10.0	3	92	0	51	3	33	0	63	1.11
5965401--5965458	31	2.0	30	83	12	77	51	12	5	31	1.61

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