genome.fa.s1.2.7.7.80.10.50.1000.122.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: 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  122  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)
36879224--36879271	20	2.4	20	85	0	69	25	35	18	20	1.95
36886187--36886298	23	4.9	23	78	0	125	36	26	6	30	1.81
36886187--36886298	46	2.4	46	89	0	170	36	26	6	30	1.81
36892703--36892774	28	2.5	29	88	2	110	29	9	13	47	1.75
36904843--36904889	20	2.3	20	85	0	58	25	19	29	25	1.98
36930218--36930280	21	3.0	21	85	2	81	28	3	34	33	1.73
36930229--36930261	11	3.1	11	82	8	50	33	0	36	30	1.58
36931412--36931470	30	2.0	30	83	6	75	28	15	25	30	1.96
36933592--36933664	29	2.5	29	90	0	119	30	9	13	46	1.75
36936389--36936495	34	3.1	34	91	4	162	25	23	17	33	1.96
36936692--36936733	16	2.6	16	80	0	57	52	23	11	11	1.71
36938995--36939076	12	6.9	12	70	16	55	13	23	1	62	1.38
36939072--36939108	14	2.8	13	88	8	56	8	13	0	78	0.96
36939059--36939156	18	5.3	18	68	7	70	9	17	2	71	1.22
36939049--36939187	57	2.4	61	70	16	134	12	17	2	68	1.30
36949938--36949984	20	2.3	20	85	7	60	25	17	29	27	1.97
36953200--36953243	22	1.9	24	86	9	65	29	11	13	45	1.79
36953637--36953709	29	2.5	29	95	0	128	31	9	13	45	1.76
36956225--36956258	11	3.2	11	83	8	52	23	32	14	29	1.94
36958241--36958269	6	4.8	6	100	0	58	34	0	48	17	1.47
36968509--36968571	21	3.0	21	85	2	90	33	3	31	31	1.74
36970443--36970472	15	2.1	14	93	6	51	6	20	0	73	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36970482--36970535	19	2.7	20	82	8	65	9	12	1	75	1.11
36972732--36972769	15	2.4	16	95	4	69	10	10	2	76	1.12
36974530--36974573	22	2.0	22	95	0	79	25	36	4	34	1.76
36976429--36976512	40	2.1	41	88	2	125	44	14	11	29	1.81
36980502--36980541	18	2.2	18	86	0	53	65	2	25	7	1.32
36995417--36995605	92	2.0	93	98	1	371	30	28	14	25	1.95
37002223--37002266	22	2.0	22	90	0	70	36	4	34	25	1.76
37008674--37008746	29	2.5	29	91	4	121	31	9	13	45	1.76
37011224--37011317	46	2.0	46	91	4	154	35	21	20	23	1.96
37015429--37015471	20	2.2	20	86	0	59	53	2	30	13	1.53
37027753--37027793	21	2.0	21	90	0	64	19	4	7	68	1.32
37027753--37027793	11	3.8	11	87	6	57	19	4	7	68	1.32
37028111--37028203	46	2.0	46	93	4	161	34	20	20	24	1.96
37044434--37044487	27	2.0	28	85	3	74	27	7	12	51	1.66
37045781--37045822	12	3.4	12	83	3	57	57	4	9	28	1.51
37048979--37049051	29	2.5	29	86	0	110	30	9	12	47	1.73
37050254--37050278	10	2.5	10	100	0	50	0	12	0	88	0.53
37055091--37055157	20	3.3	20	93	0	107	25	32	17	23	1.97
37057229--37057361	39	3.4	38	74	10	101	30	27	20	22	1.98
37057466--37057536	23	2.8	25	81	10	74	33	28	0	38	1.57
37057680--37057725	12	3.8	12	85	0	56	52	8	0	39	1.33
37058893--37058935	21	2.0	21	81	0	50	58	6	0	34	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37059023--37059083	24	2.5	23	80	15	61	49	4	0	45	1.23
37059031--37059110	35	2.3	35	85	8	103	50	5	0	45	1.23
37063537--37063579	21	2.0	21	82	8	52	23	20	4	51	1.66
37065079--37065121	6	7.2	6	86	0	50	51	9	0	39	1.34
37067947--37068007	24	2.5	23	80	15	61	49	6	0	44	1.28
37067955--37068034	35	2.3	35	83	8	94	50	6	0	43	1.27
37086824--37086864	11	3.9	11	90	9	68	14	7	0	78	0.96
37086820--37086854	11	2.9	12	87	12	54	20	8	0	71	1.11
37086827--37086864	20	1.9	20	88	0	58	13	7	0	78	0.94
37089144--37089187	21	2.1	21	100	0	88	72	4	9	13	1.24
37091384--37091448	28	2.4	28	86	2	87	10	21	3	64	1.38
37093620--37093651	11	2.8	11	95	4	55	6	3	6	84	0.86
37093598--37093639	16	2.7	16	92	3	68	11	9	2	76	1.12
37093642--37093668	13	2.1	13	100	0	54	25	7	0	66	1.17
37095897--37095950	27	2.0	28	81	3	65	50	12	9	27	1.71
37098681--37098709	14	2.1	14	100	0	58	34	24	13	27	1.93
37100962--37101006	12	3.8	12	82	2	56	15	20	2	62	1.43
37100962--37101004	22	1.9	22	86	13	61	16	20	2	60	1.46
37104588--37104652	22	2.9	22	79	2	67	36	4	32	26	1.77
37104350--37105064	359	2.0	356	92	1	1189	33	9	27	29	1.88
37104942--37105004	21	3.0	21	88	2	90	30	3	33	33	1.74
37108158--37108199	22	2.0	21	90	4	66	30	4	33	30	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37111879--37111943	20	3.3	19	73	16	51	38	16	21	23	1.93
37114159--37114217	30	2.0	30	83	6	75	30	25	15	28	1.96
37114490--37114556	31	2.1	32	81	13	77	26	11	29	31	1.92
37115346--37115387	22	1.9	22	100	0	84	30	33	4	30	1.78
37125246--37125301	10	5.6	10	76	16	53	30	19	25	25	1.98
37125238--37125303	20	3.3	20	95	0	114	33	18	24	24	1.97
37125238--37125321	20	4.2	20	90	3	107	32	17	26	23	1.97
37127413--37127447	18	1.9	18	88	11	54	25	17	0	57	1.40
37127447--37127507	24	2.5	24	78	5	77	4	21	3	70	1.21
37128408--37128442	12	2.8	13	82	8	54	2	8	8	80	1.01
37128411--37128464	23	2.4	22	75	3	54	5	11	7	75	1.16
37131772--37131825	27	2.0	28	85	3	74	51	12	7	27	1.66
37135360--37135442	28	3.0	28	75	7	87	42	9	14	33	1.78
37135421--37135482	28	2.2	29	79	2	72	53	12	6	27	1.63
37135791--37135887	29	3.1	34	62	32	90	29	10	13	46	1.76
37135804--37135899	33	3.2	33	67	27	102	31	9	14	44	1.77
37137618--37137661	11	4.0	11	88	11	72	72	9	2	15	1.19
37137660--37137723	32	2.0	32	100	0	128	40	15	12	31	1.85
37137735--37137777	16	2.7	16	100	0	86	62	4	11	20	1.46
37144519--37144564	19	2.3	20	77	3	58	21	23	17	36	1.94
37150844--37150910	18	3.8	18	79	11	68	68	1	20	8	1.25
37151402--37151475	37	2.0	37	97	0	139	36	18	17	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37151417--37151474	17	3.2	17	68	13	53	34	18	18	27	1.95
37151414--37151477	18	3.5	18	69	12	58	32	20	18	28	1.96
37153540--37153569	15	1.9	16	93	6	53	80	0	3	16	0.85
37155444--37155470	12	2.2	12	100	0	54	37	11	29	22	1.89
37165087--37165126	18	2.2	18	86	4	53	12	27	0	60	1.33
37166170--37166217	12	3.8	12	94	5	78	20	10	0	68	1.18
37166258--37166302	11	3.9	12	82	8	58	11	8	13	66	1.44
37168849--37168886	19	2.0	20	84	5	51	47	28	10	13	1.76
37173016--37173071	27	2.1	27	89	0	85	28	16	17	37	1.91
37173050--37173365	27	11.7	27	83	5	304	20	16	20	42	1.89
37173049--37173365	54	5.9	53	82	5	336	20	16	20	42	1.89
37173022--37173365	81	4.3	81	83	2	381	20	16	20	42	1.89
37173588--37173625	19	2.0	19	85	10	51	26	44	18	10	1.82
37191281--37191328	17	2.9	16	76	11	53	79	4	14	2	0.98
37199816--37199879	20	3.2	20	66	4	56	15	28	17	39	1.90
37199803--37199909	41	2.6	41	93	0	178	17	26	18	37	1.93
37199836--37199900	21	3.1	21	65	20	55	20	29	16	33	1.95
37200897--37200976	28	2.9	28	94	0	142	30	22	22	25	1.99
37201342--37201563	81	2.7	81	91	0	345	18	18	24	39	1.92
37201342--37201563	27	8.2	27	91	0	309	18	18	24	39	1.92
37202228--37202276	24	2.0	25	88	4	73	26	32	0	40	1.56
37207571--37207647	32	2.5	31	87	4	109	28	31	18	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37215990--37216074	21	4.0	22	68	25	56	67	3	21	8	1.33
37220590--37220660	36	2.0	36	97	0	133	25	11	18	45	1.82
37221180--37221207	14	2.0	14	100	0	56	42	7	7	42	1.59
37221497--37221541	23	2.0	23	91	8	74	22	48	4	24	1.68
37224823--37224876	28	2.0	28	85	3	74	48	1	9	40	1.46
37230694--37231078	194	2.0	194	94	0	680	42	8	29	20	1.81
37234998--37235037	18	2.2	18	86	4	53	12	27	0	60	1.33
37236099--37236155	13	4.6	12	91	6	71	17	8	1	71	1.19
37236098--37236155	12	4.6	12	85	8	71	17	8	1	72	1.18
37236098--37236145	13	3.6	13	97	2	87	18	8	0	72	1.08

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