genome.fa.s11.2.7.7.80.10.50.1000.9.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  9  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)
3547615--3547648	15	2.3	15	89	0	50	44	11	11	32	1.77
3547888--3547934	15	2.9	16	84	12	60	40	19	14	25	1.90
3551442--3551467	2	13.0	2	100	0	52	50	0	0	50	1.00
3554359--3554415	24	2.4	24	78	0	69	61	7	1	29	1.32
3554354--3554429	35	2.1	37	85	7	102	61	6	2	28	1.34
3556592--3556656	28	2.3	29	86	2	87	49	4	9	36	1.56
3558243--3558296	28	1.9	28	85	7	74	5	25	1	66	1.23
3565228--3565297	35	2.0	35	100	0	140	40	5	8	45	1.58
3565932--3565967	17	2.1	18	94	5	65	55	0	13	30	1.39
3566692--3566723	16	2.0	16	93	0	55	12	56	28	3	1.51
3576989--3577024	17	2.1	18	94	5	65	55	0	13	30	1.39
3577750--3577781	16	2.0	16	93	0	55	12	56	28	3	1.51
3593183--3593248	30	2.2	31	88	2	98	46	9	1	42	1.44
3594458--3594526	33	2.0	34	81	10	79	59	2	7	30	1.39
3594557--3594587	2	15.5	2	93	0	53	51	3	0	45	1.17
3594630--3594678	17	2.9	17	81	0	62	63	2	2	32	1.17
3594638--3594678	19	2.2	19	86	0	55	60	0	2	36	1.10
3594695--3594738	3	14.7	3	81	9	54	65	4	0	29	1.12
3594695--3594741	18	2.6	19	86	6	62	65	4	0	29	1.11
3595154--3595183	14	2.2	14	94	5	53	86	0	6	6	0.70
3596280--3596397	44	2.6	45	82	7	168	25	26	17	30	1.97
3596503--3596765	50	5.3	50	70	6	201	24	26	22	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3596529--3596814	100	2.9	100	88	2	378	24	26	23	26	2.00
3602690--3602729	20	2.0	20	95	0	71	30	12	25	32	1.92
3606367--3606437	34	2.2	33	82	10	83	59	2	7	30	1.39
3606612--3606655	3	14.7	3	81	9	54	65	4	0	29	1.12
3606612--3606658	18	2.6	19	86	6	62	65	4	0	29	1.11
3607075--3607099	13	1.9	13	100	0	50	88	0	0	12	0.53
3609013--3609209	46	4.6	45	80	12	234	34	14	22	28	1.94
3609049--3609123	37	2.0	37	92	0	123	37	14	21	26	1.92
3609013--3609169	83	1.9	83	90	0	251	34	13	22	29	1.92
3612334--3612384	22	2.3	23	83	9	63	52	1	5	39	1.37
3616826--3616882	29	2.0	29	92	0	96	52	14	7	26	1.66
3620152--3620202	6	8.7	6	97	2	95	52	0	47	0	1.00
3636055--3636083	2	14.5	2	100	0	58	51	0	48	0	1.00
3642913--3642946	17	2.0	17	88	11	52	55	8	0	35	1.31
3643184--3643292	37	2.9	36	75	14	85	72	4	6	16	1.22
3643809--3644107	89	3.4	89	90	0	445	29	19	15	35	1.92
3643809--3644109	44	6.8	44	81	1	341	29	19	14	35	1.92
3646270--3646425	44	3.4	44	85	11	222	33	17	21	27	1.96
3646314--3646539	51	4.3	51	88	8	337	34	15	22	26	1.95
3646404--3646440	7	5.3	7	93	0	56	37	13	29	18	1.90
3646314--3646536	109	2.0	109	93	1	385	34	16	22	26	1.95
3647182--3647279	45	2.2	45	84	0	124	29	18	18	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3649604--3649648	24	2.0	22	86	8	63	4	17	17	60	1.53
3650458--3650500	17	2.6	17	96	3	79	0	30	60	9	1.28
3660918--3660948	16	1.9	16	100	0	62	19	19	6	54	1.65
3662105--3662154	25	1.9	27	88	8	77	62	0	4	34	1.14
3662105--3662154	26	1.9	26	88	8	75	62	0	4	34	1.14
3662826--3662885	29	2.1	28	90	6	95	48	5	8	38	1.55
3663313--3663365	23	2.4	21	82	14	63	13	16	0	69	1.18
3663839--3663936	1	98.0	1	67	0	52	1	11	4	83	0.83
3663839--3663936	9	10.6	9	81	15	85	1	11	4	83	0.83
3663839--3663936	23	4.4	22	79	8	108	1	11	4	83	0.83
3663869--3663936	5	14.4	5	82	14	83	0	14	1	83	0.71
3663845--3663936	28	3.3	28	85	10	100	1	11	3	83	0.81
3668943--3668990	22	2.2	22	85	7	62	62	2	0	35	1.07
3669626--3669872	44	5.7	44	69	17	135	30	19	18	31	1.96
3669724--3669913	85	2.2	85	85	2	240	30	18	20	30	1.97
3669992--3670582	50	11.8	50	67	4	233	27	23	19	29	1.98
3669972--3670579	100	6.1	100	88	0	838	27	22	19	30	1.98
3670777--3671119	88	3.9	88	86	1	463	27	25	18	27	1.98
3674137--3674179	22	1.9	23	86	13	63	60	2	6	30	1.35
3674317--3674353	11	3.2	12	81	11	51	24	5	2	67	1.25
3675991--3676075	44	1.9	44	83	4	109	27	23	27	22	1.99
3676567--3676606	20	2.0	20	90	0	62	32	0	5	62	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3676611--3676657	19	2.5	19	82	0	58	38	0	6	55	1.26
3688713--3688792	37	2.1	38	82	11	94	35	8	2	53	1.45
3689738--3689791	21	2.5	20	82	11	63	59	3	5	31	1.38
3710076--3710173	27	3.7	26	83	6	115	64	0	1	34	1.01
3710783--3710816	11	3.1	11	91	0	59	17	32	2	47	1.63
3710779--3710832	22	2.5	22	83	16	69	22	29	1	46	1.62
3713280--3713353	21	3.6	21	90	3	123	43	32	0	24	1.55
3713330--3713389	15	4.2	15	74	20	65	45	25	1	28	1.63
3713303--3713377	21	3.0	26	72	22	70	40	30	1	28	1.65
3713280--3713360	41	2.0	40	85	9	110	41	30	1	25	1.63
3713443--3713665	104	2.2	103	84	5	299	44	9	7	38	1.65
3716611--3716927	125	2.5	125	91	0	517	28	21	17	32	1.96
3717530--3717643	55	2.1	55	98	1	221	31	13	10	44	1.77
3719540--3719604	3	21.3	3	73	14	53	30	1	6	61	1.29
3719553--3719603	14	3.5	14	84	13	59	31	1	3	62	1.24
3722892--3722938	21	2.2	22	92	3	78	21	38	19	21	1.94
3729124--3729363	41	5.9	41	82	4	270	18	25	21	34	1.96
3729125--3729363	123	1.9	123	86	1	336	17	25	21	34	1.96
3732072--3732100	10	2.9	10	100	0	58	41	0	17	41	1.49
3732170--3732221	27	1.9	27	84	0	68	42	0	9	48	1.36
3734592--3734624	13	2.4	14	90	5	50	18	0	12	69	1.18
3735063--3735111	21	2.3	21	89	0	71	36	18	42	2	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3735215--3735252	19	2.0	19	100	0	76	31	10	0	57	1.32
3735429--3735655	43	5.3	43	84	2	276	26	16	29	26	1.97
3735446--3735655	86	2.4	86	88	1	305	27	17	30	24	1.97
3738709--3738744	2	18.0	2	94	0	63	52	0	0	47	1.00
3749473--3749648	88	2.0	88	95	0	316	39	20	19	20	1.92
3752085--3752114	13	2.3	13	94	0	51	0	3	6	90	0.56
3754841--3754867	6	4.5	6	100	0	54	48	0	0	51	1.00
3755999--3756023	5	5.0	5	100	0	50	80	0	0	20	0.72
3762395--3762433	9	4.2	9	83	6	51	33	2	0	64	1.08
3766821--3766901	29	2.8	29	81	7	94	39	17	17	25	1.91
3768080--3768117	20	2.0	20	89	5	60	57	2	0	39	1.12
3769878--3769963	47	1.9	45	81	11	106	54	5	4	34	1.45
3770613--3770654	22	1.9	22	90	9	68	28	9	9	52	1.65
3771060--3771125	31	2.1	31	82	0	78	16	7	12	63	1.50
3772762--3773257	143	3.4	143	88	6	698	51	7	9	31	1.62
3773265--3773324	27	2.2	27	87	0	84	11	35	33	20	1.88
3775022--3775059	2	19.0	2	88	0	58	47	2	2	47	1.30
3779321--3779394	31	2.4	31	84	6	89	56	6	5	31	1.48
3791497--3791543	18	2.5	19	86	3	60	44	4	0	51	1.21
3802748--3802824	9	8.4	9	87	8	102	40	27	10	22	1.86
3802898--3802996	39	2.5	39	80	11	121	20	3	29	47	1.65
3805788--3805820	2	16.5	2	100	0	66	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)
3809457--3809817	94	3.8	94	76	8	270	29	13	16	41	1.86
3818467--3818537	36	2.0	36	94	0	124	46	14	12	26	1.80
3818484--3818537	17	2.9	19	71	20	60	46	16	12	24	1.82
3818466--3818529	17	3.6	17	72	15	58	46	12	12	28	1.78
3823689--3823961	90	3.0	90	93	0	465	39	18	25	16	1.91
3828509--3828538	2	15.0	2	100	0	60	50	0	0	50	1.00
3830222--3830263	18	2.2	20	87	8	61	35	0	4	59	1.19
3830219--3830264	19	2.3	21	82	14	62	36	0	4	58	1.18
3831152--3831186	2	17.5	2	93	0	61	51	2	0	45	1.16
3837037--3837101	7	9.4	7	76	3	51	52	4	1	41	1.31

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