genome.fa.s3.2.7.7.80.10.50.1000.139.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: Chr03 ID=Chr03-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  45765648

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   

This is table  139  of  150  ( 17918 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)
41874010--41874044	18	1.9	18	88	11	54	60	0	2	37	1.12
41875719--41875760	22	2.0	22	85	4	59	54	7	0	38	1.28
41878569--41878637	25	2.7	26	80	6	79	15	30	21	31	1.95
41881501--41881539	20	2.0	20	85	10	53	28	10	15	46	1.78
41883827--41883865	18	2.2	18	86	9	53	28	0	2	69	1.02
41883721--41884003	19	14.6	18	67	21	105	33	3	4	58	1.35
41883721--41884003	10	29.2	9	66	22	105	33	3	4	58	1.35
41887226--41887264	2	19.5	2	100	0	78	48	0	51	0	1.00
41892507--41892545	17	2.1	17	86	13	51	0	17	0	82	0.68
41897775--41897836	22	2.8	22	80	9	56	56	1	3	38	1.25
41897785--41897836	22	2.3	22	83	9	61	55	1	3	38	1.29
41897798--41897836	11	3.5	11	85	3	51	53	2	2	41	1.28
41901477--41901564	43	2.0	43	100	0	176	36	17	13	32	1.89
41901648--41901702	16	3.4	16	82	5	67	36	5	25	32	1.79
41901946--41901978	17	1.9	17	93	0	57	66	0	0	33	0.92
41902759--41902802	18	2.5	18	85	3	54	34	15	0	50	1.45
41905716--41905820	52	2.0	52	100	0	210	52	11	11	24	1.70
41905714--41905795	26	3.2	24	66	24	69	56	9	9	24	1.62
41907271--41907358	45	1.9	46	83	2	115	38	7	21	31	1.82
41909820--41909906	43	2.0	43	95	4	158	49	9	14	26	1.74
41920300--41920364	31	2.0	33	85	5	89	41	6	6	46	1.54
41929168--41929226	25	2.2	28	85	11	88	67	0	1	30	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41932021--41932057	2	18.5	2	94	0	65	48	0	2	48	1.15
41936987--41937073	25	3.5	25	82	6	113	32	18	27	21	1.97
41939673--41939949	99	2.8	99	79	3	317	26	12	36	23	1.91
41941471--41941510	18	2.2	18	86	0	53	40	45	2	12	1.56
41944245--41944563	54	5.4	54	66	20	151	42	2	5	49	1.38
41944330--41944513	59	3.1	59	65	20	146	41	1	8	48	1.42
41944256--41944553	120	2.5	121	91	1	483	42	2	5	49	1.39
41944510--41944551	15	2.7	16	82	14	52	45	0	2	52	1.13
41944501--41944542	15	2.9	15	82	10	52	47	0	0	52	1.00
41944768--41944805	16	2.4	16	86	0	58	28	34	2	34	1.71
41944867--41944916	9	5.6	9	90	0	73	26	10	24	40	1.86
41944867--41944916	18	2.8	18	96	0	91	26	10	24	40	1.86
41944859--41944916	27	2.1	27	90	0	89	25	8	24	41	1.83
41945570--41945600	3	10.3	3	100	0	62	32	0	0	67	0.91
41949000--41949044	19	2.4	19	88	0	63	66	4	0	28	1.11
41952470--41952513	23	2.0	21	86	8	61	54	2	6	36	1.40
41953039--41953568	45	11.8	45	87	0	675	30	15	22	30	1.95
41953034--41953568	135	4.0	135	88	0	746	30	15	22	30	1.95
41954363--41954405	20	2.2	20	82	0	50	62	9	13	13	1.53
41956597--41956628	16	2.0	16	100	0	64	50	6	0	43	1.27
41958815--41958841	14	1.9	14	100	0	54	29	0	0	70	0.88
41962079--41962189	19	5.8	19	88	0	168	36	9	16	37	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41963341--41963389	3	16.3	3	100	0	98	32	0	0	67	0.91
41963656--41963852	98	2.0	98	94	0	349	28	11	24	35	1.90
41965195--41965237	22	2.0	22	85	0	59	53	18	0	27	1.45
41965809--41965859	26	2.0	26	84	0	66	50	0	1	47	1.12
41967243--41967286	23	2.0	21	86	8	61	54	2	6	36	1.40
41967788--41968328	45	12.3	45	84	5	651	30	16	23	30	1.96
41967788--41968320	218	2.5	214	87	4	732	29	16	23	30	1.96
41967798--41968310	128	4.0	128	86	3	693	29	17	23	30	1.97
41969075--41969117	20	2.2	20	82	0	50	62	9	13	13	1.53
41970438--41970467	13	2.3	13	100	0	60	40	43	0	16	1.48
41970631--41970691	9	6.8	9	96	0	95	22	9	27	39	1.86
41972762--41973088	106	3.1	106	84	1	433	31	18	16	32	1.94
41982707--41982860	28	5.5	28	93	0	236	31	12	25	29	1.93
41983571--41983899	70	4.7	70	89	3	500	25	16	16	41	1.88
41983586--41983829	47	5.2	46	72	5	132	25	16	16	40	1.89
41983679--41983904	47	4.8	47	72	9	192	24	17	15	42	1.88
41985513--41985546	15	2.3	15	89	0	50	14	0	2	82	0.79
41987860--41987920	31	1.9	33	83	6	81	39	3	4	52	1.39
41990699--41990745	17	2.8	17	79	20	62	55	6	2	36	1.37
41991207--41991247	21	2.0	22	85	9	59	56	0	19	24	1.42
41991267--41991303	9	4.1	9	85	0	56	32	10	10	45	1.74
41992906--41992938	3	11.0	3	100	0	66	0	66	33	0	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41997271--41997301	16	1.9	16	93	0	53	35	0	19	45	1.51
42000377--42000429	21	2.4	23	81	12	74	54	5	24	15	1.62
42001911--42001961	18	2.6	19	75	15	50	31	11	3	52	1.56
42003383--42003507	46	2.7	46	82	0	160	28	18	25	28	1.98
42007850--42007892	18	2.2	20	80	12	54	41	0	2	55	1.12
42007850--42007892	19	2.2	20	80	19	56	41	0	2	55	1.12
42009093--42009159	27	2.5	27	80	4	82	68	2	5	22	1.25
42009931--42010044	19	5.9	20	72	13	71	41	0	4	54	1.20
42009902--42009982	35	2.3	36	85	4	103	37	2	2	58	1.25
42009951--42010033	39	2.0	41	84	11	109	43	0	4	51	1.23
42009921--42010048	39	3.4	38	74	9	102	39	0	4	55	1.21
42012641--42012704	24	2.7	24	92	0	110	35	21	29	12	1.91
42015707--42015739	3	11.0	3	93	0	57	63	0	33	3	1.10
42024248--42024278	7	4.3	7	95	4	53	41	3	0	54	1.16
42027772--42027815	23	1.9	23	100	0	88	47	13	11	27	1.77
42032392--42032455	16	4.0	16	76	13	69	56	1	0	42	1.09
42032989--42033026	20	1.9	20	88	0	58	55	0	7	36	1.29
42034388--42034413	9	2.9	9	100	0	52	80	7	0	11	0.89
42038693--42038722	15	1.9	16	93	6	53	46	6	20	26	1.75
42038692--42038734	15	2.8	15	78	3	50	44	9	18	27	1.80
42039509--42039537	15	1.9	15	100	0	58	10	20	34	34	1.87
42043190--42043261	28	2.5	29	74	19	71	54	5	5	34	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42044311--42044343	17	1.9	17	88	11	50	9	6	36	48	1.60
42047038--42047085	5	9.0	5	79	20	53	16	6	0	77	0.97
42047438--42047476	11	3.6	11	79	6	53	82	2	10	5	0.93
42047439--42047476	10	3.7	10	86	6	58	81	2	10	5	0.94
42049655--42049679	12	2.1	12	100	0	50	28	8	16	48	1.74
42058385--42058424	21	1.9	21	90	10	64	32	22	27	17	1.96
42059671--42059702	16	2.0	16	93	0	55	50	9	0	40	1.35
42061395--42061424	5	6.2	5	92	7	53	36	0	63	0	0.95
42065843--42065873	15	2.1	15	93	0	53	22	35	22	19	1.96
42071350--42071395	17	2.7	17	82	0	56	39	0	0	60	0.97
42071387--42071434	22	2.2	21	78	7	51	33	2	4	60	1.27
42072631--42073008	194	1.9	194	82	3	465	30	19	26	23	1.98
42074254--42074305	26	2.0	26	81	7	61	28	32	15	23	1.95
42075305--42075348	21	2.1	21	87	4	63	34	13	15	36	1.87
42082387--42082466	31	2.6	31	88	4	117	46	8	26	18	1.78
42084712--42084742	6	5.2	6	92	0	53	0	35	12	51	1.40
42084741--42084809	24	2.9	23	80	8	75	17	40	1	40	1.58
42084741--42084809	6	11.5	6	81	6	68	17	40	1	40	1.58
42089796--42089830	15	2.3	15	90	0	52	14	8	8	68	1.38
42091245--42091308	9	6.3	10	75	20	53	37	1	3	57	1.24
42091349--42091400	24	2.2	24	82	6	61	36	9	5	48	1.60
42094802--42094840	20	1.9	21	89	5	62	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42101688--42101714	13	2.1	13	100	0	54	70	14	0	14	1.17
42101967--42102004	5	7.6	5	93	0	67	63	0	36	0	0.95
42106368--42106426	3	20.0	3	77	22	63	66	0	0	33	0.92
42106368--42106426	24	2.5	22	84	13	73	66	0	0	33	0.92
42109516--42109598	36	2.3	35	80	10	89	66	9	0	24	1.21
42115665--42115733	25	2.9	24	72	12	61	63	1	2	31	1.18
42123322--42123355	13	2.5	14	90	4	52	26	0	2	70	1.01
42129004--42129051	2	24.0	2	100	0	96	50	0	0	50	1.00
42135738--42135767	8	3.9	8	95	4	53	53	0	0	46	1.00
42135758--42135796	12	3.4	11	82	10	51	53	0	0	46	1.00

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