genome.fa.s8.2.7.7.80.10.50.1000.61.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  61  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)
17587292--17587359	28	2.3	29	92	5	111	23	25	19	32	1.97
17588568--17588741	50	3.5	50	80	3	215	24	22	31	20	1.98
17590341--17590415	31	2.4	32	88	4	118	41	6	18	33	1.77
17602012--17602051	16	2.4	17	91	8	64	22	5	5	67	1.30
17602042--17602076	9	3.8	9	85	7	52	22	0	2	74	0.95
17611369--17611483	29	3.9	29	79	1	131	37	11	28	22	1.89
17611917--17611944	10	2.8	10	100	0	56	50	7	10	32	1.64
17615243--17615273	11	2.8	11	90	0	53	70	0	3	25	1.02
17616976--17617194	30	7.4	29	82	7	246	35	13	26	25	1.92
17616976--17617194	60	3.7	60	81	7	277	35	13	26	25	1.92
17622670--17622866	39	5.1	39	78	2	207	31	5	19	43	1.72
17622671--17622866	78	2.5	77	87	1	257	31	5	19	43	1.72
17623962--17624005	18	2.4	18	85	14	63	36	15	13	34	1.87
17634577--17634689	55	2.1	55	93	0	190	38	11	15	33	1.84
17639842--17639891	17	3.0	17	75	13	59	40	6	28	26	1.79
17645791--17645888	25	3.9	25	83	0	115	24	20	23	31	1.98
17645791--17645888	50	2.0	50	93	0	169	24	20	23	31	1.98
17648702--17648730	15	1.9	15	100	0	58	58	0	6	34	1.25
17651127--17652618	743	2.0	743	91	0	2396	32	25	16	25	1.96
17653410--17653503	25	3.8	24	78	10	91	23	21	25	29	1.99
17655618--17655685	21	3.2	21	73	8	66	17	23	35	23	1.95
17655599--17655686	42	2.1	42	93	0	149	18	21	37	22	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17657481--17657540	26	2.2	27	88	11	88	41	1	5	51	1.33
17657481--17657540	13	4.5	13	74	15	59	41	1	5	51	1.33
17661480--17661512	15	2.2	15	94	0	57	63	12	0	24	1.28
17661561--17661603	15	2.6	16	85	10	52	67	6	4	20	1.33
17661860--17661901	19	2.3	18	88	11	68	59	4	0	35	1.19
17661822--17661891	25	2.9	23	76	6	59	60	4	2	32	1.31
17661976--17662028	21	2.6	20	77	13	63	73	0	1	24	0.93
17661976--17662040	25	2.6	25	82	7	78	72	1	1	24	1.02
17663066--17663103	14	2.7	14	91	0	58	5	28	26	39	1.78
17663426--17663874	44	10.2	44	63	10	137	24	23	20	30	1.98
17663380--17663981	132	4.6	132	94	0	1033	24	23	21	30	1.99
17675838--17675870	15	2.2	15	94	0	57	63	12	0	24	1.28
17675942--17675975	17	2.0	17	88	0	50	64	8	5	20	1.43
17677440--17677476	14	2.6	14	91	0	56	8	27	27	37	1.84
17679662--17679902	131	1.8	131	85	3	342	31	16	12	39	1.86
17692951--17693001	18	2.9	18	74	11	52	58	1	0	39	1.09
17695621--17695661	22	1.9	22	85	5	57	51	24	2	21	1.60
17697735--17697830	31	3.1	31	95	3	174	45	13	9	31	1.75
17712756--17712836	36	2.2	36	84	0	117	17	11	28	43	1.83
17715522--17715565	17	2.5	18	85	3	54	63	13	0	22	1.29
17716129--17716168	15	2.6	14	85	14	53	65	0	0	35	0.93
17716128--17716215	26	3.3	26	78	9	72	60	6	3	29	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17716249--17716296	16	3.1	15	75	19	53	66	2	2	29	1.14
17717556--17717595	20	2.0	20	90	0	62	17	5	2	75	1.10
17717774--17718112	142	2.4	142	85	0	462	27	23	20	28	1.99
17718274--17718352	41	2.0	40	84	2	104	31	29	15	24	1.95
17718334--17718544	51	4.2	51	85	8	279	31	25	17	26	1.97
17718131--17718544	51	8.6	46	73	14	250	30	24	16	28	1.97
17718131--17718514	99	4.0	97	78	8	383	29	24	16	29	1.96
17718310--17718544	51	4.7	51	83	8	275	31	25	16	26	1.97
17718555--17718902	51	7.3	51	77	12	344	29	24	17	28	1.97
17718555--17718904	188	1.9	188	88	1	540	29	24	17	28	1.97
17720613--17720666	22	2.4	23	84	3	65	7	1	7	83	0.88
17720615--17720664	7	6.9	7	81	6	55	8	2	6	84	0.86
17725705--17725749	17	2.6	18	85	3	56	60	11	4	24	1.49
17726278--17726331	26	2.1	26	85	0	72	59	12	5	22	1.54
17726358--17726410	17	3.2	17	75	20	58	67	1	3	26	1.17
17726363--17726410	15	3.1	15	79	8	60	68	2	2	27	1.11
17728303--17728355	27	2.0	27	100	0	106	39	22	0	37	1.54
17728776--17728819	23	1.9	22	82	17	54	36	25	0	38	1.56
17728917--17729104	51	3.7	50	83	4	243	31	28	16	23	1.96
17728917--17729100	101	1.8	101	90	3	298	31	27	16	23	1.96
17728909--17729100	102	1.9	101	88	3	278	30	27	17	24	1.97
17730641--17730676	17	2.1	18	89	5	56	16	2	0	80	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17730951--17730990	20	2.0	20	90	0	62	17	5	2	75	1.10
17737108--17737171	9	7.1	9	78	0	56	45	0	29	25	1.54
17739892--17740134	45	5.4	45	83	2	200	38	14	25	20	1.92
17743600--17743643	20	2.2	20	84	8	54	43	0	4	52	1.22
17745456--17745538	24	3.7	23	70	22	77	48	0	34	16	1.47
17746876--17746909	4	8.8	4	87	6	52	73	0	2	23	0.97
17747002--17747035	12	2.8	12	95	4	59	64	0	2	32	1.08
17757549--17757664	25	4.6	25	76	8	119	28	20	25	25	1.99
17761276--17761408	60	2.2	60	95	0	248	43	13	12	30	1.80
17761491--17761568	40	2.0	40	94	0	138	32	17	2	47	1.62
17761495--17761582	40	2.2	39	88	6	131	35	17	2	45	1.61
17765676--17765702	8	3.4	8	100	0	54	77	0	0	22	0.76
17772485--17772519	2	17.5	2	100	0	70	51	0	0	48	1.00
17773129--17773218	20	4.5	20	71	0	72	35	3	27	33	1.74
17774530--17774676	72	2.0	72	85	3	197	40	7	14	36	1.75
17776220--17776295	26	3.0	26	84	1	100	26	27	15	30	1.96
17802572--17802669	28	3.5	28	72	6	81	46	14	17	21	1.83
17804625--17804669	23	2.0	23	82	8	56	33	4	11	51	1.58
17804709--17804747	2	19.5	2	100	0	78	0	0	48	51	1.00
17805098--17805124	2	13.5	2	100	0	54	48	0	0	51	1.00
17805400--17805601	42	4.9	42	87	4	252	28	20	23	27	1.99
17809027--17809067	11	3.6	11	83	3	55	17	12	9	60	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17810081--17810142	12	5.1	12	85	12	65	17	9	0	72	1.10
17810098--17810141	4	10.8	4	86	13	63	22	4	0	72	1.02
17810086--17810142	25	2.3	24	85	11	80	19	7	0	73	1.05
17811449--17811495	20	2.3	20	89	10	69	25	8	0	65	1.20
17837166--17837196	2	15.5	2	93	0	53	51	3	0	45	1.17
17837569--17837625	3	19.0	3	92	0	96	63	0	1	35	1.05
17839635--17839890	44	5.8	44	71	11	159	26	21	19	32	1.97
17839537--17839727	98	1.9	98	86	4	269	28	20	17	33	1.96
17839636--17839889	134	1.9	133	82	4	314	26	22	19	31	1.97
17852041--17852067	2	13.5	2	100	0	54	51	0	0	48	1.00
17852442--17852495	3	18.0	3	92	0	90	62	0	1	35	1.06
17863790--17864014	41	5.5	41	82	4	242	17	20	27	35	1.95
17868007--17868043	6	6.2	6	96	0	65	81	0	2	16	0.81
17869453--17869660	95	2.2	95	80	5	238	28	23	14	34	1.94
17871477--17871567	42	2.2	42	100	0	182	23	18	10	47	1.80
17873800--17874115	24	13.8	22	66	20	114	44	20	8	25	1.80
17873718--17874144	69	6.2	69	94	1	651	45	19	9	25	1.80
17874136--17874172	18	2.1	17	90	5	56	51	13	0	35	1.41
17874950--17875105	41	3.8	41	84	1	179	35	27	17	19	1.94
17875077--17875121	16	2.8	16	96	0	81	31	28	26	13	1.94
17878834--17878872	16	2.4	16	91	0	60	17	25	25	30	1.97
17878850--17878954	41	2.6	41	82	0	129	17	20	28	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17880229--17880286	28	2.1	28	100	0	116	41	13	3	41	1.62
17884220--17884401	46	4.0	46	97	0	337	26	26	9	36	1.88
17887380--17887428	24	2.0	24	92	0	80	40	2	14	42	1.57
17887390--17887434	24	1.9	24	86	4	65	48	0	8	42	1.34
17893664--17893711	23	2.1	23	100	0	96	29	20	0	50	1.49
17908097--17908152	19	2.8	20	81	2	60	26	1	8	62	1.35
17908126--17908176	22	2.3	21	78	15	50	37	3	5	52	1.44
17908265--17908294	14	2.1	15	93	6	53	26	3	0	70	1.03
17908294--17908331	20	2.0	20	89	5	60	21	5	5	68	1.29
17912782--17912985	50	4.1	50	76	5	189	26	17	25	30	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   188   189   190