genome.fa.s8.2.7.7.80.10.50.1000.91.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: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

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   

This is table  91  of  190  ( 22705 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)
26910740--26910778	20	2.0	20	90	5	62	35	12	12	38	1.82
26910877--26910915	20	2.0	20	94	0	69	48	2	0	48	1.15
26911994--26912054	32	1.9	32	93	0	104	52	18	3	26	1.60
26911994--26912067	32	2.5	30	85	10	91	52	18	2	25	1.59
26912027--26912081	27	2.0	27	86	6	76	50	18	3	27	1.63
26916794--26917098	107	2.8	109	92	2	483	30	18	19	31	1.96
26920461--26920496	16	2.2	16	90	0	54	83	5	2	8	0.89
26920561--26920633	23	2.9	25	78	14	78	71	2	16	9	1.24
26920530--26920620	24	3.8	24	70	13	71	70	2	18	8	1.24
26920543--26920660	17	6.9	17	68	19	59	70	3	17	8	1.27
26921526--26921572	7	7.0	7	80	9	62	68	0	17	14	1.22
26921526--26921574	13	3.6	14	83	8	66	67	0	18	14	1.23
26921526--26921572	20	2.3	20	85	7	69	68	0	17	14	1.22
26922837--26923060	43	5.2	43	64	14	138	29	23	22	24	1.99
26922777--26923342	86	6.5	87	88	4	637	27	22	25	25	2.00
26923096--26923309	44	4.9	44	67	14	145	25	24	25	23	2.00
26923356--26923995	44	14.8	44	68	10	115	28	20	23	27	1.99
26923356--26923603	87	2.8	85	75	11	198	27	18	24	29	1.98
26923401--26923727	130	2.5	130	88	0	465	27	22	23	26	2.00
26923482--26924002	173	3.0	173	91	1	792	28	21	23	26	1.99
26923345--26924033	303	2.3	308	87	3	970	28	20	23	27	1.99
26925368--26925419	3	17.3	3	91	0	86	28	0	1	69	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26925367--26925467	15	6.6	15	78	15	68	32	1	2	62	1.21
26928210--26928731	265	2.0	257	93	3	882	26	17	22	33	1.96
26937002--26937042	21	2.0	21	85	9	57	58	2	0	39	1.11
26938995--26939079	33	2.5	33	79	7	91	15	8	37	38	1.77
26942112--26942146	11	3.2	11	87	0	52	37	0	0	62	0.95
26942354--26942396	22	2.0	22	81	9	52	58	9	11	20	1.61
26947575--26947650	36	2.1	36	97	0	143	28	14	15	40	1.87
26947582--26947665	36	2.3	35	86	8	98	30	14	15	39	1.87
26953460--26953574	60	1.9	60	100	0	230	20	15	23	40	1.90
26953474--26953581	32	3.5	32	64	14	91	21	13	22	42	1.88
26953611--26953662	22	2.4	22	93	0	86	40	3	3	51	1.38
26959454--26959570	62	1.9	59	86	5	162	50	3	4	41	1.38
26961227--26961258	15	2.1	15	94	0	55	68	9	6	15	1.36
26965455--26965698	27	9.1	27	78	3	190	35	15	22	26	1.94
26965458--26965698	54	4.5	55	76	4	224	34	15	22	26	1.95
26980977--26981503	109	4.8	109	88	1	691	30	17	19	33	1.94
26982676--26982726	7	7.4	7	75	4	50	13	1	33	50	1.53
26982851--26982928	7	11.0	7	70	8	50	16	0	38	44	1.48
26988473--26988562	21	4.3	21	86	0	99	35	17	42	4	1.70
26988547--26988574	12	2.3	12	100	0	56	39	17	42	0	1.50
26988949--26989223	42	6.4	41	74	14	207	25	19	23	32	1.98
26991338--26991560	26	8.6	26	80	2	216	19	15	28	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26997757--26997954	70	3.0	63	79	12	218	34	16	6	42	1.74
26997757--26997984	70	3.4	66	78	11	205	34	16	5	43	1.71
26998070--26998291	94	2.4	93	77	9	236	35	17	8	39	1.79
26998830--26998860	9	3.4	9	90	0	53	25	12	22	38	1.90
26998914--26998950	9	4.1	9	92	0	65	45	13	10	29	1.77
26999935--26999960	5	5.2	5	100	0	52	19	19	19	42	1.90
27003717--27003751	18	1.9	18	94	0	61	28	31	14	25	1.95
27015341--27015390	24	2.1	24	96	0	91	28	12	28	32	1.92
27017349--27017521	43	4.0	43	90	1	258	30	26	19	24	1.98
27017692--27017754	21	3.2	21	69	17	62	52	6	1	39	1.37
27019201--27019296	42	2.3	43	81	1	113	27	17	25	30	1.97
27020105--27020270	44	3.8	44	91	0	253	27	10	19	42	1.85
27020102--27020274	22	7.9	22	81	3	197	27	10	19	42	1.84
27022323--27022363	3	13.7	3	94	0	73	29	0	2	68	1.03
27023041--27023082	21	2.0	21	90	0	66	21	2	50	26	1.61
27023041--27023090	22	2.3	21	86	3	64	20	2	50	28	1.59
27023986--27024139	7	21.6	7	69	15	66	46	34	0	18	1.55
27023935--27024047	50	2.3	50	81	3	129	42	36	2	18	1.65
27024028--27024144	14	8.2	14	77	14	87	49	29	0	20	1.55
27024561--27024666	40	2.6	41	86	4	144	30	24	17	27	1.98
27024488--27024781	154	1.9	155	81	4	362	30	21	19	29	1.97
27024711--27024801	40	2.3	39	81	3	101	24	19	24	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
27034049--27034108	30	2.0	30	100	0	120	36	10	16	36	1.82
27040646--27040764	37	3.2	37	73	11	109	36	31	14	16	1.89
27050216--27050256	20	2.0	21	86	13	59	31	7	12	48	1.68
27050232--27050283	27	1.9	27	84	0	68	32	3	11	51	1.56
27061421--27061469	25	2.0	25	83	0	62	36	14	16	32	1.89
27069899--27069943	23	1.9	24	90	4	74	44	2	0	53	1.13
27070715--27070759	2	23.0	2	95	4	83	51	0	0	48	1.00
27072174--27072203	14	2.2	13	94	5	51	60	0	0	40	0.97
27077034--27077065	5	6.4	5	100	0	64	78	0	0	21	0.76
27081160--27081306	43	3.4	43	75	10	149	30	14	22	32	1.93
27083166--27083199	14	2.4	14	100	0	68	26	8	20	44	1.81
27089100--27089134	10	3.5	10	88	0	52	48	22	2	25	1.64
27091397--27091529	27	5.0	27	79	9	103	36	18	22	22	1.95
27091464--27091664	27	7.4	27	88	0	276	34	18	23	23	1.96
27091464--27091664	81	2.5	81	90	0	312	34	18	23	23	1.96
27091681--27091789	24	4.6	24	79	3	96	28	7	21	43	1.79
27091853--27091923	27	2.7	27	83	12	85	19	25	22	32	1.98
27091938--27092124	32	5.8	32	84	0	221	22	20	19	37	1.94
27091938--27092123	64	2.9	64	88	1	266	22	20	19	37	1.94
27091938--27092137	96	2.1	95	83	2	249	22	20	19	38	1.94
27092129--27092202	22	3.3	21	77	5	67	17	20	18	43	1.88
27093532--27093669	50	2.8	50	75	7	145	21	28	21	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
27100816--27100872	27	2.1	27	100	0	114	36	28	15	19	1.92
27101718--27101813	49	1.9	50	93	2	167	34	13	29	22	1.93
27101991--27102025	10	3.5	10	92	0	61	51	22	0	25	1.48
27102429--27102477	21	2.4	21	80	10	57	36	26	0	36	1.57
27105838--27105937	50	2.0	50	94	0	173	36	5	13	46	1.64
27127336--27127542	41	5.0	41	82	2	245	34	17	28	19	1.95
27127441--27127505	21	3.2	20	70	12	60	33	20	26	20	1.96
27129704--27129772	25	2.8	25	81	14	81	31	23	17	27	1.97
27131126--27131174	19	2.5	20	77	12	57	53	22	6	18	1.66
27132779--27133047	137	2.0	136	81	2	315	34	23	20	22	1.97
27133186--27133253	30	2.3	30	100	0	136	41	19	5	33	1.75
27134758--27134824	26	2.6	26	90	0	107	25	26	26	20	1.99
27135255--27135779	260	2.0	260	94	0	924	33	7	21	37	1.81
27141457--27141645	51	3.7	50	80	3	209	31	25	15	26	1.96
27149123--27149300	51	3.5	51	79	5	173	30	28	16	24	1.96
27150869--27150922	28	2.0	27	85	7	74	40	18	3	37	1.69
27158341--27158365	8	3.1	8	100	0	50	84	0	0	16	0.63
27161786--27161819	16	2.1	16	88	0	50	11	32	0	55	1.36
27165787--27165824	15	2.5	15	91	4	58	65	2	0	31	1.06
27170988--27171068	27	3.0	26	84	12	94	45	9	19	24	1.81
27182142--27182166	9	2.8	9	100	0	50	20	0	0	80	0.72
27184424--27184456	17	1.9	17	93	0	57	18	15	12	54	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
27186185--27186217	13	2.6	13	85	4	50	18	6	9	66	1.40
27213686--27213715	15	2.0	15	93	0	51	56	6	3	33	1.42
27214900--27214985	42	2.0	43	90	2	138	23	25	2	48	1.62
27223259--27223304	19	2.4	19	92	0	74	28	30	17	23	1.97
27230472--27230499	14	2.0	14	100	0	56	14	14	28	42	1.84
27233221--27233277	21	2.8	20	71	12	53	17	29	17	35	1.93
27233194--27233341	41	3.6	41	85	0	206	22	29	14	33	1.94
27237147--27237233	4	21.8	4	97	0	165	51	0	22	25	1.48
27237794--27237837	16	2.8	15	86	10	61	34	22	15	27	1.95
27240981--27241021	21	2.0	21	85	9	57	36	17	7	39	1.77

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