genome.fa.s5.2.7.7.80.10.50.1000.100.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   

This is table  100  of  208  ( 24913 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)
30027667--30027786	44	2.7	44	92	0	186	30	23	20	25	1.99
30027875--30028621	50	15.1	50	68	6	349	25	23	23	28	1.99
30027869--30028621	100	7.6	99	84	3	901	24	22	23	28	1.99
30027869--30028621	392	1.9	397	86	3	1072	24	22	23	28	1.99
30028922--30028967	24	1.9	24	90	0	74	28	17	15	39	1.90
30028918--30028975	24	2.4	24	79	0	71	29	20	15	34	1.94
30031998--30032026	14	2.0	15	93	6	51	41	20	6	31	1.79
30033396--30033421	13	2.0	13	100	0	52	46	23	7	23	1.78
30033485--30033521	17	2.1	18	90	5	58	48	10	0	40	1.38
30036278--30036329	19	2.7	20	82	5	63	46	11	17	25	1.81
30038636--30038676	18	2.2	20	91	8	68	39	0	17	43	1.49
30042002--30042065	22	2.9	22	83	0	83	35	6	32	25	1.81
30074268--30074300	12	3.0	11	87	12	50	78	0	0	21	0.75
30076036--30076073	18	2.2	17	90	4	58	81	2	7	7	0.96
30088132--30088172	10	3.6	12	81	18	52	68	2	17	12	1.31
30088263--30088334	33	2.2	33	85	5	92	54	4	27	13	1.58
30116869--30116919	22	2.3	21	80	12	57	72	1	1	23	1.05
30120618--30120653	17	2.2	16	90	5	54	11	11	2	75	1.16
30120634--30120677	12	3.8	12	79	14	56	11	11	6	70	1.33
30123401--30124536	573	2.0	573	99	0	2236	31	17	21	28	1.96
30126022--30126060	20	2.0	20	85	5	53	35	12	25	25	1.92
30136342--30136414	29	2.5	29	90	0	119	46	13	9	30	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30137254--30137292	10	3.7	10	80	12	51	74	5	2	17	1.12
30137254--30137305	11	4.6	11	85	2	68	73	3	3	19	1.15
30137264--30137305	12	3.6	12	87	6	68	73	2	4	19	1.12
30137254--30137305	23	2.3	23	96	3	97	73	3	3	19	1.15
30137347--30137395	13	3.7	13	97	2	89	69	0	10	20	1.17
30138323--30138367	18	2.5	17	82	13	54	73	4	13	8	1.23
30148128--30148192	20	3.2	20	75	0	67	23	20	16	40	1.92
30151038--30151073	13	2.8	13	100	0	72	22	5	16	55	1.62
30156940--30157004	22	2.9	22	90	2	94	33	33	4	27	1.78
30191965--30191996	12	2.7	12	95	0	55	68	9	9	12	1.39
30192811--30192875	22	2.9	22	79	2	67	26	32	4	36	1.77
30196488--30196542	15	3.8	15	85	2	69	1	21	1	74	1.01
30198552--30198587	18	2.1	18	89	5	56	25	8	5	61	1.46
30198620--30198663	13	3.6	13	79	14	58	11	2	6	79	1.01
30199957--30200062	50	2.1	50	98	1	203	47	17	3	31	1.66
30203939--30204002	22	2.9	22	83	0	83	35	6	32	25	1.81
30205077--30205118	10	4.3	10	78	6	50	28	11	23	35	1.91
30208388--30208421	10	3.3	10	95	4	59	70	8	2	17	1.25
30209564--30209595	12	2.7	12	95	0	55	68	9	9	12	1.39
30209664--30209697	10	3.3	10	95	4	59	70	8	2	17	1.25
30239848--30239875	11	2.5	11	100	0	56	28	0	10	60	1.30
30239941--30240048	41	2.6	41	95	0	189	29	18	17	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30241600--30241640	11	3.6	11	80	6	55	73	2	4	19	1.13
30241599--30241646	12	4.0	12	81	8	62	66	2	8	22	1.29
30242569--30242600	15	2.1	16	94	5	57	71	0	21	6	1.07
30267840--30267901	10	5.9	10	74	10	52	33	32	3	30	1.74
30267840--30267902	21	3.0	21	88	2	90	33	33	3	30	1.74
30268227--30268268	11	3.3	13	80	16	52	78	4	7	9	1.08
30268212--30268249	19	2.0	19	94	0	67	71	10	5	13	1.30
30297727--30297751	12	2.1	12	100	0	50	8	0	8	84	0.79
30298044--30298155	23	4.9	23	78	0	125	30	6	26	36	1.81
30298044--30298155	46	2.4	46	89	0	179	30	6	26	36	1.81
30305787--30305846	14	4.2	14	70	17	52	26	8	6	58	1.52
30305787--30305824	16	2.5	15	87	8	51	28	2	5	63	1.30
30322724--30322786	33	1.9	33	84	12	85	12	26	6	53	1.62
30322789--30322868	14	5.6	15	74	24	59	11	17	0	71	1.14
30322783--30322869	27	3.1	27	79	9	97	12	18	0	68	1.20
30322765--30322962	12	16.9	12	68	18	69	11	19	2	66	1.34
30322801--30322968	18	9.4	18	71	11	85	9	19	2	68	1.29
30322801--30322937	6	22.7	6	68	5	71	8	18	2	70	1.26
30324005--30324045	11	3.8	11	84	12	50	7	9	4	78	1.10
30334399--30334449	12	4.0	12	76	18	50	15	9	5	68	1.36
30346164--30346258	41	2.3	41	98	1	181	30	16	16	35	1.92
30346694--30346763	31	2.2	32	82	9	83	25	28	12	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30347667--30347709	18	2.4	18	80	0	59	65	0	13	20	1.27
30347689--30347714	12	2.2	12	100	0	52	76	0	7	15	0.99
30348589--30348648	18	3.2	18	78	7	66	71	3	18	6	1.22
30353735--30353772	20	1.9	19	89	5	58	34	15	26	23	1.95
30369388--30369495	41	2.6	41	95	0	189	29	18	17	34	1.94
30370667--30370740	36	2.1	36	97	0	139	41	16	5	36	1.71
30372423--30372553	50	2.5	51	84	6	158	38	12	15	33	1.86
30374265--30374301	19	1.9	19	88	0	56	21	24	21	32	1.98
30401691--30401728	18	2.0	19	85	10	51	10	15	5	68	1.36
30405284--30405346	21	3.0	21	78	2	63	31	34	6	26	1.82
30417225--30417268	19	2.4	19	88	3	63	13	9	4	72	1.24
30417228--30417273	19	2.4	19	81	3	56	8	8	4	78	1.09
30417227--30417268	10	4.5	10	82	14	54	11	7	4	76	1.15
30419552--30419599	25	1.9	25	87	8	71	18	22	27	31	1.97
30420146--30420175	9	3.3	9	100	0	60	43	0	10	46	1.37
30420290--30420362	25	2.9	25	84	8	103	32	9	19	38	1.84
30425391--30425434	21	2.1	21	83	8	54	43	11	9	36	1.72
30429180--30429224	20	2.3	19	84	7	54	24	33	11	31	1.90
30432508--30432580	25	2.9	25	84	8	103	34	9	17	38	1.83
30438190--30438227	19	2.0	20	89	5	60	18	31	10	39	1.85
30440012--30440112	52	1.9	52	95	0	184	32	21	18	26	1.97
30441718--30441773	19	3.2	17	78	14	60	8	14	3	73	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30441721--30441765	19	2.3	20	92	3	74	8	13	2	75	1.13
30441712--30441765	19	2.7	20	82	11	65	9	14	1	74	1.15
30443987--30444025	16	2.4	17	95	4	71	10	10	2	76	1.10
30444001--30444047	21	2.3	21	92	3	78	8	6	8	76	1.15
30444005--30444059	12	4.7	11	78	21	51	10	9	7	72	1.27
30444337--30444440	23	4.5	23	79	2	111	31	6	26	34	1.83
30444330--30444435	46	2.3	46	90	0	167	30	6	27	35	1.82
30456160--30456218	27	2.2	27	100	0	118	72	0	0	27	0.84
30456181--30456250	19	3.8	19	81	11	92	72	0	0	27	0.84
30456173--30456249	35	2.2	35	95	0	136	75	0	0	24	0.81
30456173--30456230	8	6.9	8	81	11	71	79	0	0	20	0.74
30464932--30464980	20	2.5	20	75	0	53	42	16	20	20	1.89
30464923--30464980	30	1.9	31	85	3	82	41	17	22	18	1.90
30468225--30468253	14	2.1	14	100	0	58	13	27	24	34	1.93
30468554--30468594	13	3.2	13	89	3	57	21	7	4	65	1.37
30469436--30469462	14	1.9	14	100	0	54	40	0	7	51	1.30
30469506--30469590	28	3.1	27	72	12	75	24	12	12	49	1.76
30478871--30479132	132	2.0	132	92	0	434	18	20	22	38	1.94
30497437--30497529	46	2.0	46	100	0	186	40	6	25	26	1.80
30497620--30497661	18	2.4	18	84	7	61	19	9	2	69	1.28
30501884--30501995	23	4.9	23	78	0	125	36	26	6	30	1.81
30501884--30501995	46	2.4	46	89	0	170	36	26	6	30	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30502279--30502312	14	2.5	13	86	9	50	82	5	0	11	0.83
30502280--30502327	25	1.9	25	91	0	78	81	4	2	12	0.93
30507728--30507787	18	3.2	18	76	9	66	6	18	3	71	1.22
30508594--30508648	28	1.9	29	85	3	76	10	12	5	70	1.31
30508659--30508684	12	2.2	12	100	0	52	15	7	0	76	0.99
30509610--30509679	31	2.3	31	82	9	81	32	12	28	25	1.93
30510115--30510209	41	2.3	41	100	0	190	36	16	15	30	1.91
30523371--30523432	10	5.9	10	74	10	52	33	32	3	30	1.74
30523371--30523433	21	3.0	21	88	2	90	33	33	3	30	1.74
30527124--30527193	31	2.3	31	82	9	81	32	12	28	25	1.93

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