genome.fa.s5.2.7.7.80.10.50.1000.156.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  156  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)
47538745--47538793	18	2.6	19	77	6	55	59	10	16	14	1.61
47539562--47539590	6	4.8	6	100	0	58	51	13	0	34	1.42
47539944--47539995	18	2.8	18	73	5	50	23	1	44	30	1.64
47541004--47541102	47	2.1	48	80	1	110	45	2	9	43	1.47
47541097--47541136	12	3.5	11	86	10	53	12	2	0	85	0.71
47541097--47541136	17	2.3	18	91	4	64	12	2	0	85	0.71
47541267--47541499	89	2.6	88	87	3	333	43	28	0	27	1.61
47541416--47541442	14	1.9	14	100	0	54	29	55	0	14	1.40
47541549--47541593	7	7.0	7	76	19	53	31	51	0	17	1.46
47541549--47541593	12	3.6	12	93	6	72	31	51	0	17	1.46
47541627--47541660	15	2.3	15	90	5	52	35	29	0	35	1.58
47542314--47542473	81	2.0	81	97	0	302	29	23	23	23	1.99
47543473--47543769	100	3.0	99	82	6	366	31	17	20	29	1.96
47543658--47543863	111	1.8	112	83	5	272	31	16	20	31	1.95
47543658--47543882	113	2.0	112	81	5	265	36	15	19	29	1.92
47546164--47546203	12	3.2	12	92	7	62	55	7	0	37	1.29
47549491--47549586	40	2.5	38	80	6	106	23	21	17	36	1.95
47552942--47553120	28	6.4	27	81	6	187	32	13	26	26	1.93
47557048--47557088	20	2.3	19	84	16	52	46	0	0	53	1.00
47558814--47558856	21	2.0	21	90	0	68	32	11	13	41	1.81
47560513--47560538	13	2.0	13	100	0	52	76	0	23	0	0.78
47563791--47563828	20	2.0	20	85	10	53	55	0	7	36	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47564266--47564357	37	2.4	37	81	12	98	41	3	4	51	1.38
47565870--47565895	13	2.0	13	100	0	52	69	0	15	15	1.20
47567344--47567387	23	1.9	23	95	0	79	43	13	13	29	1.83
47571692--47571886	78	2.5	78	90	0	309	35	4	17	42	1.69
47571692--47571945	78	3.3	76	84	4	296	35	4	18	41	1.71
47572306--47572479	31	5.5	30	72	15	145	25	10	19	44	1.82
47572304--47572534	33	7.2	32	77	10	224	29	8	19	43	1.80
47572304--47572512	64	3.3	64	94	0	355	27	9	19	43	1.82
47590935--47590973	19	2.0	20	90	5	62	43	10	12	33	1.77
47590991--47591033	20	2.2	20	91	0	68	44	11	6	37	1.68
47591678--47591720	23	1.9	23	90	4	70	48	13	11	25	1.77
47593673--47593724	16	3.2	16	91	0	86	38	1	26	32	1.68
47593891--47594025	58	2.3	57	85	2	180	50	3	0	45	1.19
47593891--47594055	58	2.9	57	81	7	165	52	3	0	43	1.23
47594033--47594075	21	2.0	21	86	9	59	62	2	0	34	1.08
47607560--47607602	21	2.0	22	90	4	70	27	6	6	58	1.50
47608430--47608463	17	2.1	16	88	5	50	23	2	11	61	1.43
47612207--47612314	37	2.9	36	78	16	107	40	2	3	52	1.33
47614416--47614498	26	3.3	26	63	19	66	26	13	27	32	1.93
47614401--47614547	50	2.9	50	84	5	172	26	12	27	33	1.92
47614466--47614547	26	3.2	25	67	16	60	24	10	26	37	1.89
47614554--47614642	45	2.0	45	93	0	151	24	19	24	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47620263--47620304	22	1.9	22	90	0	66	11	14	7	66	1.43
47622601--47622859	50	5.2	50	71	3	252	30	19	23	26	1.98
47622574--47622943	50	7.4	50	71	3	233	30	18	24	26	1.98
47622555--47622917	100	3.6	100	91	0	575	28	19	24	27	1.98
47622937--47623893	132	7.2	132	92	0	1621	29	18	23	27	1.98
47623278--47623729	44	10.3	43	64	8	124	30	18	23	28	1.98
47622937--47623893	394	2.4	395	94	1	1657	29	18	23	27	1.98
47623906--47624011	45	2.4	45	86	10	139	26	18	32	22	1.97
47623980--47624088	44	2.5	44	82	5	132	28	20	21	30	1.98
47634900--47634943	9	4.9	9	88	0	61	31	4	38	25	1.76
47635553--47635609	15	3.7	15	75	13	53	29	3	0	66	1.08
47640286--47640334	18	2.6	19	78	18	57	22	2	2	73	1.04
47640277--47640334	22	2.6	22	78	10	73	22	1	3	72	1.09
47647391--47647463	24	3.0	24	85	0	92	32	20	30	16	1.95
47650266--47650311	22	2.0	22	83	4	56	26	21	4	47	1.69
47652654--47652696	5	8.6	5	100	0	86	20	0	18	60	1.36
47653608--47653662	17	3.2	17	76	0	56	16	3	9	70	1.27
47657972--47658010	19	2.1	19	90	0	60	23	17	25	33	1.96
47658047--47658149	28	3.6	27	74	10	80	31	31	16	21	1.95
47658132--47658167	18	2.0	18	94	0	63	25	33	19	22	1.97
47658400--47658624	111	2.0	112	91	0	362	31	19	14	35	1.92
47658734--47658804	15	4.7	15	89	0	97	26	23	18	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47671932--47672095	80	2.0	81	95	1	294	34	15	10	39	1.82
47672675--47672765	48	1.9	47	93	2	155	39	29	14	16	1.88
47672736--47672775	21	1.9	21	89	0	62	42	27	12	17	1.85
47672933--47672961	7	4.1	7	100	0	58	41	27	0	31	1.56
47693573--47693665	44	2.1	44	86	6	125	31	5	27	35	1.80
47696800--47696829	13	2.3	13	94	0	51	66	16	10	6	1.41
47700998--47701032	3	11.7	3	100	0	70	34	34	0	31	1.58
47706727--47706764	18	2.1	19	90	5	60	34	0	2	63	1.09
47706994--47707180	61	3.0	59	79	11	155	40	14	5	39	1.69
47706994--47707170	60	2.9	62	77	14	154	40	14	5	40	1.68
47708104--47708155	26	2.0	26	100	0	104	30	30	11	26	1.92
47710693--47710751	30	2.0	28	93	6	100	30	1	3	64	1.20
47710693--47710743	16	3.3	16	72	10	61	29	1	3	64	1.22
47722907--47723492	44	13.4	44	73	6	420	29	16	24	29	1.96
47722861--47723474	262	2.3	263	88	1	901	30	15	24	29	1.96
47722861--47723491	132	4.8	132	89	2	901	30	16	23	29	1.96
47723475--47723872	88	4.5	88	92	0	625	27	26	25	21	1.99
47723594--47723726	44	3.0	43	61	4	104	25	27	27	20	1.99
47723614--47723837	44	5.1	44	61	4	119	25	25	25	23	2.00
47731093--47731150	12	4.8	12	89	0	89	25	13	8	51	1.70
47731093--47731186	6	15.7	6	81	0	71	24	8	13	53	1.68
47731620--47731649	15	2.0	15	93	0	51	16	6	36	40	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47733413--47733469	29	2.0	29	89	6	89	26	5	17	50	1.67
47734140--47734191	21	2.5	21	81	6	61	38	38	11	11	1.78
47734910--47734981	31	2.3	31	83	11	85	48	16	9	25	1.76
47735498--47735535	10	3.8	10	86	10	51	57	0	2	39	1.12
47743848--47743887	11	3.8	11	83	9	57	45	5	0	50	1.23
47743871--47743917	8	5.8	8	82	5	58	40	0	0	59	0.97
47743871--47743917	16	2.9	16	90	3	67	40	0	0	59	0.97
47743827--47743947	31	3.5	33	78	18	124	38	2	0	59	1.11
47746322--47746378	29	2.0	29	85	0	78	33	26	14	26	1.94
47749520--47749563	23	1.9	23	90	0	70	52	0	6	40	1.28
47751298--47751363	31	2.1	31	83	10	82	33	10	13	42	1.79
47751980--47752007	3	9.3	3	100	0	56	32	0	0	67	0.91
47755119--47755163	20	2.3	19	84	3	54	44	2	2	51	1.26
47755407--47755442	11	3.4	11	84	7	56	36	0	2	61	1.11
47757085--47757413	108	3.0	111	83	5	441	36	16	15	31	1.90
47757777--47757907	38	3.6	35	69	12	93	49	2	9	38	1.47
47758683--47758736	21	2.6	21	75	16	58	75	1	7	14	1.09
47759480--47759929	44	10.2	44	65	18	186	28	24	17	29	1.97
47759468--47759922	132	3.4	132	92	0	759	28	25	17	28	1.97
47759961--47761529	89	17.6	89	84	2	1452	22	22	25	29	1.99
47762708--47762737	8	3.9	8	91	8	53	0	10	0	90	0.47
47762709--47762737	15	1.9	15	100	0	58	0	10	0	89	0.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47766441--47766774	108	3.0	110	86	5	483	35	17	15	31	1.91
47766833--47766871	21	1.9	20	84	5	51	76	5	10	7	1.13
47767046--47767120	40	1.9	39	81	7	91	53	1	8	37	1.39
47769509--47769800	100	2.9	100	84	3	372	27	24	20	27	1.99
47769519--47769807	50	5.8	50	69	4	161	27	25	20	27	1.99
47771228--47771269	6	6.7	6	86	10	57	0	19	0	80	0.70
47771228--47771270	13	3.3	13	90	0	68	0	18	0	81	0.69
47771234--47771270	7	5.6	7	81	12	51	0	16	0	83	0.64
47779169--47779194	11	2.4	11	100	0	52	34	38	7	19	1.80
47783257--47783345	25	3.1	30	81	15	116	26	24	6	41	1.80

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