genome.fa.s1.2.7.7.80.10.50.1000.170.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: Chr01 ID=Chr01-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  55868233

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   

This is table  170  of  187  ( 22383 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)
50552435--50552578	75	1.9	77	86	2	211	18	25	25	29	1.98
50552935--50552988	7	7.4	7	77	8	54	16	1	44	37	1.59
50553325--50553367	14	3.1	14	90	3	61	18	2	30	48	1.60
50553328--50553395	21	3.3	20	80	11	66	17	2	32	47	1.63
50553328--50553395	7	10.0	6	80	13	55	17	2	32	47	1.63
50553865--50554105	115	2.1	115	88	1	367	29	19	19	31	1.96
50553965--50554495	261	2.0	261	90	1	850	27	18	20	33	1.96
50555127--50555170	21	2.1	21	100	0	88	38	13	13	34	1.84
50558843--50559196	85	4.2	83	86	5	410	26	22	19	30	1.98
50558846--50559177	127	2.6	127	87	4	449	26	22	19	31	1.98
50558843--50559196	42	8.3	42	89	3	455	26	22	19	30	1.98
50575269--50575327	10	5.6	11	82	15	72	15	1	8	74	1.13
50575273--50575312	21	1.9	21	89	0	62	12	2	12	72	1.22
50593883--50593912	15	1.9	16	93	6	53	36	0	10	53	1.35
50625570--50625620	27	1.9	27	84	11	70	54	1	33	9	1.44
50626349--50626501	73	2.1	73	100	0	306	33	20	5	39	1.75
50629134--50629220	27	3.2	27	82	12	108	43	18	14	22	1.87
50629615--50629728	30	3.9	30	84	4	137	22	27	24	25	2.00
50638156--50638350	18	10.8	18	79	0	156	30	14	14	40	1.86
50638155--50638350	36	5.4	36	80	0	194	30	14	15	40	1.87
50638155--50638353	54	3.7	54	83	0	209	30	14	15	39	1.87
50647075--50647548	44	10.9	43	74	12	283	28	22	19	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50646999--50647283	84	3.3	84	71	12	290	30	22	20	26	1.98
50646994--50647329	173	1.9	173	89	3	516	30	22	20	27	1.98
50647256--50647592	176	1.9	180	89	2	529	28	23	20	27	1.99
50658190--50658254	22	2.8	24	77	15	73	66	4	4	24	1.30
50660150--50660191	22	2.0	21	85	4	57	7	33	0	59	1.25
50661667--50661793	63	2.0	63	100	0	254	38	20	11	29	1.87
50663460--50663495	17	2.1	17	100	0	72	16	22	5	55	1.62
50665620--50665649	13	2.3	13	94	0	51	20	10	40	30	1.85
50668558--50669018	230	2.0	230	94	0	805	28	19	12	39	1.88
50669168--50669213	24	1.9	24	95	0	83	15	36	10	36	1.82
50681909--50681961	27	2.0	27	88	7	81	30	20	30	18	1.97
50685833--50685892	15	4.1	15	78	2	50	30	0	3	66	1.07
50685847--50685929	42	2.0	43	85	2	114	36	1	3	59	1.23
50685833--50685936	42	2.5	42	78	7	113	36	0	2	59	1.19
50688628--50688681	25	2.2	25	86	0	72	33	7	1	57	1.37
50688879--50688976	34	2.9	33	86	7	144	42	19	0	37	1.51
50688873--50688983	34	3.3	33	82	8	143	43	17	0	39	1.49
50689173--50689204	14	2.3	14	94	0	55	15	37	31	15	1.89
50689422--50689466	18	2.4	19	85	14	58	42	0	2	55	1.12
50689571--50689609	18	2.2	18	86	4	53	33	0	5	61	1.18
50690564--50690601	19	2.0	19	100	0	76	36	0	42	21	1.53
50690900--50691265	159	2.3	162	84	3	472	34	7	21	36	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50693215--50693271	3	19.0	3	100	0	114	33	0	0	66	0.92
50693457--50693512	22	2.5	22	75	16	62	26	3	8	60	1.43
50697204--50697234	2	15.5	2	100	0	62	48	0	0	51	1.00
50702679--50703093	41	9.7	42	67	15	129	29	21	18	30	1.97
50702650--50703866	129	9.4	129	73	11	676	28	21	19	30	1.97
50702805--50703252	216	2.1	213	83	5	562	28	21	18	31	1.97
50702682--50704086	170	8.2	172	87	4	1839	28	21	19	30	1.98
50705203--50705249	21	2.2	21	84	0	58	27	36	10	25	1.89
50706206--50706242	6	5.8	6	87	12	56	0	18	0	81	0.70
50706206--50706241	14	2.8	13	91	8	56	0	16	0	83	0.65
50706265--50706310	9	5.2	9	85	15	69	10	0	8	80	0.91
50708363--50708411	19	2.5	20	80	6	57	42	12	18	26	1.85
50714427--50714478	16	3.2	16	88	0	77	36	1	28	32	1.69
50714633--50714683	26	2.0	25	84	3	66	43	0	3	52	1.19
50726774--50726853	36	2.2	36	84	0	97	30	8	27	33	1.87
50732681--50732882	99	2.0	99	97	0	377	25	22	18	33	1.97
50735285--50735351	34	1.9	35	87	3	100	31	10	11	46	1.75
50735300--50735339	20	2.0	20	90	0	62	27	10	12	50	1.72
50738601--50738641	4	10.2	4	94	0	64	46	24	4	24	1.72
50746616--50746775	39	4.1	39	79	4	153	33	15	17	34	1.91
50746640--50746775	40	3.5	38	80	10	114	32	15	18	33	1.92
50749132--50749189	13	4.5	13	82	0	71	31	24	5	39	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50753695--50753756	29	2.1	29	96	0	115	32	32	3	32	1.74
50764355--50764455	51	2.0	51	90	3	159	28	22	19	28	1.98
50764366--50764474	51	2.1	51	86	0	146	28	23	21	26	1.99
50767690--50767727	19	2.1	17	90	9	58	78	5	13	2	1.02
50769089--50769149	12	5.0	13	78	11	67	44	14	16	24	1.85
50769090--50769147	24	2.4	24	88	0	80	44	15	17	22	1.86
50772336--50772378	21	2.0	23	81	9	54	27	6	9	55	1.57
50774823--50774972	36	3.9	36	77	16	156	29	20	12	37	1.90
50774859--50775013	46	3.6	46	78	16	195	28	21	12	36	1.91
50774780--50775013	82	2.9	82	92	1	375	29	21	13	35	1.91
50778665--50778742	20	3.9	20	80	9	97	46	20	23	10	1.81
50778664--50778742	40	2.0	40	97	0	149	46	20	22	10	1.80
50780182--50780250	26	2.7	26	93	0	111	23	30	23	23	1.99
50781981--50782016	15	2.4	15	95	0	63	19	33	30	16	1.94
50787379--50787635	44	5.8	45	71	10	138	30	23	16	29	1.96
50787309--50787668	132	2.7	132	90	1	551	29	23	17	30	1.97
50787642--50787908	44	6.2	44	70	11	142	29	19	18	32	1.96
50788034--50788963	128	7.2	128	91	1	1400	25	22	18	33	1.97
50788034--50788963	257	3.6	256	90	1	1400	25	22	18	33	1.97
50790254--50790303	7	7.0	7	82	15	59	14	16	0	70	1.18
50790254--50790304	13	3.5	15	82	15	63	13	15	0	70	1.17
50791109--50791153	14	3.1	14	81	6	54	4	20	0	75	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50791138--50791177	18	2.2	18	86	0	53	15	12	5	67	1.38
50791138--50791165	6	4.7	6	100	0	56	14	14	0	71	1.15
50795844--50795893	23	2.3	23	80	16	61	62	4	4	30	1.32
50796671--50796700	11	2.7	11	94	0	51	0	10	3	86	0.67
50798511--50798557	25	1.9	24	83	12	60	36	2	6	55	1.37
50806057--50806207	26	5.7	26	83	1	158	25	13	27	33	1.94
50806631--50806725	49	1.9	49	87	4	138	23	18	17	40	1.92
50821609--50821657	26	2.0	25	84	8	64	28	8	6	57	1.52
50823683--50823729	24	2.0	24	100	0	94	17	14	17	51	1.77
50834982--50835019	19	2.0	19	85	10	51	21	42	0	36	1.53
50835789--50835832	21	2.0	22	83	12	56	34	6	9	50	1.61
50865856--50866004	70	2.1	70	92	0	253	24	20	27	26	1.99
50877459--50877509	25	2.0	25	96	0	93	21	23	17	37	1.94
50877462--50877554	25	3.7	25	76	11	91	26	23	18	31	1.97
50881042--50881112	36	2.0	36	100	0	142	30	33	0	35	1.58
50897836--50897961	30	4.2	30	75	7	105	19	25	12	42	1.87
50897900--50897968	29	2.3	29	85	2	84	20	27	15	36	1.93
50900056--50900112	30	1.9	29	89	3	87	36	12	21	29	1.90
50900393--50900568	45	4.0	45	81	1	221	26	15	24	33	1.95
50903898--50903922	12	2.1	12	100	0	50	32	24	0	44	1.54
50906502--50906562	32	1.9	32	86	6	88	40	13	22	22	1.89
50906498--50906646	61	2.4	61	78	0	154	37	14	24	24	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50906533--50906663	61	2.2	60	78	6	138	36	13	24	25	1.92
50910769--50910913	53	2.7	53	82	4	193	34	14	24	26	1.94
50911125--50911263	61	2.3	61	80	1	152	38	9	27	24	1.86
50911222--50911286	32	2.0	32	87	0	94	36	10	27	24	1.89
50911256--50911451	61	3.2	60	79	5	198	33	15	20	29	1.94
50917421--50917507	25	3.5	25	93	3	140	31	13	24	31	1.94
50926407--50926826	138	3.0	138	89	0	642	40	7	5	46	1.54
50928883--50928993	51	2.2	50	83	4	134	25	19	19	35	1.96
50941678--50941805	26	4.8	26	79	9	123	32	25	18	23	1.97
50941678--50941831	81	1.9	81	84	0	209	33	24	18	23	1.97

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