genome.fa.s1.2.7.7.80.10.50.1000.121.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  121  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)
36436399--36436440	20	2.1	20	86	0	57	57	4	0	38	1.20
36438904--36439055	76	2.0	77	89	1	234	37	4	12	45	1.63
36442602--36442649	24	2.0	25	83	4	62	16	10	4	68	1.33
36443527--36443746	44	5.0	43	63	12	124	23	27	24	25	2.00
36443525--36443836	88	3.6	88	91	0	491	24	25	24	25	2.00
36443855--36444280	44	9.7	44	87	1	557	22	27	21	28	1.99
36448083--36448131	25	2.0	25	83	0	62	16	10	4	69	1.32
36448288--36448329	21	2.0	22	90	4	68	16	16	47	19	1.83
36449384--36449482	46	2.2	46	92	0	162	34	9	8	48	1.64
36451431--36451557	45	2.8	45	90	0	191	35	22	15	25	1.94
36451554--36451749	51	3.9	50	77	4	214	30	26	18	24	1.98
36451562--36451745	101	1.8	101	86	3	271	31	25	18	24	1.97
36455953--36455983	9	3.4	9	90	0	53	25	12	22	38	1.90
36456276--36456335	30	2.0	31	86	3	86	20	40	0	40	1.52
36496476--36496581	55	1.9	55	90	0	167	26	31	17	24	1.97
36504627--36504669	20	2.1	21	86	4	61	48	9	18	23	1.76
36516103--36516215	23	4.7	23	69	20	70	7	20	3	68	1.31
36520380--36520413	11	3.2	11	83	8	52	29	11	32	26	1.92
36526076--36526199	62	2.0	62	93	0	212	36	24	20	18	1.95
36531116--36531142	13	2.1	13	100	0	54	22	7	7	62	1.46
36533833--36533857	12	2.1	12	100	0	50	32	8	16	44	1.76
36533921--36533963	13	3.2	13	93	6	77	41	6	9	41	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36533922--36533966	14	3.3	14	96	3	83	42	6	6	44	1.57
36534844--36534918	33	2.2	34	92	2	125	42	10	6	40	1.66
36539057--36539095	20	2.0	20	100	0	78	58	10	5	25	1.51
36543917--36543958	16	2.6	16	88	0	57	30	11	28	28	1.92
36548191--36548259	27	2.7	27	86	6	90	10	20	0	69	1.17
36548201--36548258	12	4.0	15	76	19	52	8	22	0	68	1.16
36553945--36553970	12	2.2	12	100	0	52	38	30	0	30	1.58
36565984--36566052	20	3.5	20	77	15	70	26	30	11	31	1.91
36567042--36567067	11	2.4	11	100	0	52	76	0	7	15	0.99
36575144--36575192	22	2.2	23	82	10	66	30	8	18	42	1.79
36595285--36595328	22	2.0	22	95	0	79	34	4	36	25	1.76
36624134--36624161	4	7.0	4	100	0	56	25	0	0	75	0.81
36625721--36625782	10	5.9	10	74	10	52	33	32	3	30	1.74
36625721--36625783	21	3.0	21	88	2	90	33	33	3	30	1.74
36629189--36629266	40	2.0	40	89	0	120	42	15	11	30	1.82
36635127--36635176	21	2.4	22	80	10	59	64	2	26	8	1.32
36639529--36639640	23	4.9	23	78	0	125	36	26	6	30	1.81
36639529--36639640	46	2.4	46	89	0	170	36	26	6	30	1.81
36647304--36647386	19	4.1	20	74	16	73	74	2	15	7	1.14
36647353--36647393	14	2.8	15	79	13	50	75	2	17	4	1.08
36647304--36647392	13	6.8	13	73	22	55	75	2	15	6	1.11
36652155--36652197	23	2.0	22	81	9	52	6	16	9	67	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36652479--36652513	17	2.1	16	89	5	52	5	17	0	77	0.96
36657843--36657908	23	2.9	23	79	0	78	37	24	6	31	1.80
36660448--36660492	20	2.2	21	88	4	65	80	2	11	6	0.99
36660448--36660493	21	2.2	21	84	7	58	80	2	10	6	0.98
36660448--36660509	18	3.2	19	79	6	63	77	1	12	8	1.06
36660486--36660538	16	3.3	16	76	10	54	73	1	16	7	1.15
36664688--36664753	23	2.9	23	81	0	78	37	22	6	33	1.79
36665698--36665739	22	2.0	21	90	4	66	30	4	33	30	1.78
36668554--36668590	12	3.1	12	88	0	56	70	5	2	21	1.20
36668627--36668666	15	2.7	15	96	0	71	62	5	12	20	1.48
36673116--36673157	18	2.3	18	87	0	57	80	2	9	7	0.97
36673178--36673207	15	2.1	15	93	6	53	73	0	20	6	1.05
36681104--36681168	28	2.4	28	86	2	87	10	21	3	64	1.38
36683269--36683310	17	2.6	16	92	3	66	7	9	2	80	0.97
36683302--36683341	13	3.1	14	82	13	50	22	7	5	65	1.38
36685391--36685521	41	3.2	41	95	0	235	31	18	16	33	1.93
36689145--36689210	23	2.9	23	86	0	78	31	28	4	34	1.78
36689715--36689747	11	3.0	11	83	16	50	27	21	15	36	1.93
36691008--36691055	20	2.4	20	92	0	78	27	35	16	20	1.94
36692974--36693004	16	1.9	16	93	0	53	64	0	9	25	1.24
36692220--36693248	535	1.9	533	91	4	1689	34	21	11	31	1.90
36694946--36694999	20	2.7	20	85	0	72	25	20	16	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36694946--36695019	30	2.5	30	82	8	80	22	18	17	40	1.91
36697401--36697444	22	2.0	22	90	0	70	36	4	34	25	1.76
36699319--36699474	12	13.6	12	68	18	64	68	1	18	10	1.28
36699341--36699477	6	22.7	6	68	6	71	70	2	18	9	1.25
36699345--36699477	18	7.3	18	73	9	90	69	2	18	9	1.26
36699409--36699475	29	2.4	27	85	9	91	70	0	17	11	1.17
36699319--36699495	57	3.2	52	75	12	169	68	2	18	10	1.30
36704117--36704175	20	3.0	20	82	0	64	37	13	27	22	1.91
36710842--36711119	45	6.2	45	96	0	502	38	15	20	25	1.92
36712773--36712845	29	2.5	29	86	0	110	47	12	9	30	1.73
36716070--36716110	9	4.3	9	87	9	55	85	2	12	0	0.70
36722619--36722647	11	2.6	11	100	0	58	13	6	0	79	0.93
36727964--36728016	18	2.9	18	75	13	54	7	24	0	67	1.16
36730199--36730223	10	2.5	10	100	0	50	0	28	0	72	0.86
36739352--36739390	10	4.0	10	84	15	55	79	7	2	10	1.02
36745318--36745356	19	2.1	19	90	0	60	7	25	0	66	1.18
36769279--36769326	21	2.4	19	80	13	51	8	20	0	70	1.12
36770363--36770405	16	2.7	15	76	13	50	13	18	2	65	1.38
36770459--36770519	13	4.5	13	74	8	50	6	14	3	75	1.13
36770498--36770548	10	4.9	10	75	15	50	11	5	5	76	1.14
36784535--36784577	20	2.2	20	100	0	86	25	20	27	25	1.99
36788656--36788702	20	2.3	20	85	0	58	25	19	29	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36790557--36790582	12	2.2	12	100	0	52	15	26	0	57	1.38
36791663--36791699	11	3.2	12	85	14	51	13	8	8	70	1.34
36793044--36793090	20	2.3	20	85	0	58	25	19	29	25	1.98
36793419--36793519	52	1.9	52	91	0	166	32	20	17	28	1.96
36801219--36801281	21	3.0	21	85	2	81	28	4	33	33	1.78
36802414--36802472	30	2.0	30	83	6	75	28	15	25	30	1.96
36804856--36804928	29	2.5	29	95	0	128	31	9	13	45	1.76
36809407--36809453	19	2.3	20	82	10	60	27	34	8	29	1.87
36809407--36809458	20	2.6	19	84	6	59	26	34	7	30	1.85
36812267--36812329	21	3.0	21	88	2	90	30	3	33	33	1.74
36813302--36813534	45	5.2	45	95	0	403	38	15	20	25	1.92
36819614--36819846	45	5.2	45	95	0	403	38	15	20	25	1.92
36821506--36821578	29	2.5	29	86	0	110	47	12	9	30	1.73
36826700--36826772	29	2.5	29	90	0	119	46	13	9	30	1.75
36827308--36827349	22	2.0	21	90	4	66	30	4	33	30	1.78
36828425--36828461	10	3.8	10	92	3	58	24	13	21	40	1.89
36840499--36840538	16	2.5	16	88	8	55	65	5	12	17	1.44
36848547--36848663	61	1.9	61	91	0	189	27	22	31	18	1.97
36849440--36849466	4	6.8	4	100	0	54	77	0	0	22	0.76
36853483--36853521	19	2.1	19	95	0	69	51	25	17	5	1.66
36860721--36860798	40	2.0	40	84	0	102	42	12	14	30	1.83
36862412--36862456	22	2.0	22	100	0	90	37	26	13	22	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36864427--36864473	20	2.3	20	85	7	60	25	17	29	27	1.97
36866341--36866380	12	3.3	12	82	0	53	15	22	2	60	1.47
36866410--36866456	15	3.1	15	84	9	60	12	17	0	70	1.17
36867240--36867340	52	1.9	52	91	0	166	32	20	17	28	1.96
36868167--36868213	20	2.3	20	85	7	60	25	17	29	27	1.97
36871935--36871996	22	3.0	21	81	6	72	72	0	20	6	1.06
36871935--36871996	21	3.0	21	80	15	74	72	0	20	6	1.06
36871950--36872012	21	3.0	22	81	6	67	66	1	23	7	1.27
36873605--36873635	16	1.9	16	100	0	62	35	6	25	32	1.82
36876200--36876264	28	2.4	28	86	2	87	10	21	3	64	1.38

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