genome.fa.s2.2.7.7.80.10.50.1000.152.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   203   204   205   206   

This is table  152  of  206  ( 24623 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)
46044356--46044408	16	3.3	16	91	0	79	26	30	3	39	1.74
46055842--46055902	29	2.1	28	82	11	70	50	4	11	32	1.60
46056782--46056857	29	2.6	29	93	0	125	25	21	23	30	1.99
46058619--46058690	20	3.6	20	72	12	67	12	30	19	37	1.89
46065689--46065722	16	2.1	16	88	5	50	70	2	2	23	1.15
46069498--46069587	46	2.0	46	97	0	171	26	20	22	31	1.98
46075974--46076095	64	1.9	64	93	0	208	27	5	26	40	1.78
46076418--46076451	18	1.9	18	88	5	52	20	29	35	14	1.93
46079989--46080592	302	2.0	302	91	1	969	32	18	14	33	1.92
46085705--46085753	20	2.5	20	81	15	66	12	24	6	57	1.58
46093420--46093457	14	2.7	14	80	12	51	0	55	0	44	0.99
46093417--46093476	18	3.3	17	77	13	57	0	51	1	46	1.10
46096303--46096686	192	2.0	194	93	2	664	37	10	13	38	1.80
46098048--46098150	52	2.0	52	94	0	179	37	15	15	31	1.89
46106208--46106434	89	2.6	87	82	10	291	37	14	27	20	1.92
46106221--46106435	29	7.3	30	78	10	221	36	15	27	20	1.93
46109158--46109370	45	4.8	45	79	4	200	32	23	14	29	1.94
46109158--46109366	90	2.3	90	81	4	226	32	23	14	29	1.94
46110454--46110525	22	3.3	22	94	0	117	25	27	16	30	1.97
46112273--46112363	20	4.5	19	69	10	56	14	30	19	35	1.92
46112273--46112388	40	2.9	40	88	2	153	13	29	20	36	1.91
46112301--46112364	20	3.2	20	71	8	58	14	32	18	34	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46113089--46113125	19	1.9	19	88	0	56	24	27	29	18	1.98
46113751--46113855	42	2.5	42	90	0	165	26	21	23	27	1.99
46120237--46120406	39	4.3	39	90	0	250	31	14	20	34	1.92
46122831--46123097	129	2.1	128	83	6	335	23	25	20	30	1.98
46122831--46123097	43	6.2	43	80	7	276	23	25	20	30	1.98
46127520--46127596	33	2.4	31	77	16	84	35	28	10	25	1.89
46127541--46127604	33	1.9	33	93	0	110	37	26	7	28	1.84
46127791--46127991	41	4.9	41	83	6	228	21	28	20	29	1.98
46134535--46134720	23	8.1	23	80	3	169	23	16	19	39	1.92
46134560--46134720	46	3.5	46	81	1	189	23	16	20	39	1.91
46134559--46134670	45	2.5	46	88	1	172	22	17	21	38	1.93
46134561--46134720	68	2.3	69	83	2	196	23	16	20	39	1.92
46135612--46135689	38	2.1	38	100	0	156	46	14	17	21	1.84
46141254--46141412	80	2.0	81	91	1	257	47	6	20	25	1.74
46141525--46141562	20	2.0	20	84	5	51	42	2	7	47	1.46
46146658--46146770	56	2.0	56	92	0	190	30	14	12	43	1.82
46155786--46155842	27	2.2	25	81	15	62	54	0	0	45	0.99
46156656--46156709	28	1.9	28	85	7	74	29	9	24	37	1.86
46157681--46157747	20	3.4	18	78	17	55	25	13	26	34	1.93
46157695--46157748	20	2.7	20	88	5	74	24	12	27	35	1.92
46162080--46162118	17	2.3	17	100	0	78	25	17	12	43	1.85
46169101--46169133	7	4.7	7	96	0	57	27	0	27	45	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46169385--46169423	20	2.0	19	90	5	60	43	0	10	46	1.37
46173198--46173292	40	2.4	40	85	0	118	13	23	15	47	1.81
46173236--46173286	20	2.5	20	77	0	57	11	25	15	47	1.80
46173309--46173372	20	3.2	20	84	0	83	15	25	23	35	1.94
46187854--46187913	31	1.9	31	89	0	93	20	11	26	41	1.86
46190452--46190661	53	3.9	53	75	1	197	31	13	26	29	1.94
46190457--46190650	106	1.8	106	85	2	273	31	12	25	29	1.93
46193572--46193640	28	2.5	28	83	4	95	24	18	27	28	1.98
46194966--46195002	14	2.7	13	84	15	56	45	0	0	54	1.00
46194970--46195008	19	2.1	19	85	9	53	48	0	2	48	1.15
46204347--46204402	27	2.1	27	100	0	112	17	17	14	50	1.79
46205999--46206040	21	2.0	20	86	4	57	19	28	30	21	1.97
46219119--46219149	14	2.2	14	100	0	62	29	0	12	58	1.35
46224020--46224052	17	2.0	17	88	5	50	63	12	0	24	1.28
46227729--46227849	59	2.0	60	96	1	226	37	8	21	33	1.83
46229051--46229088	19	2.0	20	85	15	53	13	7	5	73	1.22
46232490--46232546	22	2.7	22	79	12	66	49	3	21	26	1.65
46232499--46232548	23	2.2	23	79	13	59	50	4	22	24	1.66
46238218--46238242	13	1.9	13	100	0	50	24	4	16	56	1.57
46243727--46243778	24	2.2	24	82	0	59	53	7	3	34	1.48
46246396--46246484	44	2.0	44	88	0	133	47	5	10	37	1.61
46250375--46250423	24	2.0	25	84	11	66	61	8	4	26	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46251123--46251179	25	2.3	24	79	8	62	0	43	0	56	0.99
46251123--46251186	25	2.6	24	73	14	60	0	40	0	59	0.97
46256832--46256924	25	3.8	24	73	8	80	21	26	20	31	1.98
46256832--46256972	73	1.9	73	84	2	185	20	26	21	31	1.98
46256976--46257042	25	2.7	25	81	4	73	26	23	14	34	1.94
46261940--46261964	10	2.5	10	100	0	50	8	24	8	60	1.52
46268317--46268358	21	1.9	21	85	9	57	30	2	0	66	1.04
46286954--46286989	14	2.6	14	90	0	54	22	27	5	44	1.75
46288487--46288543	30	1.9	30	100	0	114	24	3	28	43	1.70
46292743--46293359	320	1.9	320	97	0	1171	26	17	18	37	1.93
46293900--46294072	25	7.0	25	79	6	100	26	21	21	30	1.98
46293929--46294073	50	2.9	50	81	5	168	26	22	21	29	1.99
46295130--46295158	12	2.4	12	100	0	58	37	6	6	48	1.57
46295148--46295196	22	2.2	22	92	0	80	40	4	22	32	1.73
46295214--46295319	55	1.9	55	90	0	167	18	20	24	35	1.95
46297632--46297775	47	2.9	50	89	7	240	40	7	25	25	1.82
46306641--46306679	20	1.9	21	89	5	62	46	2	15	35	1.60
46306810--46306835	12	2.2	12	100	0	52	15	30	30	23	1.95
46307758--46307840	42	2.0	42	85	0	112	42	20	24	13	1.87
46307757--46307831	21	3.6	21	83	7	98	41	21	24	13	1.88
46309646--46309801	39	3.9	39	86	2	195	38	29	18	13	1.89
46310261--46310308	21	2.4	19	82	10	60	22	10	0	66	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46315428--46315547	60	2.0	60	96	0	222	30	13	10	46	1.75
46317088--46317167	41	2.0	41	97	0	151	22	6	21	50	1.71
46322758--46322799	18	2.3	18	84	8	50	52	2	0	45	1.13
46322786--46322821	17	2.1	17	89	0	54	69	8	2	19	1.27
46330673--46330754	40	2.0	40	88	0	119	31	10	20	36	1.88
46347319--46347376	27	2.2	26	78	6	62	56	10	8	24	1.60
46350167--46350213	17	2.9	16	79	17	53	57	8	4	29	1.48
46350787--46350824	12	3.0	13	85	14	53	68	2	0	28	1.03
46353603--46353770	26	6.5	26	74	5	117	38	25	13	23	1.91
46353603--46353770	78	2.2	78	85	0	219	38	25	13	23	1.91
46353620--46353790	26	6.6	26	75	4	139	35	26	15	22	1.94
46356217--46356275	19	3.2	18	80	7	66	35	0	1	62	1.05
46356435--46356471	17	2.2	17	90	0	56	75	0	0	24	0.80
46356448--46356480	13	2.5	13	100	0	66	72	0	0	27	0.85
46357386--46357462	22	3.5	22	78	18	88	25	28	1	44	1.62
46357386--46357462	11	6.9	11	72	21	63	25	28	1	44	1.62
46357422--46357521	51	2.0	51	86	4	139	26	26	3	45	1.68
46358652--46358677	7	3.7	7	100	0	52	26	0	15	57	1.38
46359327--46359366	18	2.2	18	86	0	53	17	30	7	45	1.76
46359622--46359670	21	2.3	21	86	6	64	32	36	24	6	1.80
46359916--46359969	27	2.0	27	92	0	90	40	37	0	22	1.54
46359937--46360342	21	19.0	21	84	3	488	44	29	1	25	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46359937--46360342	43	9.5	42	85	2	488	44	29	1	25	1.62
46362732--46362764	2	17.0	2	93	6	59	48	0	0	51	1.00
46362792--46362826	8	4.2	8	89	7	52	71	0	2	25	1.00
46362789--46362826	17	2.4	16	83	12	51	68	0	2	28	1.03
46363157--46363209	28	2.0	26	85	14	72	60	5	0	33	1.20
46363163--46363215	22	2.5	21	77	19	56	62	7	0	30	1.23
46364725--46365221	100	5.0	100	91	0	746	20	25	24	29	1.99
46364788--46365160	50	7.5	50	69	7	247	19	25	24	30	1.98
46364838--46365211	50	7.5	50	72	1	284	19	26	24	29	1.99
46366642--46366690	7	7.0	7	82	17	66	14	16	0	69	1.19

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   203   204   205   206