genome.fa.s3.2.7.7.80.10.50.1000.41.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  41  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)
11378884--11378921	15	2.4	17	91	8	62	28	2	0	68	1.03
11381564--11381615	20	2.5	20	79	14	61	42	9	5	42	1.61
11382894--11383226	165	2.0	165	96	1	614	35	27	20	16	1.94
11386218--11386251	17	2.0	17	100	0	68	41	29	5	23	1.78
11391264--11391299	19	1.9	19	88	5	56	16	16	8	58	1.61
11396212--11397057	45	18.8	45	70	11	306	30	18	22	28	1.97
11396117--11396606	178	2.8	178	88	2	700	31	18	22	27	1.97
11396217--11396560	133	2.6	133	77	9	335	30	19	22	27	1.98
11396562--11396753	89	2.2	89	83	0	267	27	21	23	26	1.99
11396750--11397045	96	3.2	94	72	10	286	31	16	20	31	1.94
11404904--11404961	30	1.9	30	89	0	89	41	3	24	31	1.71
11405174--11405204	13	2.4	13	94	0	53	32	0	12	54	1.38
11405299--11405491	50	3.8	50	89	0	296	25	22	31	20	1.98
11408898--11408927	14	2.1	14	93	0	51	40	0	13	46	1.43
11414570--11414599	14	2.1	14	100	0	60	43	0	13	43	1.43
11418670--11418696	2	13.5	2	100	0	54	51	0	0	48	1.00
11423858--11424195	167	2.0	168	98	1	651	39	9	9	41	1.70
11427108--11427157	18	3.1	16	81	13	57	30	12	20	38	1.88
11427109--11427149	18	2.3	18	100	0	82	36	9	24	29	1.87
11428181--11428247	34	1.9	35	87	3	100	44	14	8	31	1.76
11437110--11437216	43	2.5	42	79	11	128	32	25	15	26	1.96
11438325--11438349	13	1.9	13	100	0	50	40	24	4	32	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11445301--11445412	41	2.7	41	80	0	125	23	21	23	32	1.98
11452308--11452363	29	2.0	28	86	10	78	30	28	3	37	1.74
11460805--11460871	22	3.1	21	72	16	64	43	22	22	11	1.86
11460962--11461025	26	2.5	25	77	7	65	26	17	18	37	1.93
11460992--11461059	27	2.5	26	83	9	75	20	23	16	39	1.91
11461022--11461138	27	4.3	27	75	4	101	23	17	17	40	1.91
11461022--11461139	54	2.2	54	81	0	128	23	17	17	40	1.91
11463088--11463383	152	1.9	152	91	0	484	26	31	12	29	1.93
11464646--11464712	22	3.1	21	72	16	55	44	19	22	13	1.85
11464848--11464961	27	4.2	27	79	4	113	22	18	19	39	1.92
11464846--11464949	54	1.9	54	84	3	138	23	18	19	39	1.92
11464861--11464963	27	3.8	27	83	10	138	22	18	18	40	1.91
11464861--11465004	27	5.4	27	80	9	134	21	16	20	41	1.90
11467664--11467699	18	2.0	18	88	0	54	19	8	0	72	1.10
11468926--11468967	21	2.0	22	90	4	68	33	2	4	59	1.31
11468932--11469066	60	2.3	61	84	6	179	42	5	8	43	1.58
11469037--11469131	29	3.1	29	68	26	77	53	2	7	36	1.41
11469037--11469141	34	3.2	32	72	18	92	55	1	8	34	1.42
11469773--11469816	23	2.0	23	81	4	54	59	4	4	31	1.38
11471223--11471304	38	2.2	38	84	2	103	36	15	14	32	1.89
11473375--11473434	31	2.0	31	86	3	86	36	6	8	48	1.60
11474693--11474895	91	2.3	89	80	3	210	34	14	20	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11476392--11476425	6	5.7	6	92	0	59	14	17	0	67	1.23
11476512--11476540	9	3.0	10	90	10	51	20	20	0	58	1.39
11478861--11478935	20	3.8	21	70	19	54	66	4	6	22	1.32
11478860--11478899	21	2.0	19	85	9	53	60	7	7	25	1.50
11479700--11479767	33	2.0	35	88	11	106	48	1	1	48	1.19
11480283--11480343	31	1.9	32	86	3	88	42	3	8	45	1.50
11483278--11483335	12	4.8	12	76	0	53	6	1	18	72	1.16
11487337--11487388	3	17.3	3	79	15	54	69	1	0	28	0.99
11487336--11487382	16	3.0	16	87	3	60	65	2	0	31	1.04
11487790--11487847	22	2.6	22	84	7	73	43	17	3	36	1.66
11487803--11487874	21	3.5	20	84	11	74	38	15	8	37	1.77
11487837--11487876	21	1.9	21	100	0	80	35	15	12	37	1.85
11496419--11496483	20	3.0	20	80	8	58	60	4	0	35	1.18
11496431--11496484	24	2.2	26	90	6	85	55	3	0	40	1.17
11496428--11496505	24	3.2	24	78	10	63	60	2	3	33	1.28
11497671--11497713	22	2.0	22	85	0	59	55	9	13	20	1.66
11499375--11499440	17	3.9	17	83	0	87	43	13	6	36	1.69
11500085--11500145	18	3.4	18	79	0	77	47	21	3	27	1.66
11500082--11500163	36	2.3	36	86	0	110	46	21	4	26	1.72
11500393--11500505	29	3.5	30	79	13	102	46	14	4	34	1.64
11500423--11500497	29	2.5	31	84	8	109	45	16	5	33	1.69
11505820--11505883	25	2.5	28	74	23	68	37	0	4	57	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11506402--11506446	22	2.1	21	83	4	54	44	0	13	42	1.43
11507496--11507522	14	1.9	14	100	0	54	48	0	7	44	1.31
11517907--11517948	10	4.5	10	82	14	54	21	0	4	73	1.01
11517913--11517965	4	12.5	4	77	18	54	22	0	1	75	0.90
11529346--11529450	43	2.4	43	82	0	129	30	18	25	25	1.98
11538685--11538721	16	2.3	17	86	13	60	40	5	0	54	1.24
11538707--11538742	18	1.9	18	88	5	54	58	2	0	38	1.13
11538736--11538790	13	4.4	13	76	13	53	49	0	0	50	1.00
11550892--11550934	16	2.6	16	77	3	50	37	0	6	55	1.27
11557949--11558011	30	2.1	30	100	0	126	34	30	9	25	1.88
11573642--11573682	19	2.2	19	100	0	82	41	0	4	53	1.22
11587258--11587326	29	2.3	29	85	5	84	47	13	17	21	1.81
11594981--11595040	16	3.7	16	73	20	61	35	25	8	31	1.85
11598596--11598647	24	2.2	24	92	0	86	51	7	3	36	1.49
11601457--11601639	36	5.1	36	76	11	169	25	21	16	36	1.94
11601472--11601646	70	2.4	71	86	4	253	26	22	14	37	1.92
11609130--11609172	19	2.1	21	87	8	63	58	0	4	37	1.19
11609136--11609172	10	3.5	11	82	17	51	54	0	5	40	1.24
11609186--11609254	22	3.5	20	83	11	79	62	2	7	27	1.36
11609326--11609363	20	1.9	20	94	0	67	73	2	0	23	0.95
11615600--11615645	18	2.5	19	78	7	58	65	8	10	15	1.47
11617020--11617207	101	1.9	101	82	6	238	25	20	20	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11617323--11617560	44	5.2	44	70	15	167	28	21	16	32	1.95
11617279--11617601	142	2.3	142	93	0	547	29	21	16	32	1.95
11617818--11618608	87	9.1	87	91	0	1161	24	23	22	29	1.99
11617977--11618113	43	3.2	43	64	17	102	23	23	24	28	2.00
11618154--11618287	43	3.1	43	66	21	116	25	23	22	29	1.99
11618412--11618548	43	3.2	43	64	17	111	23	18	25	32	1.97
11619821--11619881	13	4.5	14	79	8	72	14	14	0	70	1.17
11619821--11619880	20	3.0	20	87	0	93	15	15	0	70	1.18
11619821--11619881	7	9.0	7	80	7	72	14	14	0	70	1.17
11620278--11620328	24	2.1	23	82	13	59	7	11	7	72	1.28
11620266--11620355	27	3.3	26	82	11	92	6	7	10	75	1.18
11620251--11620355	30	3.3	32	75	12	92	7	9	8	74	1.23
11620313--11620356	12	3.6	12	81	3	52	2	4	9	84	0.85
11628146--11628191	18	2.5	19	78	7	58	65	8	10	15	1.47
11631921--11631993	19	3.8	19	96	0	137	36	12	16	34	1.86
11632559--11632604	3	15.0	3	79	20	51	32	2	2	63	1.19
11633173--11633212	19	2.0	20	85	4	55	32	5	10	52	1.56
11633454--11633648	98	2.0	98	96	0	363	28	10	24	36	1.88
11640038--11640088	23	2.2	23	89	6	77	41	19	9	29	1.84
11669210--11669262	21	2.5	21	79	8	63	30	30	13	26	1.94
11669920--11669999	38	2.1	38	81	9	90	28	11	30	30	1.91
11671576--11671609	15	2.3	15	90	5	52	38	8	29	23	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11673448--11673484	18	2.1	18	89	0	56	18	27	18	35	1.95
11673594--11673619	12	2.2	12	100	0	52	38	11	15	34	1.83
11675089--11675136	19	2.5	19	96	0	87	14	27	39	18	1.90
11683808--11683869	26	2.4	26	88	0	88	38	14	11	35	1.82
11692072--11692111	19	2.1	19	95	0	71	42	2	5	50	1.37
11694614--11694660	23	2.0	23	95	0	85	29	10	8	51	1.66
11699007--11699383	188	2.0	188	82	3	454	37	18	13	30	1.90
11703233--11703261	9	3.2	9	100	0	58	41	0	20	37	1.53
11703384--11703435	10	5.1	10	77	15	54	44	0	15	40	1.46
11715989--11716131	27	5.3	27	87	1	189	43	18	20	16	1.88

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