genome.fa.s5.2.7.7.80.10.50.1000.69.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   207   208   

This is table  69  of  208  ( 24913 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)
20070303--20070365	29	2.1	30	88	2	92	36	0	1	61	1.05
20070835--20071114	124	2.3	124	84	5	361	33	23	14	29	1.94
20071538--20071598	26	2.3	26	83	8	70	52	1	3	42	1.27
20072314--20072367	2	27.0	2	100	0	108	50	0	0	50	1.00
20073971--20074056	21	4.0	22	82	8	97	38	22	20	18	1.94
20074977--20075030	17	3.2	17	80	16	60	0	24	5	70	1.08
20074948--20075028	30	2.8	29	78	10	85	0	28	4	66	1.12
20075243--20075307	30	2.3	27	86	7	85	41	1	0	56	1.08
20075258--20075307	27	2.0	26	84	11	68	44	0	0	56	0.99
20075248--20075299	15	3.4	16	75	25	58	40	1	0	57	1.10
20077554--20077592	21	1.9	20	89	5	60	43	2	2	51	1.29
20080279--20080317	15	2.7	15	88	4	53	41	2	0	56	1.13
20081142--20081205	6	10.7	6	98	0	110	62	0	0	37	0.95
20081706--20081753	21	2.4	21	80	16	57	75	0	8	16	1.04
20089929--20089968	21	1.9	21	89	0	62	17	0	7	75	1.03
20097313--20097431	58	2.0	60	96	3	224	39	15	25	20	1.91
20104888--20104931	18	2.4	18	82	10	54	52	6	31	9	1.59
20104981--20105028	24	1.9	25	83	8	62	18	6	10	64	1.45
20113111--20113240	44	2.9	45	81	4	145	17	15	16	50	1.79
20113233--20113397	45	3.7	45	89	0	251	25	20	18	35	1.95
20113203--20113389	90	2.1	90	85	2	259	24	20	16	37	1.93
20114885--20114915	16	1.9	16	93	0	53	35	16	22	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20132612--20132644	16	1.9	18	88	11	52	42	6	3	48	1.43
20133087--20133142	22	2.5	22	82	5	69	37	19	16	26	1.92
20138441--20138486	15	3.1	15	100	0	92	34	6	45	13	1.69
20143318--20143379	31	2.1	29	90	6	97	58	1	0	40	1.08
20143340--20143410	17	3.8	19	71	17	51	63	0	0	36	0.95
20143454--20143487	11	3.1	11	91	8	52	91	5	0	2	0.51
20144450--20144566	18	6.3	18	73	14	85	61	2	3	32	1.26
20144450--20144504	19	2.9	19	79	12	69	58	1	0	40	1.09
20144497--20144540	19	2.4	18	88	3	61	70	2	4	22	1.17
20154282--20154306	1	25.0	1	100	0	50	100	0	0	0	0.00
20155153--20155217	28	2.3	28	79	15	71	40	0	1	58	1.07
20155540--20155584	9	4.8	10	83	5	51	26	2	0	71	0.98
20160993--20161054	31	2.1	30	82	17	76	29	17	8	45	1.77
20161203--20161267	25	2.6	25	78	9	78	30	23	20	26	1.98
20161257--20161325	24	2.8	25	72	12	70	31	21	23	23	1.98
20169610--20169643	18	2.0	16	88	11	50	70	2	14	11	1.27
20187678--20187706	15	1.9	15	100	0	58	37	0	34	27	1.57
20192363--20192401	19	2.1	19	85	0	51	12	30	0	56	1.37
20195600--20195732	42	3.1	43	74	11	128	28	21	16	33	1.95
20203553--20203618	25	2.6	25	90	0	96	27	19	37	15	1.92
20203672--20203720	20	2.3	21	79	6	55	36	0	40	22	1.54
20206350--20206389	18	2.3	18	91	4	64	77	5	2	15	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20206343--20206391	24	2.0	24	84	7	64	77	4	2	16	1.01
20206654--20206830	81	2.2	81	78	4	196	33	20	21	24	1.97
20206674--20206813	40	3.5	40	83	2	165	28	20	22	28	1.98
20206848--20207335	156	3.1	155	83	4	536	31	16	22	29	1.96
20207386--20207455	29	2.4	29	77	11	74	25	0	18	55	1.43
20207460--20207504	14	3.2	14	87	6	65	20	0	28	51	1.48
20207472--20207510	7	5.6	7	85	11	53	15	0	30	53	1.42
20207701--20207885	7	26.4	7	71	6	106	18	1	34	45	1.60
20207823--20207885	29	2.3	27	78	13	74	19	1	33	46	1.59
20216476--20216544	30	2.2	31	82	10	79	24	7	5	62	1.44
20225958--20226169	53	4.0	53	84	4	239	36	12	22	27	1.91
20228934--20228963	15	2.0	15	100	0	60	80	0	20	0	0.72
20239186--20239252	18	3.7	18	71	0	62	41	20	7	29	1.80
20239180--20239269	36	2.5	36	77	0	99	40	20	8	31	1.83
20243937--20243984	25	1.9	25	100	0	96	43	4	25	27	1.72
20245717--20245910	85	2.3	85	91	0	307	30	16	22	29	1.96
20248868--20248900	9	3.8	9	92	8	50	12	15	0	72	1.12
20256336--20257549	607	2.0	608	95	0	2196	26	16	22	33	1.96
20258520--20258596	32	2.4	33	82	10	88	22	24	35	18	1.96
20263212--20263270	27	2.2	27	87	0	82	16	16	5	61	1.52
20264289--20264444	85	1.8	85	91	0	258	33	16	19	30	1.94
20266591--20266706	43	2.7	42	76	11	110	25	17	28	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20267367--20267412	23	2.0	23	83	8	58	39	6	17	36	1.76
20279674--20279751	20	3.9	20	75	0	75	43	10	12	33	1.77
20279674--20279751	40	2.0	40	81	0	93	43	10	12	33	1.77
20279684--20279764	20	4.1	20	77	0	54	44	11	11	33	1.75
20279770--20279954	27	7.0	27	83	6	234	43	22	15	18	1.88
20279763--20279954	54	3.6	54	86	2	273	42	22	16	18	1.89
20284413--20284510	31	3.2	31	77	2	99	19	18	17	44	1.87
20302616--20302649	17	2.1	17	88	5	52	50	0	11	38	1.39
20303762--20303828	20	3.4	20	79	10	75	55	5	0	38	1.25
20312388--20312444	3	19.0	3	100	0	114	33	0	0	66	0.92
20327155--20327280	61	2.2	56	87	7	171	53	1	0	44	1.10
20328507--20328701	98	2.0	98	94	0	345	35	25	11	27	1.90
20328978--20329014	3	12.3	3	100	0	74	67	0	0	32	0.91
20330169--20330279	19	5.8	19	88	0	168	37	16	9	36	1.82
20330958--20330997	22	1.9	20	85	10	53	35	7	2	55	1.42
20331111--20331198	45	2.0	45	100	0	176	34	9	26	30	1.87
20332176--20332210	18	1.9	18	88	11	54	65	5	5	22	1.36
20339481--20339524	12	3.8	12	88	11	74	45	0	0	54	0.99
20339490--20339525	10	3.4	10	85	14	54	44	0	0	55	0.99
20339481--20339525	22	2.0	22	100	0	90	46	0	0	53	1.00
20340895--20340960	24	2.7	24	80	2	78	16	27	21	34	1.95
20353083--20353114	8	4.0	8	100	0	64	25	37	0	37	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20354107--20354160	11	4.8	12	80	19	71	27	31	0	40	1.57
20357581--20357930	124	2.8	124	93	0	610	32	22	15	29	1.95
20358588--20358651	33	2.0	30	82	14	76	43	12	15	28	1.83
20358956--20358981	5	5.2	5	100	0	52	23	0	0	76	0.78
20359691--20359742	25	2.1	25	100	0	104	32	23	15	28	1.95
20363178--20363218	6	6.8	6	94	0	73	53	0	46	0	1.00
20370214--20370273	17	3.5	17	77	8	59	0	30	1	68	0.99
20370213--20370278	11	5.8	11	76	5	60	0	27	3	69	1.03
20374114--20374151	20	1.9	20	88	0	58	71	0	7	21	1.11
20375997--20376042	21	2.2	21	92	0	74	0	13	21	65	1.26
20375992--20376042	15	3.5	15	86	2	59	0	13	19	66	1.24
20375997--20376049	21	2.5	20	85	11	70	0	13	22	64	1.28
20376484--20376548	32	2.1	32	97	2	123	47	12	9	30	1.72
20384408--20384440	5	6.6	5	89	10	50	0	15	0	84	0.61
20384503--20384543	21	2.0	21	85	9	57	29	0	9	60	1.28
20384561--20384606	18	2.6	18	86	3	58	43	0	2	54	1.12
20384766--20384858	44	2.1	45	92	6	154	37	25	4	32	1.76
20384840--20384894	16	3.4	16	87	0	83	30	25	5	38	1.79
20385951--20386020	35	2.0	35	86	10	99	31	8	20	40	1.82
20387081--20387126	20	2.2	21	84	3	58	52	4	19	23	1.64
20387995--20388162	84	2.0	84	98	0	327	35	17	17	29	1.93
20391660--20391876	40	5.4	40	81	6	235	36	17	28	17	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20391641--20391820	79	2.3	80	83	2	220	35	16	30	17	1.92
20391748--20391809	20	3.1	20	70	9	63	33	17	30	17	1.94
20392682--20392709	11	2.5	11	100	0	56	57	7	0	35	1.26
20403524--20403663	39	3.5	39	84	1	181	44	21	3	30	1.69
20403527--20403567	15	2.6	17	85	11	52	46	21	0	31	1.52
20403696--20403728	15	2.3	15	89	5	50	51	24	3	21	1.62
20406122--20406173	19	2.7	19	81	0	68	28	21	28	21	1.98
20415633--20415696	31	2.1	31	96	0	119	29	14	29	26	1.95
20419958--20420017	30	2.0	30	83	6	77	48	0	20	31	1.50
20428920--20428952	16	2.1	16	100	0	66	24	12	6	57	1.57

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   207   208