genome.fa.s10.2.7.7.80.10.50.1000.18.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: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62175169

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   

This is table  18  of  202  ( 24201 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)
5388604--5388762	59	2.7	58	80	7	160	22	13	13	49	1.78
5389184--5389253	32	2.2	32	84	0	86	47	14	14	24	1.81
5390336--5390367	2	16.0	2	100	0	64	50	0	0	50	1.00
5392163--5392224	30	2.1	29	90	3	97	56	11	3	29	1.50
5401498--5401641	73	2.0	73	87	2	209	29	22	16	30	1.96
5402875--5402909	17	2.1	17	94	0	61	54	8	0	37	1.31
5403276--5403309	2	17.0	2	100	0	68	50	0	0	50	1.00
5414049--5414143	3	32.7	3	78	10	83	27	5	2	65	1.25
5414115--5414149	18	1.9	18	94	0	61	31	8	5	54	1.54
5414837--5415158	109	3.0	109	88	2	436	31	17	18	33	1.93
5423369--5423552	51	3.6	50	77	4	190	22	16	29	30	1.96
5423566--5423653	45	2.0	45	95	0	158	26	18	22	32	1.97
5425971--5426022	27	1.9	27	92	0	86	30	19	5	44	1.74
5427850--5427897	21	2.3	21	85	0	69	45	10	14	29	1.78
5432234--5432263	7	4.3	7	100	0	60	26	13	26	33	1.93
5434937--5434988	18	2.9	17	80	8	68	21	1	0	76	0.87
5434936--5435022	13	6.2	13	67	21	52	18	3	3	74	1.10
5434937--5435023	35	2.4	36	80	12	99	19	3	3	73	1.12
5449630--5449654	4	6.2	4	100	0	50	76	0	0	24	0.80
5449774--5449798	3	8.3	3	100	0	50	68	0	0	32	0.90
5452012--5452045	16	2.0	18	88	11	54	52	2	2	41	1.31
5451911--5452527	246	2.5	252	82	9	698	38	9	6	45	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5452689--5452736	17	2.9	16	87	9	62	37	4	0	58	1.18
5453268--5453320	20	2.9	17	70	24	54	28	16	15	39	1.89
5454662--5454717	19	2.9	19	78	5	58	30	5	1	62	1.28
5455116--5455173	9	6.0	9	75	11	53	63	1	5	29	1.25
5455146--5455170	11	2.3	11	100	0	50	76	0	8	16	1.02
5455190--5455230	17	2.3	18	83	8	57	51	4	0	43	1.23
5457777--5457803	12	2.2	12	100	0	54	40	25	7	25	1.82
5460819--5460963	62	2.3	62	85	2	211	43	15	23	17	1.87
5461509--5461567	16	3.4	16	76	15	55	32	8	1	57	1.39
5461979--5462035	27	2.1	27	90	0	87	43	26	14	15	1.85
5462485--5462514	16	1.9	15	93	6	51	16	0	10	73	1.09
5475687--5475795	45	2.4	45	81	13	127	31	15	27	25	1.96
5475912--5476185	128	2.1	130	89	4	419	28	18	25	28	1.98
5477643--5477726	28	2.9	29	80	7	73	23	5	3	66	1.30
5477658--5477726	28	2.4	29	85	4	88	23	4	2	69	1.20
5477715--5477860	24	6.0	25	67	20	78	32	4	5	58	1.40
5488835--5488889	26	2.1	25	80	12	58	36	9	14	40	1.78
5494839--5494882	21	2.1	21	83	8	54	36	2	22	38	1.67
5495223--5495366	25	5.8	24	74	11	96	18	22	20	39	1.92
5495222--5495383	50	3.3	50	75	15	149	18	22	18	40	1.92
5495286--5495416	50	2.6	50	81	8	144	19	25	20	35	1.96
5495223--5495439	99	2.2	99	80	8	230	18	23	19	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5495387--5495465	24	3.2	24	82	8	81	17	26	21	34	1.96
5495400--5495465	24	2.7	25	83	6	82	16	25	22	34	1.95
5495401--5495479	25	3.2	25	80	8	65	17	25	22	34	1.96
5495924--5495957	2	17.0	2	100	0	68	50	0	0	50	1.00
5509974--5510010	3	12.3	3	100	0	74	32	0	0	67	0.91
5510202--5510323	42	2.9	42	87	1	172	25	20	20	33	1.97
5515423--5515488	29	2.3	28	79	7	69	59	7	4	28	1.45
5516207--5516236	15	2.1	15	93	6	53	60	26	0	13	1.34
5516851--5516876	2	13.0	2	100	0	52	50	50	0	0	1.00
5519347--5519405	30	2.0	30	96	0	109	45	13	11	28	1.79
5524684--5524727	2	22.5	2	95	4	81	50	0	0	50	1.00
5525739--5525765	1	27.0	1	100	0	54	0	0	0	100	0.00
5529039--5529075	17	2.2	17	100	0	74	29	16	10	43	1.82
5530220--5530263	18	2.4	18	80	3	52	54	13	9	22	1.67
5537956--5537985	2	15.0	2	100	0	60	50	0	0	50	1.00
5538897--5538921	12	2.1	12	100	0	50	24	36	24	16	1.94
5539081--5539173	9	10.2	9	85	6	116	39	26	10	22	1.87
5539120--5539175	19	2.9	19	82	10	62	44	26	10	17	1.82
5544195--5544236	22	2.0	21	86	13	59	19	7	2	71	1.20
5551292--5551327	3	12.0	3	100	0	72	66	0	0	33	0.92
5564738--5564792	28	2.0	28	92	0	92	32	5	7	54	1.51
5564774--5564822	20	2.4	21	76	10	57	20	2	4	73	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5565857--5565908	22	2.3	22	77	9	52	53	7	0	38	1.30
5566806--5566868	28	2.2	29	88	2	92	38	36	17	7	1.79
5569081--5569113	5	6.6	5	100	0	66	18	0	0	81	0.68
5569618--5569681	22	3.0	21	70	21	53	48	9	1	40	1.45
5575635--5575674	6	6.7	6	86	11	55	0	45	2	52	1.14
5587368--5587425	25	2.4	24	80	11	64	20	5	1	72	1.13
5587382--5587443	6	10.3	6	81	13	58	19	3	1	75	1.02
5587405--5587442	5	7.2	5	88	11	58	18	2	0	78	0.86
5595456--5595491	17	2.1	18	89	5	56	55	0	0	44	0.99
5601230--5601281	26	2.0	26	92	0	86	51	9	17	21	1.73
5606708--5606737	12	2.4	13	88	11	53	80	0	0	20	0.72
5613123--5613156	16	2.1	16	88	0	50	55	14	2	26	1.53
5619037--5619088	19	2.7	18	78	18	52	46	3	5	44	1.45
5623166--5623215	24	2.1	24	92	7	84	22	8	26	44	1.80
5623132--5623243	58	1.9	58	89	3	172	19	12	21	46	1.83
5623313--5623380	23	3.0	22	77	16	68	45	0	2	51	1.16
5623605--5623637	15	2.1	16	88	5	50	30	12	0	57	1.35
5623628--5623903	139	2.0	140	92	2	457	41	21	13	23	1.88
5629512--5629544	6	5.7	6	89	3	50	0	18	51	30	1.46
5630077--5630115	20	1.9	20	89	5	60	53	7	10	28	1.62
5635222--5635618	185	2.2	187	87	4	576	27	21	14	36	1.93
5651093--5651199	40	2.7	39	82	5	135	33	8	14	42	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5652733--5652783	23	2.2	23	85	3	66	62	5	0	31	1.19
5653211--5653258	19	2.5	20	80	10	64	37	0	6	56	1.25
5667121--5667172	17	3.1	17	97	0	95	13	0	11	75	1.06
5667121--5667172	11	4.6	11	76	4	50	13	0	11	75	1.06
5668256--5668306	21	2.5	21	83	3	68	27	0	3	68	1.07
5671184--5671245	31	2.0	31	96	0	115	17	9	17	54	1.69
5671187--5671237	15	3.3	15	70	24	52	17	7	17	56	1.63
5671188--5671238	16	3.2	16	68	15	52	17	7	15	58	1.60
5675477--5675517	22	2.0	20	85	9	55	31	12	7	48	1.68
5676618--5676669	18	2.8	19	82	8	54	48	0	1	50	1.12
5677174--5677218	16	2.8	17	77	16	51	35	4	8	51	1.54
5681933--5682387	113	4.1	113	82	4	499	30	18	22	27	1.98
5681933--5682374	222	2.0	223	84	0	571	30	18	22	28	1.97
5682344--5682430	39	2.3	39	82	9	99	33	20	25	20	1.97
5682399--5682537	75	1.9	75	84	3	190	32	20	19	28	1.97
5682807--5682859	22	2.5	21	93	6	90	9	0	41	49	1.35
5684675--5684877	89	2.3	89	93	3	363	21	12	22	43	1.86
5685075--5685131	21	2.8	20	81	7	69	38	19	36	5	1.74
5685099--5685163	33	2.0	33	93	0	112	40	18	36	4	1.71
5685554--5685761	43	4.9	43	79	5	154	27	20	23	29	1.99
5685641--5685765	43	3.0	42	85	2	169	25	20	21	32	1.97
5687708--5687743	12	3.0	12	83	0	54	52	0	11	36	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5688859--5688894	18	1.9	19	88	5	56	52	0	22	25	1.47
5688859--5688906	19	2.6	19	83	9	55	54	0	20	25	1.45
5690315--5690408	49	1.9	49	95	4	172	45	7	23	23	1.78
5692494--5692531	7	5.6	7	84	6	51	28	0	2	68	1.03
5693603--5693630	5	5.6	5	100	0	56	78	0	0	21	0.75
5696235--5696277	22	2.0	22	86	9	61	60	11	9	18	1.57
5703955--5703998	18	2.4	18	88	0	61	13	13	20	52	1.74
5708704--5708783	39	2.1	39	97	0	151	22	16	12	48	1.79
5710473--5710516	16	2.7	16	80	13	54	45	15	0	38	1.47
5712220--5712284	2	33.0	2	90	9	107	49	1	0	49	1.10

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