genome.fa.s1.2.7.7.80.10.50.1000.119.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  119  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)
35796803--35796837	17	1.9	19	88	11	56	45	17	0	37	1.48
35803258--35803315	27	2.1	27	100	0	116	31	12	17	39	1.86
35805868--35805916	23	2.2	23	82	13	59	18	16	30	34	1.93
35810592--35810618	14	1.9	14	100	0	54	51	11	22	14	1.73
35810810--35810854	23	2.0	23	90	0	72	55	17	11	15	1.68
35818322--35818358	19	1.9	19	94	0	65	40	8	8	43	1.64
35824286--35824380	26	3.8	25	72	15	70	50	3	10	35	1.53
35824524--35824569	19	2.6	18	80	13	51	47	6	8	36	1.60
35824619--35824665	3	15.7	3	95	0	85	65	2	0	31	1.04
35825368--35825406	20	2.0	20	85	10	53	76	5	7	10	1.13
35826056--35826103	6	7.7	6	90	9	78	14	18	0	66	1.25
35840863--35841305	69	6.4	69	86	1	539	22	24	23	30	1.99
35840855--35841305	207	2.2	207	85	2	600	22	24	23	30	1.99
35850469--35850504	15	2.3	15	90	4	54	22	13	8	55	1.65
35861799--35862344	94	5.8	92	80	4	438	28	20	16	35	1.94
35862110--35862258	50	3.1	49	68	14	130	30	20	14	34	1.93
35861798--35862301	188	2.7	188	79	2	552	27	20	16	34	1.94
35862135--35862301	44	3.7	44	70	12	120	28	19	16	34	1.94
35865540--35865584	22	2.0	22	83	8	56	42	4	0	53	1.21
35865630--35865656	14	1.9	14	100	0	54	37	22	25	14	1.93
35868873--35869344	236	2.0	236	99	0	926	29	21	17	30	1.96
35881154--35881216	31	2.0	31	81	6	74	47	11	6	34	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35883716--35883748	16	2.1	16	100	0	66	36	30	0	33	1.58
35886088--35886265	51	3.5	50	81	6	216	30	28	17	23	1.97
35888987--35889068	42	2.0	42	82	4	103	30	23	14	31	1.94
35891871--35892048	51	3.5	50	81	6	216	30	28	17	23	1.97
35894771--35894852	42	2.0	42	82	4	103	30	23	14	31	1.94
35897028--35897212	101	1.8	101	90	3	300	29	27	18	24	1.98
35897020--35897216	51	3.9	50	79	5	218	28	28	18	24	1.98
35904688--35904742	22	2.5	22	84	0	83	43	3	12	40	1.60
35906097--35906150	20	2.6	20	82	5	63	50	16	0	33	1.46
35911657--35911697	16	2.5	16	84	4	55	58	0	0	41	0.98
35911663--35911713	25	2.0	25	85	7	68	52	0	3	43	1.19
35919112--35919152	19	2.0	21	86	9	59	46	14	7	31	1.72
35922395--35922492	41	2.4	41	85	0	142	26	26	25	21	1.99
35927573--35927616	17	2.5	17	79	17	54	43	4	20	31	1.72
35932406--35932651	50	4.8	50	80	5	228	22	27	21	28	1.99
35939775--35939842	21	3.4	21	78	12	70	35	5	35	23	1.79
35939791--35939826	18	2.0	18	94	0	63	33	8	36	22	1.84
35939793--35939850	18	3.1	18	76	13	53	41	5	31	22	1.76
35943157--35943303	67	2.2	67	86	1	204	31	10	16	41	1.83
35943307--35943409	39	2.7	38	80	1	89	27	5	22	44	1.75
35949324--35949372	22	2.2	22	88	0	71	44	18	0	36	1.50
35953015--35953204	51	3.8	50	78	6	195	30	28	17	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35953017--35953201	101	1.8	101	89	5	293	29	27	17	24	1.98
35956629--35956715	28	3.1	28	86	3	122	32	12	24	31	1.92
35956629--35956723	27	3.5	27	85	4	111	33	11	25	29	1.91
35961635--35961672	18	2.2	17	90	4	58	44	0	13	42	1.43
35963031--35963138	28	3.9	28	86	7	139	31	13	25	28	1.94
35963771--35963832	19	3.4	19	70	20	69	50	29	0	20	1.49
35963772--35963840	35	2.0	35	100	0	138	49	30	0	20	1.49
35965026--35965066	19	2.2	19	100	0	82	56	12	4	26	1.56
35973283--35973316	16	2.2	15	89	5	50	55	2	0	41	1.15
35975490--35975559	25	2.8	25	86	0	95	34	22	20	22	1.97
35983436--35983474	21	1.9	20	84	5	51	15	10	23	51	1.73
35983826--35983891	32	2.1	32	91	0	105	37	7	18	36	1.79
35986717--35986767	21	2.4	22	83	6	61	7	21	1	68	1.25
35988235--35988316	40	2.0	41	84	13	107	24	25	25	24	2.00
35995599--35995705	26	4.1	26	82	0	133	22	19	22	35	1.96
35996828--35997073	50	4.9	50	83	4	282	24	17	28	29	1.97
36000333--36000419	27	3.2	27	66	23	74	33	5	24	36	1.79
36000342--36000424	24	3.2	24	67	23	60	32	6	24	37	1.80
36000332--36000437	54	2.0	54	98	0	203	33	6	24	35	1.81
36002872--36002994	50	2.4	50	83	4	149	22	18	28	30	1.98
36003051--36003151	46	2.2	43	81	10	105	24	14	21	38	1.92
36005002--36005063	28	2.3	27	86	13	83	22	24	25	27	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36005811--36006157	186	1.9	187	86	3	502	27	27	19	25	1.99
36023484--36023566	27	3.1	27	87	0	130	19	18	20	42	1.90
36045205--36045237	17	1.9	18	88	11	52	42	12	0	45	1.41
36047254--36047322	31	2.3	31	85	7	88	42	21	11	24	1.86
36048230--36048280	3	17.3	3	88	11	79	1	31	0	66	1.03
36053180--36053259	39	2.1	39	97	0	151	22	21	15	41	1.90
36058580--36058628	21	2.3	20	83	13	62	10	12	4	73	1.22
36063067--36063103	17	2.1	18	90	5	58	29	24	0	45	1.53
36063805--36063850	10	4.5	11	75	25	55	80	8	0	10	0.91
36063818--36063868	22	2.3	22	86	3	66	80	5	3	9	1.01
36063807--36063870	28	2.2	28	83	8	76	81	6	3	9	0.97
36065675--36065699	8	3.1	8	100	0	50	12	48	12	28	1.76
36065911--36065960	22	2.3	20	78	18	55	10	12	4	74	1.21
36078815--36079054	120	2.0	121	90	2	385	27	17	11	43	1.83
36079326--36079376	7	7.4	7	78	12	61	68	3	0	27	1.07
36079335--36079373	20	2.0	20	84	0	51	74	5	0	20	1.01
36079467--36079511	19	2.3	20	81	14	58	57	2	0	40	1.11
36080729--36080774	20	2.3	20	85	7	58	26	4	6	63	1.38
36081927--36081973	15	3.1	15	77	19	53	78	0	17	4	0.90
36083849--36083935	9	9.7	9	72	5	59	25	13	33	27	1.94
36083849--36083935	27	3.2	27	83	0	93	25	13	33	27	1.94
36088629--36088714	36	2.4	36	82	0	118	30	41	9	18	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36089151--36089185	11	3.2	11	87	0	52	31	0	2	65	1.07
36090481--36090525	9	5.0	9	77	0	54	24	11	33	31	1.90
36090481--36090533	18	2.9	18	82	0	70	24	11	33	30	1.90
36090483--36090542	27	2.2	27	90	0	93	26	11	33	28	1.91
36090502--36090569	27	2.5	27	82	0	73	29	13	30	26	1.94
36092014--36092064	24	2.1	24	100	0	102	49	7	7	35	1.61
36093808--36093979	95	1.8	95	96	0	317	42	8	11	37	1.71
36093958--36093992	16	2.2	16	100	0	70	54	5	0	40	1.24
36100811--36100973	40	4.1	40	80	3	159	25	28	14	31	1.95
36101698--36101799	54	1.9	53	88	6	152	21	25	31	21	1.98
36103652--36103708	27	2.2	26	78	6	60	26	17	21	35	1.95
36103661--36103912	27	9.3	27	75	13	182	24	15	19	41	1.89
36103680--36103912	54	4.3	54	80	7	233	24	14	19	41	1.89
36103680--36103912	81	2.9	81	86	3	310	24	14	19	41	1.89
36110446--36110547	51	2.0	51	90	3	161	24	17	14	43	1.87
36118380--36118677	50	5.9	50	78	5	226	27	22	26	23	2.00
36118385--36118627	100	2.4	104	79	5	253	25	23	27	23	2.00
36124011--36124308	50	5.9	50	81	4	285	26	21	28	22	1.99
36134683--36134782	33	3.1	33	78	11	116	29	14	8	49	1.71
36134804--36134922	50	2.3	52	84	2	161	31	13	15	40	1.85
36134791--36134950	50	3.2	50	78	9	157	31	12	13	41	1.82
36135171--36135309	69	2.0	69	88	0	206	27	15	17	40	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36138823--36138850	11	2.5	11	100	0	56	25	0	39	35	1.56
36139881--36140022	27	5.3	27	84	3	169	39	22	20	17	1.92
36140358--36140531	28	6.0	28	76	6	159	25	24	22	27	2.00
36144379--36144477	49	2.0	49	94	0	171	29	22	26	22	1.99
36145495--36145609	27	4.3	27	83	4	151	42	23	20	13	1.88
36145929--36146132	28	7.3	28	82	0	237	22	23	22	31	1.98
36145929--36146137	84	2.5	84	88	0	294	22	23	22	32	1.98
36147191--36147239	25	1.9	26	84	12	66	67	6	0	26	1.14
36147852--36147906	28	2.0	28	82	7	67	29	27	20	23	1.99
36148243--36148327	27	3.1	27	78	6	73	20	12	20	47	1.82

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