genome.fa.s3.2.7.7.80.10.50.1000.125.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  125  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)
37886337--37886556	22	8.9	26	72	22	188	55	12	0	31	1.44
37886289--37886559	96	2.8	96	83	9	307	53	13	1	31	1.47
37886337--37886559	49	4.5	49	85	3	306	55	13	0	30	1.44
37886358--37886572	47	5.2	41	68	24	123	55	13	0	30	1.41
37886513--37886576	22	3.0	22	82	13	98	53	12	0	34	1.39
37886512--37886677	41	4.1	40	73	17	162	53	12	0	33	1.44
37886846--37886884	3	13.3	3	89	5	62	0	35	0	64	0.94
37886850--37886893	14	3.1	14	87	9	63	0	40	0	59	0.98
37886846--37886892	20	2.3	20	92	0	76	0	38	0	61	0.96
37886847--37886904	14	4.3	13	80	20	57	0	39	0	60	0.97
37893660--37893850	50	3.8	50	89	0	283	21	31	22	24	1.98
37900743--37901318	44	12.5	49	78	11	314	33	18	19	29	1.95
37900976--37901140	41	3.9	41	77	10	161	33	16	18	30	1.93
37901445--37901478	17	1.9	18	88	5	52	47	11	29	11	1.76
37902859--37902908	3	16.7	3	100	0	100	32	0	0	68	0.90
37907931--37908301	46	8.6	46	83	12	466	28	22	14	34	1.93
37908020--37908174	36	4.0	36	79	15	175	28	21	14	36	1.92
37907974--37908301	82	3.9	82	89	4	469	28	21	13	35	1.92
37921933--37922027	47	2.0	48	93	2	165	44	9	3	43	1.52
37922036--37922079	21	2.0	21	82	8	52	47	2	6	43	1.42
37922535--37922603	31	2.3	30	82	5	93	43	13	10	33	1.77
37922535--37922619	31	2.8	29	77	8	80	42	12	9	35	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37925190--37925250	30	2.0	30	100	0	122	34	3	19	42	1.68
37927758--37927791	17	1.9	18	94	5	61	41	0	0	58	0.98
37928234--37928275	22	1.9	22	85	0	57	50	4	0	45	1.23
37928504--37928570	33	2.0	33	88	0	98	29	17	20	31	1.96
37929317--37929398	30	2.7	30	96	0	146	7	8	50	34	1.61
37929382--37929411	3	10.0	3	100	0	60	0	0	66	33	0.92
37932495--37932573	29	2.7	29	81	14	83	51	15	15	17	1.76
37932524--37932652	31	4.4	29	73	15	104	46	14	17	21	1.83
37937205--37937359	25	6.2	25	82	5	125	34	20	26	19	1.96
37937259--37937372	25	4.6	25	81	8	106	35	21	25	17	1.95
37945066--37945096	2	15.5	2	93	0	53	48	3	0	48	1.17
37945933--37946046	53	2.1	56	91	4	198	71	10	9	8	1.33
37948615--37948661	19	2.5	19	76	10	53	63	2	12	21	1.39
37961150--37961213	25	2.5	26	85	7	78	37	26	21	14	1.92
37961377--37961409	16	2.1	16	94	0	57	24	24	30	21	1.99
37976926--37976987	31	2.0	31	100	0	124	41	16	19	22	1.89
37978993--37979050	25	2.4	24	83	13	66	34	1	0	63	1.04
37982060--37982327	125	2.1	124	85	6	353	31	17	14	37	1.89
37982438--37982467	9	3.3	9	100	0	60	46	0	0	53	1.00
37986018--37986043	13	2.0	13	100	0	52	53	23	7	15	1.67
37990791--37991017	27	8.4	27	86	0	292	43	19	16	20	1.88
37993972--37994061	23	4.0	23	80	7	105	36	22	22	18	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37996312--37996554	50	4.8	50	87	0	342	21	30	22	25	1.99
37997816--37997851	18	1.9	19	94	5	65	50	5	0	44	1.25
37997943--37997973	16	1.9	16	93	0	53	64	0	0	35	0.94
37998111--37998150	17	2.5	15	88	8	53	55	0	0	45	0.99
38000036--38000221	51	3.7	50	80	6	178	24	16	26	32	1.96
38005163--38005227	23	3.0	21	80	10	78	38	21	21	18	1.93
38008307--38008331	4	6.2	4	100	0	50	52	0	0	48	1.00
38013556--38013589	17	2.0	17	88	0	50	23	0	8	67	1.18
38017629--38017665	9	4.1	9	100	0	74	56	10	0	32	1.34
38017569--38017731	77	2.1	75	96	3	308	49	9	3	38	1.53
38017747--38017779	16	2.1	16	94	0	57	45	6	3	45	1.43
38024071--38024103	5	6.6	5	100	0	66	81	0	18	0	0.68
38024574--38024635	27	2.4	25	78	13	63	22	3	4	69	1.22
38024914--38024944	14	2.2	14	94	0	53	48	12	0	38	1.42
38029648--38029705	22	2.6	22	75	0	62	43	18	22	15	1.88
38030904--38030964	5	12.2	5	100	0	122	60	0	0	39	0.97
38033953--38033981	14	2.0	15	93	6	51	27	0	20	51	1.47
38034173--38034228	28	2.0	28	89	6	87	55	0	5	39	1.23
38034173--38034232	31	2.0	28	87	9	84	56	0	5	38	1.21
38035135--38035283	41	3.6	41	76	10	124	25	19	25	29	1.98
38035590--38035634	17	2.6	18	76	16	51	44	0	20	35	1.51
38057985--38058051	34	1.9	35	87	3	100	44	14	8	31	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38058264--38058324	31	1.9	32	83	9	81	36	1	3	59	1.24
38058581--38058618	12	2.9	13	77	14	51	31	5	0	63	1.17
38058581--38058619	14	2.9	14	81	11	55	30	5	0	64	1.15
38058575--38058635	34	1.9	34	83	12	85	32	3	0	63	1.10
38063274--38063393	41	2.8	44	81	11	142	24	20	27	28	1.99
38065249--38065275	2	13.5	2	100	0	54	51	0	0	48	1.00
38066124--38066157	14	2.4	14	90	5	50	35	5	20	38	1.77
38069936--38070068	45	3.0	43	80	11	139	24	18	26	31	1.97
38071127--38071156	2	15.0	2	92	0	51	53	0	0	46	1.00
38071931--38071979	2	24.5	2	100	0	98	51	0	0	48	1.00
38076751--38076831	21	3.7	22	76	13	69	32	6	6	55	1.49
38076777--38076837	25	2.4	25	86	8	79	31	8	3	57	1.44
38078601--38078664	30	2.1	30	85	0	83	65	0	1	32	1.02
38080880--38080950	31	2.3	31	97	0	133	36	5	16	40	1.73
38090073--38090122	11	4.4	11	80	7	55	62	8	0	30	1.24
38090779--38090830	24	2.2	24	82	0	59	34	1	3	59	1.27
38092608--38092734	43	3.0	43	82	11	152	19	18	29	33	1.95
38106734--38106769	15	2.3	16	90	4	56	0	16	2	80	0.83
38119156--38119224	33	2.1	33	100	0	138	40	17	20	21	1.91
38123374--38123418	21	2.2	20	80	7	56	44	2	2	51	1.26
38123754--38123787	18	1.9	18	88	5	52	55	5	2	35	1.39
38125559--38125598	20	1.9	22	90	10	66	17	5	15	62	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38130741--38130781	14	2.9	14	85	7	55	41	4	4	48	1.46
38131108--38131132	13	1.9	13	100	0	50	8	0	24	68	1.16
38131860--38131893	17	2.0	17	88	0	50	50	11	20	17	1.77
38132779--38132893	41	2.8	41	83	0	131	25	19	26	28	1.98
38144958--38145008	2	26.0	2	92	4	86	49	1	0	49	1.12
38145122--38145176	2	27.5	2	100	0	110	49	0	0	50	1.00
38153146--38153246	30	3.3	31	75	17	102	42	1	13	41	1.56
38154520--38154571	16	3.2	16	91	0	77	28	0	34	36	1.58
38154552--38154642	45	2.0	44	85	2	119	31	5	27	35	1.80
38154807--38154841	18	2.0	17	88	5	52	54	0	0	45	0.99
38154967--38155008	15	2.7	16	82	14	52	52	2	0	45	1.13
38154976--38155017	15	2.9	15	82	10	52	52	0	0	47	1.00
38155086--38155128	15	2.8	16	82	10	63	55	0	0	44	0.99
38154965--38155262	120	2.5	120	93	2	508	50	4	3	42	1.37
38155002--38155189	61	3.1	60	68	19	183	48	5	2	42	1.41
38155005--38155188	57	3.1	58	67	22	164	48	5	2	42	1.41
38155749--38155810	30	2.0	31	93	3	108	35	11	35	17	1.86
38155973--38156008	16	2.2	16	100	0	72	19	38	19	22	1.93
38162930--38162972	17	2.6	16	82	17	52	48	2	6	41	1.43
38163151--38163350	78	2.6	76	72	13	176	37	4	16	42	1.68
38163749--38163971	41	5.4	41	96	0	392	27	19	29	24	1.98
38164011--38164043	2	16.5	2	100	0	66	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38164173--38164246	34	2.1	35	83	14	91	32	9	18	39	1.83
38167842--38167870	2	15.0	2	92	7	51	48	0	0	51	1.00
38168793--38168857	29	2.2	30	83	2	78	32	3	6	58	1.38
38172306--38172335	14	2.1	14	100	0	60	30	16	6	46	1.73
38172696--38172866	61	2.9	57	79	8	155	42	1	4	51	1.31
38173043--38173085	16	2.7	16	81	0	50	30	23	2	44	1.66
38187485--38187654	85	2.0	86	83	3	218	30	5	25	38	1.78
38190455--38190502	24	2.0	24	84	8	62	45	6	25	22	1.75
38190602--38190689	42	2.1	42	80	0	95	15	27	19	37	1.92
38193288--38193321	12	2.7	13	90	4	52	8	5	8	76	1.15

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