genome.fa.s3.2.7.7.80.10.50.1000.67.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  67  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)
20060447--20060476	15	2.0	15	100	0	60	20	13	13	53	1.72
20065169--20065212	20	2.1	21	87	4	63	45	40	0	13	1.44
20070904--20071193	45	6.4	45	91	0	427	40	20	19	19	1.91
20070958--20071220	45	6.2	39	86	5	159	39	21	20	19	1.93
20073320--20073364	21	2.1	21	100	0	90	40	13	8	37	1.76
20075840--20075979	50	2.8	50	85	5	192	32	14	14	38	1.86
20085436--20085477	22	1.9	23	85	9	61	42	7	2	47	1.43
20088198--20088240	10	4.2	10	82	11	52	74	0	2	23	0.93
20098858--20098983	40	3.2	40	91	0	198	17	28	19	34	1.94
20098868--20098973	20	5.3	20	68	8	72	17	30	19	32	1.96
20098881--20098981	20	5.0	21	68	13	86	16	26	19	36	1.93
20101119--20101177	31	1.9	31	89	0	91	37	8	8	45	1.65
20106012--20106430	207	2.0	207	96	0	775	30	12	18	39	1.87
20106619--20106645	14	1.9	14	100	0	54	22	18	7	51	1.70
20112609--20112848	123	1.9	124	88	0	356	39	14	11	35	1.81
20114681--20114725	19	2.4	19	85	7	56	17	4	8	68	1.32
20118613--20118637	2	12.5	2	100	0	50	52	0	0	48	1.00
20118949--20118992	22	2.0	22	86	0	61	50	11	4	34	1.59
20120926--20121168	50	4.8	50	77	6	213	24	26	20	28	1.99
20134757--20134834	27	2.9	26	81	5	93	37	15	26	20	1.92
20140468--20140502	2	17.5	2	100	0	70	48	0	0	51	1.00
20143770--20143803	16	2.1	16	100	0	68	35	5	11	47	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20144748--20144778	8	3.8	8	95	4	53	90	0	0	9	0.46
20144739--20144778	9	4.4	9	90	9	64	87	2	0	10	0.63
20144739--20144780	17	2.5	17	88	0	66	85	2	0	11	0.68
20148551--20148597	18	2.7	18	80	9	53	23	0	4	72	1.02
20149844--20149889	20	2.2	20	84	3	56	65	15	2	17	1.37
20150450--20150483	17	2.0	17	100	0	68	23	17	17	41	1.90
20157664--20157715	24	2.2	24	85	0	68	48	9	3	38	1.54
20162075--20162126	24	2.2	24	92	0	86	51	9	1	36	1.46
20164854--20164910	27	2.1	27	80	6	62	71	3	8	15	1.24
20169875--20170349	27	17.6	27	82	2	472	35	19	19	25	1.95
20170390--20170472	24	3.5	24	85	4	98	20	6	25	48	1.72
20170643--20170781	32	4.4	32	81	4	165	18	20	22	38	1.93
20170773--20170834	22	2.8	21	73	4	52	19	20	16	43	1.88
20175557--20175583	11	2.5	11	100	0	54	37	25	0	37	1.57
20176104--20176153	13	3.7	13	80	19	50	68	0	6	26	1.13
20179716--20179751	17	2.1	17	94	0	63	27	25	30	16	1.97
20189426--20189460	15	2.3	15	90	0	52	65	5	5	22	1.36
20192603--20192648	17	2.5	19	83	16	62	45	10	0	43	1.39
20192607--20192648	18	2.3	18	88	12	59	50	9	0	40	1.35
20209374--20209490	50	2.3	50	86	2	155	27	24	26	21	1.99
20213436--20213496	30	2.0	30	100	0	122	16	32	26	24	1.96
20227406--20227431	10	2.6	10	100	0	52	57	0	42	0	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20230263--20230315	26	2.0	26	92	0	88	33	11	13	41	1.80
20230882--20230940	29	2.0	30	83	3	75	47	6	8	37	1.61
20235763--20235810	25	1.9	25	86	0	69	35	16	18	29	1.93
20242085--20242153	18	3.8	17	74	12	57	40	7	18	33	1.78
20243421--20243786	26	14.2	26	70	12	184	28	7	5	58	1.47
20243534--20243688	55	2.8	55	85	7	201	28	5	3	61	1.36
20245486--20245667	98	1.9	98	82	3	233	43	10	13	31	1.78
20245477--20245688	97	2.2	98	78	2	230	43	10	12	33	1.76
20247595--20248130	27	20.1	27	80	4	464	18	17	21	42	1.89
20247595--20248130	53	10.1	53	80	6	507	18	17	21	42	1.89
20247599--20248130	80	6.7	80	79	6	469	18	17	21	42	1.89
20251020--20251093	34	2.2	34	82	4	87	31	21	20	27	1.98
20251555--20252134	27	21.3	26	77	8	412	19	18	20	41	1.91
20251555--20252134	54	10.6	54	79	6	517	19	18	20	41	1.91
20251556--20252133	81	7.1	79	78	8	523	19	19	20	41	1.91
20251843--20251913	36	2.0	36	85	0	97	16	16	21	45	1.86
20251736--20252007	142	1.9	143	84	4	361	18	19	20	41	1.91
20251817--20251940	63	2.0	61	84	6	160	16	16	22	44	1.86
20256375--20256409	18	1.9	18	94	0	61	20	0	25	54	1.45
20258039--20258086	24	1.9	25	91	8	80	33	12	10	43	1.77
20258901--20258950	26	1.9	26	91	0	82	36	12	8	44	1.71
20259947--20260266	98	3.3	96	73	7	256	43	12	11	32	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20259960--20260424	195	2.4	194	78	8	496	44	12	11	32	1.77
20263655--20263977	98	3.3	97	70	9	251	47	10	9	31	1.71
20263490--20263970	195	2.5	196	81	5	519	45	12	10	31	1.76
20265688--20265714	2	13.5	2	100	0	54	51	0	0	48	1.00
20268596--20268651	30	1.9	28	82	13	69	60	10	14	14	1.58
20270227--20270296	24	3.0	23	81	8	70	37	5	5	51	1.50
20271808--20271884	27	2.9	27	86	0	109	18	14	25	41	1.88
20274746--20274786	3	13.7	3	94	0	55	68	7	0	24	1.15
20276478--20276571	27	3.5	26	78	12	109	39	19	10	30	1.85
20286301--20286371	31	2.4	28	77	9	79	46	9	15	28	1.77
20287272--20287457	27	6.9	27	77	3	160	20	15	20	43	1.88
20287277--20287421	53	2.7	53	82	4	175	20	14	19	46	1.84
20287812--20287854	8	5.4	8	85	0	50	9	20	23	46	1.79
20288894--20288947	25	2.2	25	83	6	65	18	44	11	25	1.83
20295920--20295966	6	7.8	6	100	0	94	17	0	0	82	0.66
20297194--20297380	85	2.2	87	84	1	243	25	20	17	37	1.93
20304754--20304905	66	2.3	67	87	2	207	32	7	20	39	1.80
20308546--20308621	39	1.9	40	81	7	93	25	18	34	22	1.96
20308690--20308733	17	2.6	17	88	0	61	13	25	45	15	1.83
20331625--20331659	2	17.5	2	100	0	70	48	0	0	51	1.00
20333665--20333754	44	2.0	46	85	8	123	35	5	22	36	1.78
20333842--20333977	57	2.4	58	84	8	172	51	2	0	44	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20337575--20337901	23	14.3	23	74	10	240	40	22	3	32	1.73
20337564--20337901	46	7.4	46	79	5	283	39	23	4	32	1.74
20337607--20337990	113	3.4	113	75	11	287	41	22	3	32	1.70
20337735--20337932	46	4.3	45	78	6	191	39	21	3	36	1.69
20339194--20339249	28	2.0	28	92	0	94	64	3	10	21	1.40
20339608--20339643	18	2.1	17	90	10	56	50	0	0	50	1.00
20346644--20346690	3	15.3	3	82	12	60	0	29	0	70	0.88
20346921--20346948	3	9.3	3	100	0	56	32	0	0	67	0.91
20347302--20347359	30	1.9	30	89	6	91	22	36	27	13	1.92
20348897--20348929	16	2.0	17	88	5	50	27	6	3	63	1.32
20349529--20349571	16	2.7	15	82	10	50	60	2	4	32	1.30
20350047--20350077	2	15.5	2	100	0	62	48	0	0	51	1.00
20354054--20354104	19	2.8	19	80	11	54	64	11	1	21	1.36
20354190--20354239	23	2.1	24	82	10	59	70	0	14	16	1.18
20354389--20354446	9	6.6	9	75	14	50	15	1	5	77	1.02
20354389--20354446	19	3.2	19	81	15	70	15	1	5	77	1.02
20354389--20354448	8	6.8	8	77	17	57	16	1	5	76	1.04
20354687--20354712	11	2.4	11	100	0	52	34	0	0	65	0.93
20363714--20363762	19	2.6	18	78	9	53	40	2	0	57	1.10
20364543--20364596	28	1.9	28	84	0	72	20	12	11	55	1.67
20366708--20366934	33	6.5	33	69	23	126	20	17	27	33	1.95
20366706--20366880	76	2.3	75	93	1	287	21	18	26	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20366781--20366982	102	2.0	102	92	1	334	20	19	28	31	1.97
20373133--20373166	11	2.8	13	91	8	54	44	11	8	35	1.72
20374263--20374439	76	2.4	74	91	2	273	22	18	25	33	1.97
20374340--20374541	102	2.0	102	90	3	318	21	19	26	31	1.98
20387485--20387594	54	2.0	54	91	3	177	38	25	10	26	1.87
20389852--20389884	14	2.4	14	94	0	57	36	33	9	21	1.85
20393620--20393666	24	2.0	24	83	8	60	29	10	8	51	1.66
20399770--20399811	17	2.4	18	88	4	59	45	4	19	30	1.71
20408868--20408915	23	2.1	23	84	0	60	16	8	35	39	1.79
20422330--20422422	19	5.1	19	72	12	86	31	9	11	47	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