genome.fa.s2.2.7.7.80.10.50.1000.109.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  109  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)
32295391--32295585	106	1.8	105	81	1	237	20	24	21	33	1.97
32295738--32295808	25	2.9	25	85	2	90	18	25	22	33	1.96
32295736--32295829	25	3.8	25	78	5	75	21	22	20	36	1.95
32304345--32304483	70	2.0	70	95	0	251	30	12	12	43	1.81
32308961--32308995	3	11.7	3	100	0	70	68	0	31	0	0.90
32314200--32314249	23	2.2	23	100	0	100	32	30	10	28	1.89
32317012--32317041	14	2.1	14	100	0	60	53	20	6	20	1.67
32318113--32318225	25	4.6	25	87	4	115	32	18	23	24	1.97
32318140--32318243	49	2.1	49	79	12	115	33	15	25	25	1.95
32319961--32320388	27	15.9	27	86	1	529	39	21	17	21	1.92
32320754--32320870	28	4.2	28	91	1	182	23	21	22	33	1.97
32324149--32324946	266	3.0	266	99	0	1587	36	22	6	33	1.81
32336522--32336684	45	3.6	45	81	4	195	22	14	26	37	1.92
32339038--32339079	21	2.0	21	86	9	59	50	7	0	42	1.30
32340123--32340343	50	4.5	48	81	7	252	26	20	31	21	1.98
32340127--32340308	97	1.8	99	89	3	287	26	19	32	20	1.97
32351788--32351868	37	2.2	37	93	0	135	23	37	16	23	1.94
32352050--32352102	26	2.0	27	92	3	90	30	24	20	24	1.99
32354121--32354169	24	2.1	23	88	3	71	53	8	2	36	1.43
32358380--32358428	24	2.1	24	84	3	64	46	8	4	40	1.52
32358740--32358788	22	2.2	22	92	0	80	28	8	16	46	1.75
32370351--32370383	17	1.9	17	93	0	57	21	12	9	57	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32377743--32377787	5	9.0	5	85	9	56	17	0	4	77	0.92
32381826--32381908	3	27.7	3	81	4	96	26	4	2	66	1.24
32383313--32383369	27	2.3	25	82	14	73	12	7	5	75	1.17
32391610--32391652	7	6.0	7	81	5	50	48	39	0	11	1.40
32397942--32398009	33	2.1	33	83	5	84	30	13	16	39	1.86
32408331--32408524	50	3.9	50	84	0	226	21	29	23	26	1.99
32408342--32408524	100	1.8	101	86	1	269	19	29	23	27	1.98
32415706--32415898	50	3.8	50	76	3	208	23	29	21	26	1.99
32417757--32417918	26	6.2	26	82	0	171	25	19	19	35	1.95
32417757--32417918	78	2.1	79	82	3	193	25	19	19	35	1.95
32431203--32431269	29	2.2	30	84	7	82	41	14	16	26	1.87
32431660--32431828	27	6.3	27	84	2	189	18	15	21	44	1.87
32431663--32431822	54	3.0	54	86	3	214	17	16	21	45	1.86
32431663--32431822	81	2.0	81	86	0	221	17	16	21	45	1.86
32432821--32432893	36	2.0	36	94	0	128	24	30	8	36	1.85
32434319--32434413	30	3.2	30	95	0	172	18	27	32	21	1.97
32438889--32438923	15	2.4	15	90	4	54	48	0	8	42	1.33
32440215--32440248	16	2.1	15	89	10	50	76	5	5	11	1.14
32441361--32441414	28	2.0	26	85	7	72	62	1	25	9	1.35
32447315--32447387	17	4.4	17	79	20	91	21	1	0	76	0.86
32447314--32447377	23	2.9	21	84	13	60	20	1	0	78	0.84
32447314--32447380	5	12.4	5	82	14	64	20	1	0	77	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32447314--32447380	32	2.1	33	91	8	111	20	1	0	77	0.85
32447316--32447394	32	2.5	31	84	10	106	22	2	0	74	0.93
32447451--32447495	17	2.6	17	92	0	72	53	8	24	13	1.68
32448762--32449054	50	5.7	51	82	4	290	27	19	27	24	1.99
32448768--32449053	150	1.9	153	82	7	368	27	19	28	24	1.98
32453232--32453384	56	2.7	55	87	6	209	28	16	28	26	1.97
32453236--32453479	50	4.6	50	79	7	182	27	19	27	25	1.99
32456603--32456637	15	2.4	15	90	4	54	48	0	8	42	1.33
32465923--32465974	26	2.0	26	92	3	86	71	0	0	28	0.87
32469867--32470001	40	3.4	40	73	14	109	37	22	23	17	1.94
32470040--32470442	41	9.8	41	85	5	460	15	23	27	34	1.94
32470040--32470382	123	2.8	123	91	2	539	14	22	27	34	1.93
32470040--32470442	123	3.3	121	86	5	510	15	23	27	34	1.94
32472603--32472681	7	10.4	7	70	15	50	20	1	45	32	1.59
32475587--32475622	16	2.2	16	90	9	56	44	22	2	30	1.67
32475638--32475893	31	8.1	31	83	8	313	46	12	2	38	1.54
32475644--32475846	9	21.6	9	68	22	73	48	11	2	37	1.53
32475682--32475844	22	7.6	22	64	25	66	46	11	3	38	1.56
32475644--32475885	65	3.8	65	89	6	367	47	12	2	38	1.55
32475864--32475911	18	2.9	16	76	11	60	45	22	2	29	1.64
32475673--32475889	9	24.0	9	68	22	57	46	12	2	38	1.56
32475915--32475971	26	2.2	25	87	3	78	47	17	3	31	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32475949--32475982	16	2.1	16	94	0	59	52	17	0	29	1.45
32481396--32481648	43	5.9	42	79	6	231	24	16	30	28	1.97
32481358--32481628	86	3.2	84	81	7	296	24	15	29	30	1.96
32499733--32499931	27	7.4	27	79	2	211	42	21	19	16	1.89
32501123--32501215	27	3.4	27	86	2	134	39	21	18	20	1.92
32504858--32504911	3	18.0	3	100	0	108	66	33	0	0	0.92
32504910--32504951	3	14.0	3	100	0	84	66	0	0	33	0.92
32505674--32505718	18	2.5	17	80	13	54	71	0	13	15	1.15
32506115--32506175	24	2.5	24	72	2	59	39	4	37	18	1.72
32508818--32508860	18	2.4	18	80	11	52	20	18	37	23	1.94
32509211--32509387	27	6.6	27	74	6	135	40	19	16	23	1.91
32509211--32509387	54	3.3	54	77	3	185	40	19	16	23	1.91
32509233--32509403	81	2.1	81	86	2	236	37	20	20	21	1.95
32509233--32509407	27	6.5	27	76	3	120	37	20	20	21	1.95
32510802--32511135	27	12.4	26	77	8	258	44	22	15	17	1.86
32512704--32512735	14	2.4	14	94	5	57	21	18	15	43	1.87
32515021--32515062	3	14.0	3	100	0	84	33	0	0	66	0.92
32515382--32515671	150	1.9	150	86	2	413	42	5	9	42	1.60
32516575--32516663	27	3.3	27	96	0	160	35	11	10	42	1.74
32518502--32518539	17	2.2	17	90	0	58	31	7	15	44	1.75
32518512--32518572	17	3.5	17	76	14	54	24	14	18	42	1.88
32534679--32534975	50	5.8	50	80	3	186	28	20	26	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32548730--32548791	18	3.4	18	75	2	61	29	11	16	43	1.82
32550465--32550571	50	2.1	50	79	3	117	26	20	32	20	1.97
32558135--32558185	21	2.4	21	83	9	59	62	9	3	23	1.42
32558473--32558502	12	2.5	12	94	0	51	40	0	43	16	1.48
32569078--32569198	61	2.0	61	95	0	215	30	14	20	34	1.92
32571374--32571421	24	2.0	24	83	0	60	47	10	6	35	1.63
32579525--32579569	19	2.4	19	88	0	63	24	26	28	20	1.99
32579591--32579636	19	2.4	19	81	0	56	30	26	26	17	1.97
32586111--32586156	22	2.1	21	84	11	58	15	4	8	71	1.26
32592286--32592321	18	2.0	18	94	0	63	38	19	11	30	1.86
32601080--32601118	20	1.9	21	94	5	71	33	2	0	64	1.08
32601080--32601124	20	2.1	21	88	8	65	35	2	0	62	1.08
32608144--32608799	27	24.4	27	80	5	531	42	18	18	19	1.89
32609174--32609252	28	2.8	28	80	0	86	22	24	25	27	2.00
32616236--32616753	27	19.3	26	80	5	365	44	17	17	20	1.87
32616261--32616737	54	8.9	53	80	6	419	44	18	16	20	1.87
32616236--32616736	81	6.2	80	80	6	460	44	17	16	20	1.87
32617077--32617130	28	1.9	28	88	0	81	24	25	22	27	2.00
32620455--32620493	21	1.9	21	89	5	62	35	7	17	38	1.79
32620679--32620726	20	2.4	21	74	22	57	31	14	14	39	1.86
32622484--32622890	41	9.7	40	76	9	341	22	16	25	34	1.95
32622484--32622845	84	4.4	84	89	2	518	22	16	25	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32632283--32632372	20	4.5	19	78	12	74	31	8	12	47	1.71
32632282--32632372	40	2.3	40	79	7	96	31	8	12	47	1.71
32633041--32633139	42	2.3	42	79	6	101	26	16	27	30	1.96
32634504--32634643	45	3.1	45	89	0	199	20	20	20	40	1.92
32639281--32639437	45	3.5	45	79	4	156	20	23	15	40	1.91
32650613--32650705	35	2.6	36	81	3	116	45	29	9	16	1.79
32667706--32667749	12	3.7	12	87	0	70	52	20	15	11	1.74
32671787--32671929	40	3.6	40	80	4	146	26	21	23	28	1.99
32674444--32674604	44	3.6	44	79	0	142	32	22	16	27	1.96
32674622--32674931	136	2.3	137	87	0	415	29	19	17	33	1.95

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