genome.fa.s8.2.7.7.80.10.50.1000.189.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  189  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)
56520680--56520768	31	2.9	30	81	3	97	37	10	8	43	1.70
56520691--56520768	30	2.5	31	87	6	113	34	8	10	46	1.69
56521732--56521800	30	2.3	30	85	5	86	39	2	8	49	1.49
56523927--56523954	5	5.6	5	100	0	56	39	0	0	60	0.97
56537758--56537807	24	2.1	24	100	0	100	28	36	20	16	1.93
56540227--56540274	24	2.0	24	87	0	69	29	29	18	22	1.98
56543059--56543310	45	5.6	46	91	2	406	33	14	22	29	1.94
56543059--56543310	91	2.8	90	92	2	418	33	14	22	29	1.94
56544658--56544702	3	15.0	3	100	0	90	33	0	0	66	0.92
56545916--56545965	24	2.0	25	84	3	66	2	36	6	56	1.36
56554928--56554961	13	2.6	13	95	0	59	32	0	5	61	1.20
56557244--56557277	15	2.2	16	89	5	52	61	0	11	26	1.30
56570223--56570259	17	2.1	17	90	10	56	59	0	0	40	0.97
56570183--56570264	19	4.3	20	70	26	72	52	0	2	45	1.14
56572432--56572463	2	16.0	2	100	0	64	50	0	0	50	1.00
56575258--56575323	32	2.1	32	83	8	82	56	4	10	28	1.53
56600025--56600049	2	12.5	2	100	0	50	52	0	0	48	1.00
56607614--56607642	15	1.9	15	100	0	58	72	6	0	20	1.07
56618345--56618396	16	3.2	16	81	8	52	59	1	0	38	1.08
56621218--56621264	21	2.3	21	82	10	53	29	4	2	63	1.25
56632851--56632888	6	6.3	6	100	0	76	34	0	0	65	0.93
56640413--56640633	122	1.8	122	88	2	336	23	12	21	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56642394--56642418	11	2.3	11	100	0	50	28	8	8	56	1.57
56647513--56647568	21	2.5	23	77	8	62	32	3	1	62	1.23
56650565--56650650	42	2.0	42	95	0	154	44	4	16	34	1.68
56652401--56652440	19	2.0	20	85	4	55	15	55	15	15	1.71
56653195--56653265	33	2.2	33	92	2	117	26	16	8	47	1.75
56655284--56655352	30	2.3	30	80	11	79	39	7	15	37	1.76
56658064--56658175	54	2.1	54	100	0	224	43	7	14	34	1.72
56669811--56669847	4	9.2	4	100	0	74	24	0	24	51	1.49
56674030--56674076	19	2.5	19	82	3	60	65	4	25	4	1.29
56695143--56695184	13	3.2	13	86	6	57	23	0	0	76	0.79
56695144--56695183	7	5.7	7	90	0	62	22	0	0	77	0.77
56695191--56695243	26	2.0	26	88	0	79	30	0	1	67	1.01
56701808--56701839	17	1.9	16	93	6	55	37	0	18	43	1.51
56705445--56705583	58	2.4	58	78	4	147	40	17	20	20	1.92
56705803--56705839	12	3.1	12	88	0	56	13	2	18	64	1.39
56707692--56707724	12	2.8	12	90	0	57	0	15	0	84	0.61
56707692--56707721	11	2.7	11	94	0	51	0	10	0	90	0.47
56708352--56708391	2	20.0	2	100	0	80	50	0	0	50	1.00
56709774--56709860	43	2.0	43	95	0	156	40	11	8	40	1.71
56725847--56725919	29	2.5	28	81	14	94	39	0	1	58	1.06
56733911--56733963	22	2.4	21	90	6	79	43	0	0	56	0.99
56742387--56742435	18	2.8	17	81	6	53	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56757410--56757437	2	14.0	2	100	0	56	50	0	0	50	1.00
56760452--56760574	57	2.2	58	83	2	151	28	26	18	26	1.98
56762530--56762583	17	3.1	18	86	10	85	31	9	20	38	1.84
56767637--56767698	17	3.6	17	76	8	72	33	11	11	43	1.76
56767633--56767697	34	1.9	34	93	0	112	33	10	13	41	1.80
56778243--56778293	25	2.0	25	82	14	61	66	1	1	29	1.13
56785211--56785333	61	2.0	61	100	0	246	35	13	16	34	1.88
56785609--56785655	17	2.8	17	74	6	51	57	0	0	42	0.98
56787317--56787341	10	2.5	10	100	0	50	20	0	0	80	0.72
56789655--56789717	26	2.4	27	97	2	119	41	11	0	47	1.39
56790043--56790080	18	2.1	18	90	0	58	47	0	13	39	1.42
56790685--56790745	28	2.2	28	94	5	108	54	0	3	42	1.17
56792280--56792305	12	2.2	12	100	0	52	73	0	0	26	0.84
56799763--56799814	21	2.5	21	79	14	54	21	1	30	46	1.62
56809617--56809653	12	2.9	13	88	8	58	32	0	0	67	0.91
56809865--56810031	86	1.9	86	88	0	253	31	27	21	19	1.97
56816957--56816987	6	5.2	6	96	0	53	32	54	0	12	1.38
56816945--56816987	18	2.4	18	84	0	59	32	51	2	13	1.54
56817230--56817261	3	10.7	3	100	0	64	65	0	34	0	0.93
56817515--56817556	22	2.0	22	85	4	59	30	9	0	59	1.29
56834442--56834469	2	14.0	2	100	0	56	50	0	0	50	1.00
56846822--56846855	2	17.0	2	100	0	68	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)
56855497--56855535	21	1.9	21	84	5	53	33	0	2	64	1.08
56856003--56856032	2	15.0	2	100	0	60	50	0	0	50	1.00
56864600--56864636	2	18.5	2	94	0	65	0	0	45	54	1.00
56876588--56876612	6	4.2	6	100	0	50	20	32	16	32	1.94
56877540--56877587	19	2.6	19	78	18	57	60	0	2	37	1.09
56878088--56878124	9	4.1	9	92	0	65	29	10	13	45	1.77
56879837--56879931	44	2.2	44	84	3	120	54	6	3	35	1.42
56882390--56882449	30	2.0	30	86	3	84	43	0	36	20	1.52
56885040--56885071	3	10.7	3	100	0	64	34	0	0	65	0.93
56885899--56885986	40	2.2	41	83	2	106	30	6	21	40	1.79
56886186--56886286	45	2.2	45	82	3	132	22	17	17	41	1.90
56886874--56886959	37	2.3	37	100	0	172	47	0	13	38	1.44
56886874--56886959	18	4.6	19	79	5	104	47	0	13	38	1.44
56887514--56887565	27	1.9	27	88	0	77	13	28	23	34	1.92
56887516--56887574	27	2.2	27	81	0	64	13	25	27	33	1.93
56887625--56887719	26	3.5	27	94	2	156	50	0	9	40	1.35
56899013--56899037	12	2.1	12	100	0	50	40	0	28	32	1.57
56900400--56900444	19	2.4	18	78	10	54	24	0	6	68	1.13
56900484--56900545	20	3.2	19	75	8	63	40	3	3	53	1.33
56907934--56907960	13	2.1	13	100	0	54	48	0	7	44	1.31
56910745--56910913	82	2.1	82	95	0	302	26	17	16	40	1.90
56925513--56925547	17	2.0	18	88	5	54	20	25	2	51	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56928230--56928277	24	2.0	24	87	0	69	39	0	52	8	1.32
56928242--56928277	12	3.0	12	83	0	54	38	0	58	2	1.13
56943235--56943302	33	2.1	33	100	0	136	54	5	14	25	1.62
56959884--56959914	16	1.9	16	100	0	62	41	6	32	19	1.77
56960085--56960213	62	2.2	57	80	8	141	50	3	0	45	1.22
56965030--56965211	46	4.0	46	98	0	346	35	9	27	26	1.88
56965643--56965702	29	2.1	29	100	0	120	48	3	16	31	1.63
56967805--56967854	24	2.1	24	88	0	73	38	4	10	48	1.56
56983717--56983792	29	2.6	29	85	8	91	39	3	5	51	1.43
56983736--56983792	29	1.9	30	92	3	98	38	3	5	52	1.41
56983736--56983807	29	2.5	29	84	8	85	37	6	6	48	1.57
56988447--56988506	31	2.0	31	87	9	88	38	13	5	43	1.66
56989300--56989334	12	3.2	11	88	11	54	0	20	0	80	0.72
56995519--56995568	3	16.7	3	95	0	82	68	4	0	28	1.08
57000978--57001002	2	12.5	2	100	0	50	52	0	48	0	1.00
57001014--57001045	16	2.0	16	93	0	55	50	15	34	0	1.45
57009335--57009375	20	2.0	20	85	0	55	29	21	2	46	1.64
57011401--57011493	48	2.0	46	85	8	125	17	9	19	53	1.70
57019076--57019110	17	1.9	18	88	11	54	48	0	8	42	1.33
57019076--57019111	18	1.9	19	88	5	56	50	0	8	41	1.33
57023192--57023226	15	2.2	16	90	5	54	57	17	8	17	1.64
57032580--57032604	12	2.1	12	100	0	50	48	0	44	8	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57038784--57038827	19	2.1	22	88	12	67	38	9	18	34	1.82
57052522--57052554	6	5.7	6	89	7	50	81	0	18	0	0.68
57052818--57052853	3	12.0	3	93	0	63	0	30	0	69	0.89
57057131--57057157	13	2.1	13	100	0	54	59	0	7	33	1.25
57058759--57058809	21	2.4	21	100	0	102	47	15	9	27	1.77
57059333--57059418	18	4.5	19	71	12	61	58	6	4	30	1.45
57063302--57063375	38	1.9	38	100	0	148	18	16	17	47	1.83
57068320--57068362	11	3.8	11	80	17	52	30	2	2	65	1.18
57068323--57068366	23	1.9	23	90	0	70	31	2	4	61	1.28
57070609--57070658	24	2.1	24	96	0	91	42	18	16	24	1.89

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