genome.fa.s5.2.7.7.80.10.50.1000.18.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  18  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)
5325267--5325325	18	3.2	18	70	13	57	38	3	1	55	1.26
5325303--5325352	25	2.0	25	88	7	75	36	2	0	62	1.07
5325264--5325383	10	13.0	9	69	12	75	39	2	3	55	1.30
5326327--5326378	19	2.8	18	77	13	52	44	5	1	48	1.38
5333440--5333468	2	14.5	2	100	0	58	48	0	0	51	1.00
5333523--5333562	18	2.1	20	86	9	57	57	0	2	40	1.12
5334395--5334455	24	2.5	24	89	0	86	45	0	34	19	1.51
5335073--5335120	14	3.5	14	77	13	55	6	0	43	50	1.27
5335162--5335451	96	3.1	94	80	6	279	38	4	17	40	1.69
5335233--5335458	95	2.4	90	85	7	276	39	4	18	37	1.72
5335495--5335906	126	3.3	125	90	2	639	31	19	22	26	1.98
5338194--5338233	21	1.9	21	84	0	53	52	2	7	37	1.43
5339764--5339845	11	7.4	11	82	9	87	45	1	31	21	1.60
5339770--5339854	33	2.5	33	81	14	102	43	1	31	23	1.61
5339827--5339854	12	2.3	12	100	0	56	50	0	28	21	1.49
5354979--5355087	54	2.0	54	96	0	200	35	22	21	21	1.96
5361475--5361782	151	2.0	152	89	1	476	25	29	17	27	1.97
5366887--5366918	14	2.4	14	94	5	57	34	18	12	34	1.89
5378262--5378297	18	1.9	19	88	5	56	58	2	5	33	1.36
5380483--5380702	111	2.0	112	89	0	343	41	14	12	31	1.83
5382486--5382534	15	3.3	15	72	16	57	26	0	10	63	1.26
5382881--5382912	16	2.0	16	93	0	55	43	34	9	12	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5384835--5384864	15	2.0	15	93	0	51	50	6	10	33	1.62
5386792--5386840	25	1.9	26	91	4	82	12	16	12	59	1.62
5386864--5386958	45	2.1	45	94	5	167	10	16	14	57	1.64
5389288--5389317	15	2.0	15	93	0	51	50	6	10	33	1.62
5389656--5389733	19	3.9	19	71	14	68	43	8	11	35	1.72
5390041--5390081	21	2.0	21	85	9	57	19	12	0	68	1.21
5391060--5391256	98	2.0	98	94	0	349	29	9	23	37	1.87
5398187--5398280	44	2.1	44	82	2	107	30	18	26	24	1.97
5398206--5398932	44	16.6	43	75	11	468	28	21	23	26	1.99
5398206--5398941	89	8.4	87	75	11	573	28	21	23	26	1.99
5398206--5398894	217	3.2	217	90	2	1060	28	21	23	26	1.99
5399117--5399191	19	3.8	19	82	6	105	44	10	10	34	1.74
5399118--5399181	21	3.1	21	84	4	69	45	9	9	35	1.69
5399502--5399542	21	2.0	21	85	9	57	19	12	0	68	1.21
5401495--5401534	14	2.9	14	84	0	53	32	7	17	42	1.77
5401503--5401569	35	1.9	35	87	3	100	31	10	13	44	1.77
5401518--5401557	20	2.0	20	85	0	53	27	12	12	47	1.77
5404644--5404839	47	4.4	44	87	8	220	33	5	12	48	1.64
5404724--5404839	47	2.5	47	97	0	223	36	5	11	47	1.62
5405226--5405257	16	2.1	15	94	5	55	46	18	3	31	1.65
5405390--5405452	29	2.2	29	97	0	117	39	12	34	12	1.82
5408286--5408401	3	38.7	3	82	6	146	32	3	1	62	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5408411--5408449	17	2.3	17	86	0	51	41	5	0	53	1.23
5409153--5409674	109	4.8	109	93	1	863	29	15	19	34	1.93
5409147--5409651	219	2.3	218	93	1	850	30	15	19	34	1.93
5417589--5417635	20	2.3	21	81	3	60	46	8	2	42	1.46
5427238--5427288	20	2.8	18	85	8	59	64	1	0	33	1.05
5429293--5429689	109	3.7	109	91	3	658	33	19	16	29	1.94
5429293--5429694	217	1.8	218	95	0	734	33	19	16	30	1.94
5430018--5430050	2	16.5	2	93	0	57	48	0	3	48	1.17
5430649--5430696	3	15.7	3	80	8	53	62	2	0	35	1.07
5437490--5437552	26	2.5	26	77	15	69	9	9	9	71	1.32
5437522--5437594	20	3.6	20	71	22	62	9	4	10	75	1.17
5437488--5437559	30	2.6	25	71	21	63	9	9	8	72	1.29
5446687--5446744	3	19.0	3	84	7	73	62	1	0	36	1.06
5451975--5452062	32	2.8	32	98	0	167	21	27	37	13	1.91
5454386--5454503	23	5.2	22	65	19	73	27	18	8	45	1.78
5454349--5454519	45	3.8	45	88	0	245	26	20	11	42	1.85
5454921--5454965	16	2.6	17	79	10	56	35	0	0	64	0.94
5454978--5455071	9	9.9	9	68	15	55	37	2	1	59	1.16
5454978--5455072	29	3.3	29	81	9	106	36	2	1	60	1.16
5455023--5455147	10	12.9	10	66	14	57	33	3	0	62	1.17
5455085--5455143	31	2.0	31	87	12	88	30	1	0	67	1.00
5455520--5455552	14	2.3	15	94	5	59	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5455485--5455553	24	2.7	25	76	8	68	53	2	0	43	1.15
5455620--5455694	29	2.5	31	75	12	75	53	2	0	44	1.14
5455502--5455737	120	2.0	114	91	7	375	52	4	0	41	1.28
5455546--5455732	60	3.1	60	72	21	201	52	5	1	41	1.31
5458914--5458965	25	2.2	23	86	6	68	55	0	0	44	0.99
5458925--5458969	19	2.4	18	85	14	56	55	0	0	44	0.99
5460026--5460337	43	7.3	43	92	0	471	25	29	17	27	1.98
5460664--5460726	21	3.0	21	90	0	90	0	41	22	36	1.54
5463039--5464234	9	139.8	9	67	18	189	39	1	13	45	1.53
5463034--5463113	25	3.2	25	96	0	142	35	1	20	43	1.60
5463066--5464029	34	29.4	33	75	16	540	40	1	12	45	1.51
5463038--5464216	68	18.4	66	69	20	500	40	1	12	45	1.53
5463277--5463409	25	5.4	25	70	16	98	42	0	14	43	1.45
5463310--5463386	39	2.0	39	100	0	154	42	0	12	44	1.43
5463642--5463710	25	2.7	26	86	4	88	43	1	13	42	1.52
5463471--5463974	196	2.5	195	84	8	687	40	1	12	45	1.51
5463838--5463915	25	3.1	25	84	1	102	39	0	17	42	1.50
5463868--5463949	30	3.1	25	81	15	85	45	0	13	41	1.43
5463871--5463953	25	3.1	25	78	18	87	45	0	12	42	1.41
5463948--5463995	25	1.9	25	86	0	69	41	0	8	50	1.33
5463986--5464033	25	1.9	25	95	0	87	41	0	14	43	1.45
5464063--5464213	34	4.6	34	74	21	144	39	1	13	45	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5464134--5464238	25	4.2	23	77	11	93	34	0	17	47	1.54
5464159--5464234	34	2.2	34	81	4	91	35	1	17	46	1.56
5463926--5464247	59	5.4	59	76	12	270	38	1	13	45	1.55
5466414--5466816	115	3.5	113	82	4	414	32	23	15	28	1.95
5467347--5467494	21	7.0	21	75	9	97	45	29	2	22	1.64
5467418--5467494	7	11.0	7	78	10	86	51	25	1	20	1.55
5467923--5468032	40	2.8	40	84	0	139	28	29	20	21	1.98
5468076--5468186	41	2.8	40	75	8	125	27	24	22	25	2.00
5467820--5468311	154	3.2	148	78	7	466	30	24	18	26	1.98
5468230--5468360	40	3.3	40	81	8	149	22	24	21	31	1.98
5469518--5469585	11	6.6	10	74	15	50	38	0	0	61	0.96
5469530--5469572	18	2.3	19	84	8	61	44	0	0	55	0.99
5473194--5473238	18	2.6	18	86	10	58	42	6	15	35	1.73
5475855--5475915	25	2.4	26	81	8	72	6	22	16	54	1.65
5478134--5478203	23	2.9	24	81	14	74	31	18	27	22	1.97
5491848--5491939	10	9.6	9	75	17	71	67	2	1	29	1.09
5491865--5491947	28	2.9	28	82	7	87	67	2	3	26	1.19
5491966--5492007	14	3.1	14	83	10	52	66	7	4	21	1.35
5495035--5495076	22	1.9	22	95	0	75	45	23	11	19	1.83
5495312--5495348	18	2.0	19	89	5	58	45	29	0	24	1.53
5502832--5503025	96	2.0	96	97	0	370	32	10	17	39	1.84
5509317--5509350	17	2.0	17	88	0	50	14	0	17	67	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5510454--5510497	23	1.9	23	90	0	70	40	15	15	27	1.88
5510454--5510505	23	2.3	23	86	0	68	38	15	17	28	1.90
5510541--5510728	47	4.0	47	92	0	286	39	13	19	26	1.89
5510545--5510705	23	6.8	24	71	4	139	39	13	19	27	1.90
5510545--5510712	24	7.1	24	67	11	96	39	13	19	27	1.90
5512850--5512878	14	2.0	15	93	6	51	51	20	0	27	1.47
5517604--5517647	23	1.9	23	90	0	70	40	15	15	27	1.88
5517604--5517655	23	2.3	23	86	0	68	38	15	17	28	1.90
5517709--5517832	23	5.3	23	69	7	97	41	13	19	25	1.88
5517692--5517832	47	3.0	47	91	0	228	41	14	18	24	1.88

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