genome.fa.s2.2.7.7.80.10.50.1000.15.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   

This is table  15  of  206  ( 24623 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)
4534650--4534759	40	2.8	40	88	0	166	28	22	22	26	1.99
4534690--4534989	115	2.6	115	83	0	384	29	18	23	28	1.98
4534499--4534874	155	2.4	153	84	1	466	30	19	21	28	1.98
4534920--4535015	40	2.4	40	84	5	122	23	20	28	27	1.99
4535330--4535371	21	2.0	21	85	0	57	28	2	30	38	1.70
4535404--4535450	21	2.2	21	85	7	60	23	0	38	38	1.55
4535415--4535469	21	2.6	21	91	2	83	21	0	40	38	1.54
4536030--4536060	3	10.3	3	100	0	62	0	32	0	67	0.91
4538528--4538568	20	2.1	19	90	4	64	46	0	0	53	1.00
4541355--4541395	3	13.7	3	84	0	55	60	0	4	34	1.18
4541860--4541916	20	2.8	20	74	12	62	78	1	12	7	1.01
4542213--4542256	20	2.4	18	85	14	56	11	6	34	47	1.66
4553142--4553176	9	3.9	9	84	0	52	54	2	0	42	1.15
4554460--4554509	23	2.2	24	100	0	86	34	0	12	54	1.38
4554469--4554511	13	3.5	13	75	18	56	34	0	13	51	1.42
4562944--4562983	20	2.0	20	85	9	55	25	5	0	70	1.08
4564409--4564458	23	2.2	23	92	3	84	40	0	10	50	1.36
4565868--4565925	17	3.4	17	75	17	57	50	0	5	44	1.24
4573162--4573301	46	3.0	46	97	0	262	34	8	27	29	1.87
4580478--4580654	89	2.0	89	88	1	266	31	12	15	41	1.84
4580993--4581150	79	2.0	79	100	0	316	27	10	20	41	1.84
4591274--4591333	30	2.0	30	96	0	111	25	3	15	56	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4595979--4596028	18	2.7	18	84	3	64	60	4	4	32	1.34
4595978--4596021	19	2.3	20	80	11	56	61	4	2	31	1.28
4596007--4596052	23	2.0	23	88	12	69	58	4	8	28	1.47
4596143--4596219	9	8.1	9	70	24	52	62	5	1	31	1.25
4596481--4596520	22	1.9	22	90	10	66	40	0	0	60	0.97
4596555--4596589	17	2.0	18	88	5	54	37	8	0	54	1.31
4603297--4603411	38	3.0	38	97	0	221	24	26	5	43	1.75
4607611--4607642	2	16.0	2	100	0	64	50	0	0	50	1.00
4607968--4608008	12	3.4	12	87	9	57	56	0	7	36	1.27
4608196--4608255	24	2.3	26	80	16	70	53	8	16	21	1.69
4609566--4610490	44	20.9	44	78	4	797	28	23	16	31	1.96
4609593--4610499	89	10.2	89	82	4	949	28	23	16	31	1.96
4609593--4610463	177	4.9	176	85	3	980	28	23	16	31	1.96
4612039--4612064	13	2.0	13	100	0	52	30	7	15	46	1.74
4612097--4612136	19	2.0	20	85	4	55	25	20	7	47	1.75
4616196--4616609	44	9.3	44	75	3	382	32	17	22	27	1.96
4616163--4616701	89	6.1	89	87	2	674	31	17	22	27	1.97
4616163--4616708	44	12.3	45	71	8	361	31	17	22	28	1.97
4618123--4618174	3	17.0	3	76	11	52	30	5	1	61	1.30
4618253--4618294	11	4.1	11	79	17	54	33	7	2	57	1.39
4618257--4618302	19	2.4	19	96	0	83	30	4	2	63	1.26
4619336--4619669	167	2.0	167	98	0	641	26	17	15	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4625852--4625977	2	64.5	2	76	13	84	50	0	7	42	1.35
4625803--4625977	93	1.9	93	98	0	341	49	1	9	39	1.43
4626237--4626277	12	3.4	12	87	9	57	56	0	7	36	1.27
4630820--4630844	11	2.3	11	100	0	50	92	0	8	0	0.40
4632486--4632533	23	2.1	23	88	0	69	31	22	14	31	1.94
4633285--4633445	46	3.6	46	91	5	251	27	23	14	33	1.94
4642887--4642931	20	2.2	20	88	0	63	48	4	0	46	1.22
4642941--4642974	15	2.2	16	89	5	52	67	0	0	32	0.91
4643925--4643963	2	19.5	2	89	0	60	48	2	2	46	1.29
4649767--4649811	22	2.0	21	87	8	63	42	0	4	53	1.21
4649801--4649848	20	2.3	21	79	13	55	47	4	2	45	1.33
4656183--4656211	2	14.5	2	100	0	58	48	0	0	51	1.00
4657988--4658017	2	15.0	2	100	0	60	50	0	0	50	1.00
4666737--4666790	27	2.0	27	88	0	81	24	27	24	24	2.00
4666816--4666942	33	3.6	33	75	19	130	32	26	20	20	1.97
4666767--4667024	80	3.3	79	82	6	346	32	26	18	22	1.97
4672705--4672763	13	4.6	13	72	17	52	57	3	0	38	1.15
4676068--4676114	20	2.3	21	82	14	62	59	8	0	31	1.27
4676432--4676480	24	2.0	24	84	0	62	38	12	4	44	1.61
4676576--4676638	30	2.1	30	100	0	126	46	12	9	31	1.74
4679593--4679788	96	2.0	96	98	0	374	31	23	11	33	1.91
4680839--4680939	50	2.0	50	100	0	202	34	33	11	19	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4685905--4685952	21	2.1	24	85	11	66	35	6	14	43	1.71
4689474--4689531	30	1.9	30	85	0	80	43	3	22	31	1.70
4689744--4689774	13	2.4	13	94	0	53	32	0	12	54	1.38
4689869--4690110	50	4.7	50	87	3	295	27	23	28	19	1.99
4689869--4690118	100	2.4	103	88	5	362	27	23	28	20	1.99
4690584--4690758	79	2.2	79	91	5	284	30	11	13	45	1.78
4691653--4691838	96	2.0	93	86	7	259	45	29	1	24	1.60
4691931--4692106	89	2.0	89	86	0	244	44	28	1	25	1.61
4691556--4692101	278	2.0	275	91	3	893	44	26	1	27	1.64
4691949--4692130	89	2.0	89	84	0	238	45	26	1	26	1.63
4692123--4692187	14	4.6	14	80	0	67	35	41	0	23	1.55
4692207--4692239	14	2.3	15	94	5	59	36	33	0	30	1.58
4692444--4692625	41	4.4	42	90	3	262	19	24	25	30	1.98
4693443--4693595	22	7.0	22	90	0	225	26	26	14	32	1.94
4695024--4695052	14	2.1	14	100	0	58	34	13	0	51	1.42
4696173--4696308	43	3.2	43	95	0	236	17	20	32	29	1.96
4696369--4696411	22	2.0	22	95	0	77	41	27	20	9	1.83
4700975--4701118	72	2.0	72	98	0	279	43	21	5	29	1.75
4716609--4716640	17	1.9	16	93	6	55	78	0	0	21	0.76
4718147--4718221	29	2.6	29	76	14	84	60	2	2	34	1.25
4724205--4724367	80	2.0	80	100	0	326	38	11	20	29	1.87
4738034--4738118	38	2.3	38	80	13	104	47	2	2	48	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4741036--4741066	2	15.5	2	100	0	62	51	0	0	48	1.00
4741768--4741798	15	2.0	16	93	6	55	45	22	0	32	1.53
4757050--4757087	19	2.0	19	100	0	76	52	15	5	26	1.64
4771373--4771635	131	2.0	131	92	2	438	36	9	21	31	1.86
4777393--4777452	29	2.0	30	83	3	77	51	1	13	33	1.51
4778751--4778799	24	2.1	23	92	3	80	26	10	20	42	1.84
4786538--4786607	31	2.3	31	87	5	97	54	18	2	24	1.57
4786830--4786865	2	18.0	2	100	0	72	50	0	0	50	1.00
4788080--4788109	14	2.1	14	93	0	51	30	3	20	46	1.66
4791827--4791871	18	2.4	18	85	10	56	73	4	8	13	1.23
4792280--4792313	17	1.9	18	88	5	52	41	0	23	35	1.55
4797426--4797468	17	2.5	17	100	0	86	37	13	9	39	1.78
4797900--4797958	29	2.0	30	83	3	75	47	8	3	40	1.51
4803003--4803032	3	10.0	3	100	0	60	66	0	33	0	0.92
4813283--4813312	15	2.0	15	93	0	51	50	0	0	50	1.00
4813298--4813367	26	2.7	25	74	12	61	50	1	0	48	1.09
4814945--4815165	119	1.8	121	82	3	286	46	19	13	20	1.84
4816367--4816411	24	2.0	23	86	8	65	44	4	0	51	1.21
4818483--4818546	17	3.6	17	74	15	67	46	14	12	26	1.79
4818501--4818554	17	2.9	19	71	20	60	46	16	12	24	1.82
4818484--4818554	36	2.0	36	97	0	133	46	15	12	25	1.81
4819218--4819260	22	2.0	22	90	9	70	51	2	0	46	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4819220--4819272	21	2.5	21	81	9	54	56	1	0	41	1.10
4837705--4837734	16	1.9	15	93	6	51	93	0	6	0	0.35
4838376--4838405	14	2.1	15	93	6	53	60	0	0	40	0.97
4838358--4838404	20	2.3	20	79	13	53	57	0	0	42	0.98
4844975--4845163	96	2.0	95	91	1	306	34	14	25	25	1.94
4848064--4848114	15	3.8	14	82	12	54	45	1	1	50	1.24
4864016--4864082	34	1.9	35	84	3	91	44	13	8	32	1.75
4866051--4866085	4	8.8	4	100	0	70	74	0	0	25	0.82
4867024--4867127	54	1.9	54	84	3	138	28	28	4	37	1.78
4870813--4870841	12	2.5	12	94	5	51	24	24	17	34	1.96

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   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206