genome.fa.s11.2.7.7.80.10.50.1000.198.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: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62681010

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   207   208   
          209   210   

This is table  198  of  210  ( 25152 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)
58086286--58086331	24	1.9	24	90	0	74	34	2	15	47	1.57
58089644--58089713	31	2.3	31	100	0	140	57	8	11	22	1.61
58090674--58090716	11	3.7	11	79	11	50	37	2	13	46	1.57
58090669--58090716	24	2.0	24	95	0	87	37	2	12	47	1.53
58090664--58090720	24	2.6	21	77	17	62	40	1	10	47	1.48
58091967--58092124	77	2.1	76	96	1	289	34	12	27	25	1.91
58097034--58097082	21	2.3	23	79	13	59	55	4	0	40	1.19
58098520--58098551	15	2.1	15	100	0	64	56	0	18	25	1.42
58100870--58100905	6	6.0	6	100	0	72	16	0	0	83	0.65
58102250--58102444	99	2.0	99	81	2	230	35	19	19	25	1.95
58104648--58104706	30	2.0	30	89	0	91	37	30	16	15	1.90
58109580--58109636	20	2.7	21	83	8	71	29	0	12	57	1.35
58112520--58112553	15	2.4	14	90	5	50	55	0	14	29	1.40
58114175--58114813	87	7.3	86	79	3	508	23	23	21	30	1.99
58114264--58114818	131	4.2	130	85	3	648	23	23	22	30	1.99
58114175--58114903	218	3.3	218	83	3	768	23	23	22	30	1.99
58114264--58114903	87	7.3	87	78	5	443	23	23	22	30	1.99
58114649--58114917	131	2.1	131	98	0	520	23	23	22	30	1.99
58117013--58117047	6	5.8	6	100	0	70	0	17	0	82	0.66
58117133--58117171	7	5.6	7	88	11	53	2	7	2	87	0.73
58117133--58117178	14	3.3	14	87	6	58	4	6	2	86	0.75
58117126--58117185	13	4.5	13	77	12	50	8	5	5	81	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58124911--58125351	131	3.4	131	87	2	580	24	22	21	31	1.98
58125047--58125206	87	1.8	87	86	5	234	23	23	25	28	2.00
58124911--58125354	44	10.1	44	72	8	289	24	22	21	31	1.98
58132245--58132282	20	1.9	20	94	0	67	31	0	5	63	1.17
58139167--58139354	103	1.8	104	88	3	290	31	12	23	31	1.92
58139343--58139393	26	2.0	25	84	7	66	78	1	17	1	0.94
58144526--58144550	12	2.1	12	100	0	50	52	16	0	32	1.44
58147763--58147796	15	2.2	16	89	5	52	2	23	2	70	1.15
58167271--58167346	31	2.5	30	85	8	100	28	5	14	51	1.64
58167947--58168016	29	2.4	27	74	21	63	37	4	2	55	1.34
58167963--58168037	29	2.6	30	81	12	86	40	2	1	56	1.22
58168386--58168469	36	2.3	36	95	0	159	21	38	28	11	1.89
58175884--58175924	21	2.0	20	90	4	64	63	4	0	31	1.15
58183119--58183148	2	15.5	2	93	6	53	50	0	0	50	1.00
58187600--58187634	17	2.0	18	88	5	54	48	2	0	48	1.16
58189157--58189193	17	2.2	17	90	0	56	56	2	0	40	1.13
58189654--58189702	24	2.0	24	96	0	89	22	36	12	28	1.90
58191424--58191613	61	3.0	61	87	8	299	38	4	18	38	1.70
58194031--58194058	7	4.0	7	100	0	56	57	0	28	14	1.38
58197363--58197397	11	3.1	11	88	8	52	48	2	11	37	1.54
58199807--58199888	32	2.6	32	84	0	110	51	18	2	28	1.59
58208714--58208756	2	21.5	2	100	0	86	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58214583--58214621	9	4.3	9	83	9	53	43	0	2	53	1.14
58214650--58214707	29	2.0	30	86	3	82	32	1	1	63	1.14
58227623--58227665	20	2.1	21	86	4	61	0	32	0	67	0.91
58232600--58232646	21	2.2	22	92	3	78	21	38	19	21	1.94
58239995--58240048	23	2.3	23	80	0	63	3	25	0	70	1.04
58252785--58252822	18	2.1	18	95	0	67	21	21	31	26	1.98
58252986--58253020	18	1.9	18	88	0	52	28	20	31	20	1.97
58252664--58253178	201	2.6	198	88	2	746	28	17	29	24	1.97
58254050--58254093	20	2.2	20	92	8	72	36	4	22	36	1.75
58259016--58259045	15	2.0	15	93	0	51	50	13	30	6	1.67
58260076--58260206	36	3.6	36	76	8	147	56	0	5	37	1.28
58260010--58260203	74	2.6	74	90	1	289	55	0	6	37	1.30
58265372--58265446	28	2.8	28	82	8	84	60	1	13	25	1.41
58280341--58280384	23	2.0	22	86	4	61	31	0	0	68	0.90
58294495--58294563	29	2.3	30	80	12	79	50	14	13	21	1.76
58299597--58299630	5	6.8	5	100	0	68	82	0	0	17	0.67
58301171--58301201	16	1.9	16	93	0	53	48	9	6	35	1.62
58303724--58303762	19	2.1	19	90	0	60	35	15	12	35	1.86
58307157--58307185	14	2.0	15	93	6	51	48	17	0	34	1.47
58309841--58309920	33	2.4	33	87	0	115	17	32	11	38	1.85
58322378--58322455	37	2.1	36	88	6	113	51	1	5	42	1.32
58328164--58328247	19	4.1	19	79	14	80	52	7	0	40	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58334232--58334345	57	2.0	57	98	0	219	43	14	19	21	1.87
58335064--58335096	16	2.1	16	100	0	66	24	30	21	24	1.99
58341145--58341375	121	1.9	121	99	0	453	30	32	7	29	1.85
58346720--58346750	15	2.1	15	93	0	53	25	3	19	51	1.62
58357696--58357745	3	16.7	3	100	0	100	68	0	0	32	0.90
58358277--58358342	3	21.3	3	90	6	105	34	0	3	62	1.11
58359052--58359122	36	2.0	36	97	0	133	33	18	28	19	1.95
58366186--58366228	18	2.4	18	84	0	50	46	23	2	27	1.64
58367380--58367411	3	10.7	3	100	0	64	68	0	0	31	0.90
58371626--58371658	15	2.1	16	88	5	50	18	0	3	78	0.87
58373642--58373727	3	28.7	3	100	0	172	33	0	0	66	0.92
58375897--58375922	3	8.7	3	100	0	52	69	0	0	30	0.89
58377790--58377852	2	31.5	2	100	0	126	49	0	0	50	1.00
58379111--58379153	21	2.0	21	86	0	59	25	0	2	72	0.97
58379134--58379178	15	3.0	15	80	0	54	33	2	6	57	1.37
58380787--58380824	18	2.1	19	95	5	69	68	0	0	31	0.90
58380896--58380933	15	2.4	16	91	8	60	26	5	0	68	1.11
58384080--58384118	2	19.5	2	100	0	78	51	0	0	48	1.00
58393663--58393699	12	2.9	13	92	8	67	54	8	0	37	1.30
58396404--58396439	3	12.0	3	100	0	72	66	0	0	33	0.92
58398277--58398314	18	2.1	19	95	5	69	68	0	0	31	0.90
58398518--58398551	4	8.5	4	100	0	68	23	0	0	76	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58400768--58400804	19	1.9	19	88	0	56	51	0	0	48	1.00
58405728--58405762	14	2.5	14	95	0	61	45	25	8	20	1.79
58405986--58406042	25	2.4	24	76	5	62	43	1	0	54	1.10
58409088--58409142	25	2.3	24	75	6	58	45	0	0	54	0.99
58412051--58412082	13	2.4	14	94	5	57	62	0	0	37	0.95
58412215--58412261	2	23.5	2	100	0	94	51	0	0	48	1.00
58412659--58412731	2	34.0	2	93	5	101	46	5	1	46	1.34
58413678--58413713	17	2.2	17	95	5	65	11	5	33	50	1.61
58413920--58413969	24	2.1	23	88	3	73	10	24	26	40	1.86
58416674--58416716	18	2.3	18	80	11	52	48	20	0	30	1.50
58417728--58417856	56	2.3	56	97	0	240	37	10	21	31	1.87
58418117--58418247	65	2.0	65	100	0	262	36	6	15	41	1.72
58419756--58419814	29	2.0	30	86	3	84	49	15	6	28	1.70
58419766--58419835	29	2.3	29	83	9	79	44	15	7	32	1.74
58420412--58420438	13	2.1	13	100	0	54	37	0	0	62	0.95
58422885--58422934	24	2.0	26	85	14	70	60	0	12	28	1.32
58423033--58423087	25	2.3	24	75	6	58	45	0	0	54	0.99
58428432--58428472	20	2.0	20	90	4	64	48	7	2	41	1.44
58428805--58428842	8	5.3	7	82	17	51	68	0	5	26	1.11
58429493--58429518	13	2.0	13	100	0	52	53	7	7	30	1.57
58437959--58437987	6	4.8	6	100	0	58	17	0	0	82	0.66
58438505--58438597	41	2.3	39	76	7	96	35	24	21	18	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58438693--58438816	41	3.0	41	78	9	117	16	20	25	36	1.94
58438745--58439061	41	7.7	41	79	4	271	16	22	27	33	1.96
58438786--58439061	123	2.2	123	81	3	324	17	23	27	31	1.96
58440246--58440403	78	2.0	78	98	0	307	37	4	16	41	1.69
58443239--58443300	31	2.0	31	100	0	124	22	19	35	22	1.96
58443524--58443694	66	2.6	65	84	4	209	40	18	26	14	1.89
58443665--58443734	21	3.3	21	89	0	104	32	17	44	5	1.72
58444095--58444427	43	7.7	43	90	2	472	21	18	29	30	1.97
58444308--58444379	25	3.2	25	59	25	59	25	20	27	26	1.99
58444048--58444430	43	8.9	42	85	6	450	21	19	29	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   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210