genome.fa.s1.2.7.7.80.10.50.1000.169.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: Chr01 ID=Chr01-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  55868233

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   

This is table  169  of  187  ( 22383 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)
50205408--50205459	19	2.7	19	77	11	61	34	11	9	44	1.73
50211883--50212076	48	4.1	47	82	10	193	43	17	15	23	1.87
50211923--50212076	48	3.2	48	90	0	229	46	16	14	23	1.83
50211998--50212080	25	3.4	25	70	6	80	45	15	13	25	1.82
50211994--50212066	23	3.1	23	67	11	58	43	15	12	28	1.82
50216122--50216168	16	2.9	16	75	12	51	44	0	10	44	1.38
50216936--50217077	40	3.5	40	83	0	185	21	31	15	31	1.94
50227056--50227099	22	2.0	21	82	4	52	61	9	0	29	1.27
50232009--50232036	14	2.0	14	100	0	56	35	0	28	35	1.58
50232879--50232903	12	2.1	12	100	0	50	32	0	28	40	1.57
50237108--50237153	18	2.6	18	96	0	83	13	15	8	63	1.52
50241028--50241073	16	2.7	18	83	12	62	36	0	2	60	1.09
50241028--50241075	18	2.7	18	87	9	64	37	0	2	60	1.09
50241084--50241118	16	2.3	15	90	5	52	62	2	0	34	1.10
50241284--50241342	17	3.5	17	76	6	66	35	6	3	54	1.44
50245000--50245026	11	2.5	11	100	0	54	29	0	25	44	1.54
50245658--50245754	47	2.1	47	98	0	185	45	13	10	30	1.77
50249885--50249920	18	2.0	18	89	10	56	22	5	16	55	1.62
50252709--50252737	12	2.3	13	94	5	51	65	6	6	20	1.40
50258429--50258505	33	2.3	33	80	4	84	25	18	7	48	1.75
50258501--50258537	18	2.1	18	89	0	56	32	27	5	35	1.79
50260432--50260476	21	2.1	23	88	12	69	26	8	13	51	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50270572--50270606	15	2.3	15	95	0	61	31	20	0	48	1.50
50287339--50287573	50	4.6	50	78	5	188	28	21	28	22	1.99
50287452--50287573	49	2.5	49	84	6	158	30	22	26	21	1.99
50294699--50294732	14	2.5	14	95	4	61	14	0	35	50	1.44
50294860--50294907	23	2.0	24	84	4	62	66	6	6	20	1.36
50301869--50302033	43	3.8	43	78	7	156	32	27	16	24	1.96
50308771--50308796	13	2.0	13	100	0	52	61	23	0	15	1.33
50309541--50309692	43	3.5	43	79	8	166	33	26	15	24	1.95
50309522--50309686	86	1.9	85	83	8	210	33	26	16	23	1.96
50316664--50316692	15	1.9	15	100	0	58	20	0	6	72	1.07
50320812--50320877	29	2.3	29	73	2	71	21	18	19	40	1.91
50321169--50321243	11	6.7	11	81	1	78	24	26	1	48	1.59
50322443--50322477	7	5.0	7	92	0	61	25	0	17	57	1.40
50323096--50323133	18	2.1	18	85	9	51	23	26	10	39	1.87
50324902--50325340	125	3.5	125	91	0	691	30	21	17	30	1.96
50325465--50325507	22	2.0	22	90	0	68	48	34	0	16	1.46
50327299--50327574	76	3.7	73	77	11	261	40	10	5	43	1.64
50331208--50331269	26	2.4	25	78	2	70	35	19	4	40	1.73
50335283--50335342	27	2.2	28	78	3	68	30	23	16	30	1.96
50337060--50337099	21	1.9	21	100	0	80	40	22	5	32	1.76
50353044--50353194	57	2.6	57	78	0	140	23	21	17	37	1.94
50353305--50353411	54	2.0	53	88	1	160	25	22	13	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50355677--50355701	12	2.1	12	100	0	50	44	16	16	24	1.86
50363848--50363886	20	2.0	21	85	10	55	12	10	46	30	1.75
50371307--50371541	51	4.6	51	80	2	267	28	14	26	30	1.95
50371303--50371541	101	2.4	102	92	0	390	28	15	26	29	1.96
50373302--50373330	13	2.2	13	100	0	58	44	0	6	48	1.29
50375003--50375059	25	2.3	25	87	0	78	31	24	15	28	1.96
50375053--50375104	25	2.1	25	85	3	70	34	17	25	23	1.96
50379222--50379263	17	2.4	18	84	7	52	50	14	0	35	1.43
50380416--50380522	38	2.9	37	78	10	110	30	17	13	38	1.88
50380515--50380701	40	4.7	39	74	9	146	32	16	21	29	1.95
50380515--50380701	80	2.4	79	78	2	196	32	16	21	29	1.95
50384681--50384808	29	4.4	29	84	3	177	39	12	25	23	1.90
50384681--50384837	58	2.7	58	88	3	201	39	13	24	22	1.90
50384681--50384849	87	1.9	87	86	4	243	38	14	25	21	1.91
50384738--50384937	29	6.9	29	75	5	163	38	14	26	21	1.92
50384676--50384919	87	2.8	85	79	8	240	39	14	25	21	1.91
50384681--50384938	58	4.4	58	77	6	186	38	14	25	21	1.92
50387476--50387713	50	4.7	50	77	8	171	24	28	20	26	1.99
50396276--50396371	50	1.9	50	84	0	129	21	29	22	26	1.99
50407424--50407816	29	13.5	29	75	12	190	38	14	24	22	1.92
50407484--50407672	58	3.3	58	79	5	238	40	14	23	21	1.90
50407540--50407836	87	3.4	87	83	2	346	38	15	24	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50407520--50407835	29	10.8	30	76	11	191	38	15	25	21	1.92
50407513--50407835	58	5.6	58	73	9	235	38	15	25	21	1.92
50411853--50411908	22	2.5	22	100	0	112	28	19	28	23	1.98
50418554--50418619	30	2.2	30	76	7	73	39	7	15	37	1.75
50418853--50418895	17	2.4	18	85	11	54	16	6	4	72	1.24
50432031--50432063	16	2.1	16	94	0	57	69	3	0	27	1.03
50432012--50432069	30	2.0	30	86	6	84	65	3	0	31	1.09
50432010--50432088	30	3.0	25	76	16	63	64	3	0	31	1.11
50432083--50432151	31	2.2	31	82	10	77	60	11	0	27	1.31
50432625--50432691	9	7.4	9	80	12	84	38	22	10	28	1.87
50432625--50432691	27	2.5	27	90	4	100	38	22	10	28	1.87
50432699--50432759	17	3.4	17	70	12	59	50	14	3	31	1.59
50432690--50432764	37	2.0	37	100	0	150	45	16	5	33	1.69
50432690--50432781	37	2.5	37	91	7	134	46	15	5	32	1.68
50432874--50432904	12	2.6	12	89	0	53	22	0	0	77	0.77
50432927--50432951	13	1.9	13	100	0	50	12	0	48	40	1.40
50432928--50432975	18	2.6	19	76	3	53	12	2	43	41	1.54
50443970--50444039	36	1.9	36	91	0	113	22	18	17	41	1.90
50448084--50448127	6	7.3	6	81	0	52	75	0	4	20	0.98
50448086--50448138	19	2.8	19	80	11	56	71	1	3	22	1.12
50450171--50450413	118	2.1	118	98	0	468	27	16	19	37	1.93
50465484--50465520	18	2.1	18	100	0	74	45	5	21	27	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50467560--50467679	26	4.7	26	83	6	127	23	13	25	38	1.91
50473235--50473287	26	2.0	26	96	0	97	37	9	24	28	1.86
50481031--50481083	27	2.0	27	96	0	97	35	1	9	52	1.45
50486711--50486843	61	2.2	58	84	7	169	51	4	2	41	1.34
50491744--50491847	24	4.2	24	83	4	102	30	20	23	25	1.98
50491744--50491870	49	2.6	48	81	8	123	29	19	24	25	1.98
50491744--50491870	25	5.2	25	82	7	113	29	19	24	25	1.98
50491788--50491891	25	4.2	25	83	8	90	30	17	25	25	1.97
50519101--50519297	45	4.4	45	77	7	186	21	20	17	40	1.91
50519105--50519301	90	2.2	90	81	10	233	20	20	17	41	1.91
50522193--50522402	53	4.0	53	82	0	249	35	14	22	27	1.93
50522531--50522780	61	4.1	60	79	6	234	34	14	23	27	1.94
50522818--50522887	29	2.5	28	81	11	72	34	20	20	25	1.96
50537292--50537379	44	2.0	44	100	0	176	47	20	4	27	1.69
50538852--50538893	21	2.0	21	90	0	66	30	9	11	47	1.72
50542347--50542401	26	2.4	22	79	14	58	47	0	0	52	1.00
50543508--50543790	126	2.3	126	86	4	410	28	16	23	31	1.96
50547041--50547217	23	7.2	23	79	16	160	34	0	20	45	1.51
50547039--50547217	51	3.6	48	81	12	195	34	0	20	45	1.51
50547056--50547256	28	7.5	28	70	20	144	34	0	20	44	1.52
50547123--50547179	29	2.0	29	93	6	98	33	0	28	38	1.57
50547185--50547249	32	2.0	32	90	3	103	38	0	15	46	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50547218--50547266	22	2.2	23	92	3	82	30	0	22	46	1.52
50549409--50549442	15	2.3	15	90	5	52	67	5	0	26	1.13
50549540--50549597	29	2.0	29	90	9	93	58	1	0	39	1.08
50549638--50549679	22	1.9	23	85	9	61	35	0	30	33	1.58
50549651--50549709	30	2.0	30	93	0	100	33	0	33	32	1.58
50549629--50549731	52	2.0	51	84	5	136	34	0	30	34	1.58
50549680--50549743	22	2.9	22	90	0	101	35	0	28	35	1.58
50551791--50551817	2	13.5	2	100	0	54	51	0	0	48	1.00
50552190--50552336	72	2.0	72	84	2	188	22	18	25	34	1.96
50552227--50552383	72	2.2	72	81	5	174	23	21	26	28	1.99

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