genome.fa.s11.2.7.7.80.10.50.1000.11.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  11  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)
4130498--4130717	37	6.0	37	95	1	381	37	16	21	24	1.93
4135264--4135412	66	2.3	66	74	0	145	31	14	18	35	1.91
4137407--4137467	27	2.3	27	85	0	77	40	31	4	22	1.75
4139939--4140087	44	3.3	43	68	16	122	47	2	2	47	1.27
4139881--4140106	91	2.5	92	91	2	366	47	3	3	46	1.33
4140247--4140288	15	2.9	15	82	10	52	47	0	0	52	1.00
4140363--4140408	16	2.9	16	78	12	51	45	0	2	52	1.13
4140470--4140511	15	2.7	16	82	14	52	45	0	2	52	1.13
4140461--4140502	15	2.9	15	82	10	52	47	0	0	52	1.00
4140191--4140513	107	3.0	107	97	0	601	43	2	5	48	1.38
4140656--4140746	45	2.0	44	87	2	128	32	28	6	31	1.83
4143733--4143766	17	2.0	16	88	11	50	8	2	0	88	0.62
4149966--4150261	50	5.8	50	92	1	466	20	31	21	25	1.98
4150597--4150656	30	2.0	30	87	3	86	30	23	5	41	1.75
4151897--4152036	42	3.3	42	85	5	167	41	18	24	15	1.89
4151975--4152039	21	3.1	21	66	16	53	41	15	23	20	1.89
4152047--4152116	32	2.2	32	94	2	122	50	14	18	17	1.79
4154442--4154468	11	2.5	11	100	0	54	62	0	0	37	0.95
4156257--4156303	23	2.0	25	83	8	62	70	4	4	21	1.22
4158322--4158373	24	2.2	24	89	0	77	36	3	9	50	1.54
4158322--4158385	24	2.7	24	85	4	76	35	3	12	48	1.57
4159822--4159873	24	2.2	24	85	0	68	36	5	7	50	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4167114--4167144	11	2.8	11	90	0	53	32	0	0	67	0.91
4167466--4167517	24	2.2	24	89	0	77	55	9	1	32	1.43
4167713--4167775	30	2.1	30	84	0	81	60	14	1	23	1.43
4171970--4172059	36	2.9	30	73	20	85	51	1	0	47	1.08
4172022--4172132	55	2.0	55	98	0	213	51	0	3	44	1.25
4172546--4172601	21	2.8	20	86	7	78	39	5	1	53	1.34
4172732--4172765	18	1.9	17	88	5	50	41	2	14	41	1.61
4178862--4178891	2	15.0	2	100	0	60	0	0	50	50	1.00
4179558--4179620	27	2.3	27	80	17	69	33	12	3	50	1.56
4180580--4180658	24	3.1	24	74	15	77	35	2	1	60	1.18
4180874--4180946	34	2.1	34	94	0	128	39	9	10	39	1.73
4183428--4183465	19	1.9	20	89	10	60	28	13	7	50	1.69
4190739--4190768	14	2.1	15	93	6	53	36	6	3	53	1.44
4198668--4198707	3	13.3	3	94	0	71	32	65	0	2	1.06
4201609--4201633	2	12.5	2	100	0	50	48	0	0	52	1.00
4204983--4205018	18	2.0	18	94	0	63	22	36	27	13	1.92
4206165--4206225	27	2.3	24	76	15	59	42	3	1	52	1.27
4210064--4210099	11	3.3	11	92	0	54	47	8	27	16	1.75
4210171--4210210	19	2.1	19	95	0	71	45	0	25	30	1.54
4226246--4226274	7	4.3	7	95	4	51	89	0	10	0	0.48
4232570--4232666	10	9.7	9	70	15	50	61	4	4	29	1.33
4234098--4234146	13	3.8	13	72	0	53	32	20	8	38	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4250440--4250495	22	2.4	23	77	16	62	51	1	7	39	1.40
4251542--4251597	27	2.0	28	86	10	80	8	1	35	53	1.43
4252129--4252546	88	4.8	88	88	2	585	25	26	21	27	1.99
4252129--4252546	175	2.4	173	87	4	606	25	26	21	27	1.99
4256804--4256862	9	6.2	9	81	14	66	45	1	0	52	1.10
4256806--4256830	8	3.1	8	100	0	50	48	0	0	52	1.00
4256822--4256869	11	4.4	11	82	17	64	41	2	0	56	1.11
4256803--4256869	21	3.3	20	78	17	77	43	1	0	55	1.09
4257156--4257242	29	3.0	29	98	0	165	20	9	6	63	1.47
4258360--4258473	61	1.9	60	85	1	156	42	4	14	38	1.65
4260803--4260829	13	2.1	13	100	0	54	44	0	0	55	0.99
4264416--4264462	23	2.0	25	87	8	71	55	4	8	31	1.49
4265155--4265248	19	4.8	19	89	5	152	35	14	11	38	1.83
4265150--4265248	40	2.5	38	91	6	162	35	14	11	39	1.81
4265565--4265777	44	4.8	44	71	7	155	30	23	16	28	1.97
4265477--4266550	132	8.1	132	90	2	1532	29	23	18	28	1.98
4265495--4266121	88	7.1	89	65	10	205	29	24	18	28	1.98
4270136--4270181	24	1.9	24	86	0	65	13	26	15	45	1.82
4271776--4271907	19	6.8	19	91	3	210	35	15	11	37	1.83
4271769--4271906	59	2.4	59	90	4	212	36	14	10	38	1.81
4272938--4272981	5	9.0	5	85	5	63	77	2	0	20	0.88
4272953--4272987	15	2.3	15	90	0	52	77	0	5	17	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4287000--4287024	7	3.6	7	100	0	50	0	12	16	72	1.13
4287895--4287920	11	2.4	11	100	0	52	38	0	0	61	0.96
4287893--4287924	11	2.6	13	80	19	50	34	0	0	65	0.93
4289761--4289831	35	2.0	35	100	0	142	32	19	11	36	1.87
4290147--4290192	23	2.0	23	86	0	65	6	8	13	71	1.29
4311179--4311234	17	3.2	17	79	2	58	16	5	1	76	1.05
4321239--4321328	44	2.0	44	100	0	180	30	31	14	24	1.95
4323969--4324006	16	2.3	17	86	9	60	36	0	0	63	0.95
4323977--4324033	22	2.5	24	78	13	68	26	3	0	70	1.03
4324241--4324284	16	3.0	15	87	12	65	68	0	0	31	0.90
4324382--4324421	3	13.3	3	100	0	80	35	0	0	65	0.93
4324703--4324744	15	2.7	15	79	17	50	50	0	0	50	1.00
4324817--4324861	21	2.1	22	87	4	65	37	0	4	57	1.19
4347759--4348020	132	2.0	132	89	3	404	29	12	23	33	1.92
4355660--4355697	14	2.8	14	88	4	51	81	7	7	2	0.96
4363242--4363266	4	6.2	4	100	0	50	52	0	0	48	1.00
4363254--4363302	17	2.9	17	75	22	50	57	2	0	40	1.10
4364302--4364342	18	2.3	18	87	8	57	46	2	0	51	1.14
4391926--4392004	30	2.6	30	82	11	90	63	2	1	32	1.16
4391968--4392013	21	2.2	21	84	7	58	67	2	4	26	1.21
4405461--4405510	15	3.6	14	79	12	50	42	2	2	54	1.23
4415715--4415752	14	2.7	14	88	8	51	44	2	10	42	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4415755--4415791	15	2.5	15	86	4	58	32	8	16	43	1.77
4415861--4416001	72	2.0	71	92	4	239	33	4	9	53	1.52
4416383--4416412	2	15.0	2	100	0	60	50	0	0	50	1.00
4416837--4416873	11	3.4	11	100	0	74	59	0	0	40	0.97
4417870--4417909	14	2.9	14	84	0	53	32	7	17	42	1.77
4417878--4417944	35	1.9	35	87	3	100	31	10	13	44	1.77
4417893--4417932	20	2.0	20	85	0	53	27	12	12	47	1.77
4419288--4419357	27	2.6	27	75	8	70	52	18	2	25	1.59
4427644--4427693	21	2.5	20	81	12	57	62	6	4	28	1.37
4427749--4427797	20	2.5	20	82	0	53	57	2	4	36	1.30
4429091--4429123	17	2.0	17	94	5	59	48	24	6	21	1.72
4436987--4437020	18	1.9	18	88	5	52	73	2	2	20	1.09
4444140--4444173	7	4.9	7	96	0	59	38	32	0	29	1.58
4453233--4453279	25	1.9	25	86	4	69	14	25	21	38	1.92
4453364--4453481	25	4.9	25	71	14	86	20	29	20	29	1.97
4453438--4453498	24	2.6	23	82	7	68	19	26	19	34	1.96
4453363--4453497	48	2.8	47	77	6	119	21	28	19	31	1.97
4455112--4455143	13	2.5	13	100	0	64	0	28	40	31	1.57
4457161--4457476	51	6.4	51	89	8	483	31	23	13	31	1.93
4457165--4457476	94	3.2	94	90	6	507	31	24	13	31	1.94
4457161--4457471	101	3.1	101	88	7	494	30	23	13	31	1.93
4457550--4457582	17	1.9	17	88	11	50	45	21	0	33	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4460703--4460786	29	2.8	32	84	10	106	59	0	0	40	0.97
4460737--4460780	20	2.2	20	83	4	52	61	0	0	38	0.96
4461479--4461515	9	4.1	9	86	13	58	45	10	10	32	1.74
4461551--4461592	21	2.0	21	81	9	50	21	35	0	42	1.53
4467466--4467503	20	2.0	20	84	5	51	39	0	5	55	1.23
4475478--4475700	86	2.6	86	90	2	353	42	8	13	36	1.74
4483305--4483454	80	1.9	79	90	1	237	28	19	15	37	1.92
4499656--4499694	2	19.5	2	100	0	78	51	0	0	48	1.00
4500733--4500761	14	2.0	15	93	6	51	68	3	0	27	1.05
4503789--4503824	12	3.0	12	88	11	56	25	0	0	75	0.81

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