genome.fa.s8.2.7.7.80.10.50.1000.161.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: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

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   

This is table  161  of  190  ( 22705 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)
46908995--46909021	8	3.4	8	100	0	54	22	0	0	77	0.76
46909821--46910152	114	2.9	113	80	6	377	26	23	18	31	1.97
46910047--46910192	74	2.0	73	84	6	188	27	22	18	31	1.97
46909933--46910340	188	2.2	187	91	0	645	26	23	18	31	1.97
46910120--46910588	114	4.1	113	80	3	530	25	23	18	32	1.97
46910120--46910603	227	2.1	227	86	3	679	26	23	17	32	1.97
46910120--46910684	114	4.9	112	74	9	376	26	23	18	31	1.97
46927053--46927085	13	2.5	13	100	0	66	36	6	24	33	1.80
46927972--46928087	58	2.0	58	96	0	214	41	12	15	31	1.84
46933924--46933952	2	14.5	2	100	0	58	0	48	0	51	1.00
46936117--46936288	63	2.7	63	85	4	222	24	18	27	29	1.98
46936181--46936313	63	2.1	63	85	2	178	24	19	28	27	1.98
46937445--46937483	18	2.2	17	86	13	53	30	0	20	48	1.50
46937709--46937784	23	3.3	23	88	0	116	23	21	26	28	1.99
46938977--46939105	49	2.6	49	91	0	204	25	16	27	30	1.97
46942591--46942687	51	1.9	51	95	0	176	38	22	21	17	1.93
46943096--46943145	25	2.0	25	84	11	66	36	22	0	42	1.54
46946649--46946684	8	4.5	8	92	0	63	63	2	0	33	1.08
46973658--46973709	23	2.3	23	93	0	86	30	9	19	40	1.83
46978491--46978536	24	2.0	22	87	8	65	50	2	2	45	1.26
46988068--46988115	23	2.1	22	84	7	60	14	22	0	62	1.32
46989767--46989809	2	21.5	2	95	0	77	48	2	0	48	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46991535--46991593	25	2.3	25	85	5	73	67	3	28	0	1.06
46996218--46996268	24	2.1	24	88	0	75	37	5	11	45	1.65
47030502--47030552	26	2.0	25	85	7	68	17	13	1	66	1.34
47032410--47032440	14	2.2	14	100	0	62	35	25	6	32	1.82
47034802--47034874	20	3.6	19	75	15	67	42	2	2	52	1.30
47035643--47035688	9	5.1	9	84	7	58	0	15	2	82	0.76
47035643--47035688	17	2.8	16	87	6	65	0	15	2	82	0.76
47035643--47035700	16	3.5	16	81	11	55	0	15	5	79	0.90
47041936--47041975	20	2.0	20	90	0	62	70	0	15	15	1.18
47043187--47043719	86	6.2	86	90	0	796	31	21	22	25	1.98
47043500--47043636	44	3.2	43	64	16	111	28	22	22	26	1.99
47043844--47044052	44	4.7	44	70	6	136	30	17	24	27	1.97
47050091--47050169	27	2.9	27	96	0	140	30	35	17	16	1.92
47051042--47051072	8	4.0	8	95	4	55	90	0	9	0	0.46
47062742--47062787	3	14.7	3	91	8	74	65	0	2	32	1.05
47064086--47064135	5	10.2	5	86	4	75	36	0	4	60	1.16
47064336--47064368	16	2.1	16	94	0	57	78	6	15	0	0.93
47064942--47065012	3	23.7	3	82	0	88	35	0	2	61	1.10
47064942--47065012	33	2.2	33	100	0	142	35	0	2	61	1.10
47074683--47074796	29	3.9	28	76	16	99	27	21	3	47	1.67
47075170--47075248	37	2.2	36	84	8	101	15	55	10	18	1.67
47075533--47075714	91	2.0	91	100	0	364	39	28	16	15	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47075992--47076025	15	2.4	14	86	13	52	85	0	14	0	0.60
47075988--47076026	19	2.1	19	85	9	53	79	0	20	0	0.73
47076636--47076677	17	2.5	17	100	0	84	45	4	0	50	1.23
47079493--47079551	23	2.6	22	84	12	75	22	25	18	33	1.96
47083580--47083613	4	8.8	4	93	6	61	0	23	0	76	0.79
47085968--47086001	16	2.2	16	94	5	61	5	8	14	70	1.31
47088232--47088272	21	2.0	21	90	0	64	12	0	56	31	1.36
47098527--47098711	45	4.1	44	88	2	253	42	20	17	19	1.90
47098566--47098738	45	4.2	39	81	8	141	39	21	19	19	1.92
47098656--47098738	39	2.2	38	84	6	105	39	21	18	20	1.92
47103711--47103749	3	13.0	3	84	10	53	30	0	2	66	1.05
47104766--47104828	26	2.4	26	100	0	126	23	6	11	58	1.55
47108191--47108219	12	2.3	13	94	5	51	17	0	27	55	1.42
47111298--47111345	23	2.1	23	96	0	87	35	12	18	33	1.89
47113379--47113647	46	5.8	46	90	1	423	29	23	9	37	1.86
47114608--47114639	2	16.0	2	100	0	64	50	50	0	0	1.00
47114639--47114681	2	21.5	2	95	0	50	51	9	0	39	1.34
47114631--47114671	20	2.0	20	100	0	82	51	19	0	29	1.47
47114629--47114673	22	2.0	22	95	0	81	51	20	0	28	1.48
47114627--47114675	24	2.0	24	92	0	80	51	20	0	28	1.48
47114947--47115297	23	15.0	23	72	8	242	41	17	13	26	1.87
47114984--47115297	71	4.4	71	89	0	495	41	17	14	26	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47114985--47115297	141	2.2	142	94	0	556	41	17	14	26	1.87
47115075--47115299	48	4.8	48	66	12	115	40	17	14	28	1.89
47116012--47116092	28	3.0	24	75	20	72	30	23	12	33	1.92
47116021--47116092	28	2.6	28	90	0	108	29	26	12	31	1.93
47117779--47117839	32	1.9	32	83	12	81	49	1	4	44	1.33
47117798--47117839	20	2.1	20	86	0	57	47	0	7	45	1.30
47120024--47120057	13	2.9	11	84	16	50	61	2	0	35	1.11
47123783--47123819	2	18.5	2	100	0	74	48	0	0	51	1.00
47124606--47124652	7	6.7	7	100	0	94	27	0	0	72	0.85
47132384--47132432	25	2.0	25	88	8	73	46	0	2	51	1.12
47133661--47133781	41	2.9	41	86	6	147	28	18	19	33	1.96
47133980--47134004	13	1.9	13	100	0	50	24	8	20	48	1.76
47136924--47136959	18	1.9	19	88	5	56	8	16	0	75	1.04
47145158--47145232	31	2.4	31	88	0	114	29	18	9	42	1.81
47149601--47149642	19	2.2	20	91	4	68	26	0	16	57	1.40
47159831--47159886	25	2.1	27	83	6	71	51	3	3	41	1.36
47159479--47160047	282	2.0	283	98	0	1113	44	6	12	36	1.68
47171958--47172002	5	8.8	5	82	4	54	6	42	11	40	1.67
47171958--47172002	10	4.4	10	88	5	63	6	42	11	40	1.67
47172277--47172303	14	1.9	14	100	0	54	51	18	0	29	1.46
47177821--47177849	14	2.0	15	93	6	51	55	0	6	37	1.27
47182781--47182833	16	3.3	16	75	15	56	18	16	0	64	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47185823--47185874	24	2.1	24	86	10	70	40	3	1	53	1.30
47186715--47186753	19	2.1	19	85	9	53	20	0	7	71	1.10
47186715--47186753	18	2.1	19	85	4	53	20	0	7	71	1.10
47187785--47187851	18	3.3	19	74	20	64	20	35	0	43	1.53
47194653--47194695	22	2.0	22	85	0	59	60	6	2	30	1.35
47204427--47204479	26	2.0	26	100	0	106	43	15	3	37	1.64
47209214--47209272	20	3.0	20	76	0	64	37	28	10	23	1.88
47209260--47209299	21	1.9	21	85	10	55	45	22	0	32	1.53
47209255--47209308	14	3.9	14	75	4	56	44	29	0	25	1.54
47212579--47212634	21	2.6	22	88	2	78	21	14	25	39	1.91
47217195--47217943	121	6.2	121	97	0	1340	43	2	6	48	1.40
47217892--47217940	15	2.9	18	80	20	61	44	0	0	55	0.99
47217892--47217946	15	3.4	16	80	16	53	43	0	1	54	1.10
47218091--47218181	45	2.0	45	85	2	121	37	28	6	27	1.82
47218108--47218192	45	1.9	44	83	7	109	35	28	9	27	1.88
47219445--47219604	30	5.3	29	92	1	230	31	7	17	43	1.77
47226304--47226638	50	6.7	50	93	0	553	19	30	22	27	1.98
47226734--47226765	13	2.5	13	94	0	55	56	12	0	31	1.37
47226977--47227034	30	1.9	30	89	0	89	31	24	3	41	1.71
47231315--47231372	25	2.3	25	87	3	89	31	20	29	18	1.97
47231323--47231371	25	1.9	26	95	4	91	28	20	30	20	1.98
47246307--47246385	39	2.0	39	92	0	131	32	30	6	30	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47247148--47247193	21	2.2	21	84	7	58	17	4	43	34	1.69
47247744--47247768	3	8.3	3	100	0	50	36	0	0	64	0.94
47247961--47247995	11	3.0	11	84	15	52	60	5	0	34	1.21
47248381--47248420	19	2.2	18	86	4	53	50	2	12	35	1.54
47255842--47255952	24	4.5	24	75	12	102	21	22	23	32	1.98
47255844--47255952	25	4.5	24	77	11	87	21	22	22	33	1.98
47255840--47255952	49	2.3	49	83	11	144	22	23	23	31	1.98
47261696--47261850	39	4.0	39	83	5	188	17	19	30	32	1.95
47264906--47264950	21	2.0	23	83	8	58	35	4	22	37	1.74
47265136--47265177	19	2.2	20	95	4	77	26	9	14	50	1.73

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