genome.fa.s11.2.7.7.80.10.50.1000.161.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  161  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)
48581155--48581202	20	2.4	20	85	0	60	50	4	2	43	1.33
48582297--48582356	27	2.2	28	87	3	86	45	1	0	53	1.10
48585803--48585871	24	2.9	24	78	8	70	50	4	5	39	1.46
48585967--48586014	3	16.0	3	95	0	87	64	0	2	33	1.05
48586456--48586504	13	3.9	12	86	7	62	83	2	10	4	0.85
48586462--48586506	12	4.0	12	80	13	60	84	0	8	6	0.78
48592232--48592277	15	2.9	17	81	15	55	36	26	6	30	1.82
48593237--48593283	9	5.6	9	75	14	55	17	0	4	78	0.90
48596215--48596241	8	3.4	8	100	0	54	0	11	33	55	1.35
48598192--48598218	8	3.4	8	100	0	54	0	11	33	55	1.35
48600578--48600652	12	6.2	12	79	0	78	12	0	53	34	1.38
48600564--48600675	48	2.3	48	95	0	197	16	0	50	33	1.45
48600644--48600698	27	2.0	27	82	0	65	23	1	50	23	1.58
48600670--48600782	42	2.7	42	88	0	163	23	8	52	15	1.70
48612796--48612828	14	2.4	14	90	10	50	48	3	0	48	1.17
48622789--48622819	1	31.0	1	93	0	53	0	0	3	96	0.21
48625130--48625221	39	2.4	38	81	5	103	32	2	54	10	1.47
48625333--48625374	16	2.6	16	88	3	57	26	21	30	21	1.98
48626587--48626772	44	4.2	43	86	2	219	22	17	21	38	1.93
48626587--48626758	88	2.0	88	87	2	247	23	17	20	38	1.93
48627414--48627469	27	2.1	27	100	0	112	35	14	14	35	1.86
48627550--48627591	21	2.0	21	86	13	61	42	11	9	35	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48629725--48629766	19	2.2	19	83	12	50	54	9	9	26	1.63
48634170--48634199	14	2.1	14	93	0	51	43	20	10	26	1.83
48637724--48637749	3	8.7	3	100	0	52	65	0	0	34	0.93
48637751--48637793	3	14.3	3	100	0	86	32	0	0	67	0.91
48638774--48638810	18	2.1	18	94	0	65	24	21	29	24	1.99
48647626--48647650	12	2.1	12	100	0	50	24	32	8	36	1.84
48648228--48648790	132	4.3	132	91	2	841	28	20	26	24	1.99
48648328--48648650	44	7.3	44	64	20	111	28	21	26	24	1.99
48650390--48650429	3	13.0	3	89	5	62	35	2	0	62	1.09
48650397--48650428	16	2.0	16	100	0	64	37	0	0	62	0.95
48650390--48650437	9	5.8	8	81	16	53	33	2	0	64	1.05
48651713--48651761	10	5.0	10	78	14	57	55	0	4	40	1.19
48651689--48651761	10	7.6	9	70	23	51	54	0	4	41	1.19
48652308--48652346	19	2.1	19	95	0	69	35	0	2	61	1.10
48652304--48652363	29	2.0	31	90	6	97	36	1	1	60	1.17
48652304--48652355	10	5.2	10	88	6	79	36	0	1	61	1.07
48663610--48663640	2	15.5	2	100	0	62	48	0	0	51	1.00
48670851--48670881	14	2.2	14	100	0	62	41	12	6	38	1.69
48671737--48671782	23	2.0	23	100	0	92	30	0	17	52	1.45
48673940--48674015	36	2.1	36	92	0	125	46	1	2	50	1.24
48675122--48675173	16	3.3	15	76	7	50	19	15	0	65	1.27
48682584--48682623	2	20.5	2	94	5	73	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48684035--48684076	6	7.0	6	100	0	84	50	0	16	33	1.46
48684043--48684082	18	2.2	18	90	0	62	57	0	12	30	1.36
48687557--48688230	105	6.4	105	83	1	751	34	13	18	33	1.90
48692630--48692736	43	2.5	42	85	5	135	39	11	28	21	1.87
48703689--48703740	20	2.6	20	76	11	61	15	32	15	36	1.89
48705039--48705132	25	3.8	25	73	16	86	27	22	22	27	1.99
48711500--48711591	25	3.7	25	75	16	100	28	23	21	26	1.99
48713225--48713309	20	4.2	20	87	1	125	14	29	15	41	1.86
48722180--48722234	14	4.0	14	78	4	58	56	9	3	30	1.48
48722424--48722696	43	6.3	43	88	1	386	30	28	16	23	1.96
48724085--48724211	50	2.5	50	93	0	209	28	31	9	30	1.89
48725008--48725033	13	2.0	13	100	0	52	53	0	15	30	1.42
48726257--48726307	26	2.0	26	88	0	75	43	17	11	27	1.84
48741229--48741308	29	2.8	29	80	1	90	41	21	12	25	1.88
48741234--48741411	28	6.2	28	76	8	155	38	19	15	27	1.91
48741259--48741419	57	2.8	55	74	9	153	36	21	14	27	1.93
48743884--48743909	8	3.2	8	100	0	52	15	0	0	84	0.62
48753052--48753341	145	2.0	145	100	0	580	24	15	25	33	1.95
48753355--48753444	36	2.5	36	96	0	162	16	13	34	35	1.88
48757088--48757130	21	2.1	21	83	8	54	44	9	2	44	1.49
48760342--48760366	12	2.1	12	100	0	50	20	8	0	72	1.10
48765307--48765359	24	2.2	24	82	0	61	50	9	5	33	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48765530--48765585	29	2.0	27	89	6	85	39	8	10	41	1.71
48765511--48765545	2	18.0	2	94	5	63	51	0	0	48	1.00
48768876--48768917	17	2.3	18	80	12	50	35	0	7	57	1.26
48769330--48769370	18	2.3	18	84	12	50	24	0	2	73	0.96
48778152--48778194	18	2.4	18	92	0	68	41	6	9	41	1.64
48778686--48778722	16	2.3	16	100	0	74	37	10	18	32	1.86
48780842--48780873	16	2.0	16	100	0	64	0	6	31	62	1.20
48785321--48785367	2	23.5	2	100	0	94	51	0	0	48	1.00
48788296--48788321	7	3.7	7	100	0	52	46	0	0	53	1.00
48788569--48788648	21	3.7	21	67	21	58	51	1	7	40	1.38
48788558--48788636	42	1.9	41	84	7	106	49	1	8	40	1.42
48789297--48789331	16	2.1	17	89	5	54	51	0	0	48	1.00
48789832--48789873	22	1.9	22	85	0	57	33	30	0	35	1.58
48789916--48789982	32	2.2	31	89	5	100	31	1	0	67	1.00
48792305--48792844	29	18.7	29	93	0	893	44	24	0	31	1.57
48792866--48792990	56	2.2	56	91	2	198	38	12	7	41	1.71
48797479--48797589	47	2.4	47	92	0	177	21	24	20	33	1.97
48803179--48803302	42	3.0	42	80	0	140	25	22	33	17	1.96
48804277--48804349	20	3.7	20	76	7	60	9	21	15	53	1.70
48805131--48805188	23	2.6	23	81	10	68	41	1	5	51	1.34
48805145--48805188	23	1.9	23	95	0	79	40	0	6	52	1.28
48805263--48805306	3	14.7	3	100	0	88	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48809018--48809060	15	2.8	15	75	3	50	55	0	11	32	1.36
48811988--48812020	14	2.4	14	90	5	50	27	12	0	60	1.32
48812283--48812323	21	2.0	21	85	9	57	41	2	12	43	1.55
48813180--48813216	14	2.9	13	85	14	51	72	0	27	0	0.84
48813180--48813217	13	2.9	14	88	11	55	73	0	26	0	0.83
48815472--48815519	2	24.0	2	95	0	87	52	0	0	47	1.00
48817847--48817875	7	4.3	7	95	4	51	0	10	0	89	0.48
48817845--48817883	15	2.6	16	84	12	55	0	10	5	84	0.76
48825013--48825069	24	2.4	24	85	5	71	47	10	5	36	1.61
48825025--48825076	24	2.2	24	85	0	68	50	7	3	38	1.50
48829316--48829391	24	3.2	24	86	0	107	50	9	6	34	1.60
48834297--48834331	2	17.5	2	100	0	70	51	0	48	0	1.00
48838605--48838690	21	4.1	21	73	16	72	65	4	2	27	1.25
48846797--48846836	20	2.0	20	85	5	53	12	15	20	52	1.74
48850809--48850834	12	2.2	12	100	0	52	11	23	7	57	1.59
48859199--48859292	29	3.2	29	87	3	127	22	22	26	28	1.99
48859241--48859302	29	2.1	29	84	0	79	22	27	25	24	2.00
48862704--48862746	11	3.9	11	82	8	52	76	2	20	0	0.89
48862843--48862881	9	4.3	9	81	12	53	74	0	2	23	0.94
48862843--48862886	18	2.7	15	78	18	52	75	0	2	22	0.92
48862849--48862883	18	1.9	18	94	0	61	77	0	2	20	0.90
48863524--48863554	13	2.4	13	100	0	62	32	12	6	48	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48871014--48871069	27	2.1	27	93	0	94	35	14	19	30	1.91
48871267--48871322	27	2.1	27	93	0	94	32	14	23	30	1.94
48870927--48871435	253	2.0	252	96	0	928	34	13	19	32	1.91
48871428--48871458	10	2.9	11	90	9	55	58	0	9	32	1.31
48871713--48871745	17	1.9	18	88	11	52	48	0	9	42	1.35
48873137--48873179	20	2.2	20	87	4	61	58	9	6	25	1.54
48874611--48875053	241	1.8	241	90	0	706	24	14	20	40	1.90
48876043--48876071	2	14.5	2	100	0	58	51	0	0	48	1.00
48876473--48876497	5	5.0	5	100	0	50	20	0	0	80	0.72
48883860--48883889	15	1.9	15	93	6	51	0	43	43	13	1.43

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