genome.fa.s9.2.7.7.80.10.50.1000.117.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: A09
Parameters: 2 7 7 80 10 50 1000
Length:  81831061

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   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   

This is table  117  of  259  ( 31025 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)
38179482--38179552	37	1.9	37	86	11	101	5	18	0	76	0.98
38180489--38180526	12	3.2	13	85	14	55	13	5	7	73	1.22
38182251--38182338	30	2.9	30	74	0	104	28	15	27	28	1.96
38184546--38184604	27	2.5	22	75	21	57	5	18	0	76	0.97
38184559--38184608	6	8.2	6	81	16	50	4	20	0	76	0.95
38184548--38184618	37	1.9	37	86	11	101	5	18	0	76	0.98
38187320--38187407	30	2.9	30	77	0	113	29	15	26	28	1.96
38189457--38189500	12	3.7	12	84	6	54	79	2	2	15	0.93
38189547--38189609	26	2.3	27	86	5	83	76	3	9	11	1.13
38189546--38189613	27	2.4	29	79	16	81	76	2	10	10	1.12
38191458--38191494	15	2.5	15	100	0	74	18	16	18	45	1.85
38197669--38197715	20	2.3	20	81	0	58	21	14	34	29	1.93
38200887--38200992	48	2.2	48	85	9	137	14	24	1	59	1.45
38203616--38203662	20	2.3	20	85	0	67	21	12	36	29	1.91
38206644--38206701	20	2.9	19	76	19	55	43	15	17	24	1.87
38208485--38208547	33	1.9	33	84	12	85	12	25	6	55	1.60
38208545--38208600	21	2.7	21	72	5	51	8	17	1	71	1.21
38208544--38208600	14	4.2	13	75	16	53	8	17	1	71	1.19
38208607--38208682	18	4.1	18	73	11	64	6	15	3	73	1.19
38208562--38208669	6	17.7	6	71	9	76	6	17	2	73	1.17
38209727--38209781	19	2.8	20	77	2	58	9	9	3	78	1.08
38210254--38210359	48	2.2	48	85	9	137	14	24	1	59	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38212987--38213035	20	2.5	20	79	0	62	26	12	32	28	1.92
38216184--38216246	21	3.0	21	88	2	81	33	31	4	30	1.78
38217600--38217666	27	2.5	28	75	4	75	5	22	2	68	1.25
38223345--38223391	20	2.3	20	85	0	67	21	12	36	29	1.91
38225063--38225103	21	2.0	21	85	9	57	73	0	21	4	1.02
38225162--38225191	9	3.3	9	90	0	51	73	0	23	3	0.98
38229910--38229961	23	2.3	22	75	21	54	9	23	1	65	1.32
38234220--38234258	18	2.1	19	85	4	53	7	23	2	66	1.30
38234222--38234325	48	2.2	49	79	8	115	12	27	0	58	1.40
38234276--38234325	18	2.8	18	87	0	73	14	28	0	58	1.37
38234251--38234332	24	3.4	24	77	0	101	12	26	0	60	1.31
38234336--38234403	21	3.2	20	67	29	52	11	20	7	60	1.55
38234329--38234425	42	2.3	42	89	1	142	14	22	5	57	1.57
38237753--38237817	14	4.6	14	80	14	64	73	4	7	13	1.21
38237749--38237816	15	4.9	15	81	12	74	69	5	8	16	1.34
38237749--38237819	13	5.1	15	77	16	64	67	5	8	18	1.37
38237781--38237822	14	3.1	14	89	3	68	71	7	7	14	1.29
38240070--38240123	23	2.2	25	78	15	60	62	3	22	11	1.43
38248369--38248415	20	2.3	20	77	0	58	23	21	19	36	1.95
38250513--38250551	17	2.2	18	90	4	62	38	5	12	43	1.65
38255694--38255926	50	4.7	51	79	7	200	24	29	18	27	1.98
38259268--38259318	20	2.5	20	82	17	61	29	25	11	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38259268--38259314	10	4.6	10	77	15	51	29	27	12	29	1.93
38259995--38260041	20	2.3	20	81	0	58	29	34	12	23	1.92
38262659--38262762	47	2.2	46	85	10	131	58	1	25	14	1.46
38265112--38265208	30	3.2	30	75	2	106	28	15	26	28	1.96
38267369--38267399	12	2.6	12	94	0	53	25	12	12	48	1.77
38267460--38267509	6	8.2	6	81	16	50	2	20	2	76	0.99
38267449--38267519	37	1.9	37	86	11	101	2	18	2	76	1.04
38267445--38267505	16	3.8	16	77	14	63	3	19	1	75	1.03
38268437--38268487	11	4.6	11	81	16	52	7	9	5	76	1.15
38268436--38268488	10	5.0	10	77	11	52	9	11	5	73	1.24
38268460--38268495	10	3.2	12	85	14	51	13	5	8	72	1.27
38268576--38268604	10	2.7	11	94	5	51	6	3	6	82	0.93
38272839--38272885	20	2.3	20	85	0	67	29	36	12	21	1.91
38275467--38275498	13	2.5	13	100	0	64	81	0	6	12	0.87
38276554--38276595	18	2.3	18	87	0	57	71	4	16	7	1.26
38282028--38282071	18	2.4	18	80	0	61	70	0	18	11	1.16
38282086--38282148	33	1.9	33	84	12	85	55	6	25	12	1.60
38283570--38283623	20	2.7	20	82	0	63	24	20	18	37	1.94
38283570--38283643	30	2.5	30	86	8	98	21	20	18	39	1.93
38283570--38283634	20	3.2	20	71	16	53	23	21	16	38	1.93
38285529--38285567	20	1.9	21	85	15	55	33	23	12	30	1.92
38286922--38286980	13	4.5	13	75	21	52	72	3	8	15	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38288038--38288136	12	8.6	12	65	20	50	65	1	20	13	1.32
38288091--38288139	17	2.7	18	81	9	64	67	0	18	14	1.23
38288071--38288137	29	2.4	27	85	9	91	70	0	17	11	1.17
38288154--38288216	33	1.9	33	87	12	94	57	6	23	12	1.58
38288813--38288883	29	2.4	29	79	4	81	28	15	30	25	1.96
38292814--38292854	14	2.9	14	88	0	55	51	7	31	9	1.62
38294672--38294701	8	3.8	8	90	0	51	60	23	13	3	1.48
38296142--38296207	33	2.0	33	82	8	80	33	16	22	27	1.96
38297226--38297255	10	2.9	10	95	5	51	80	6	3	10	1.01
38297340--38297365	11	2.4	11	100	0	52	76	7	0	15	0.99
38300526--38300591	33	2.0	33	82	8	80	33	13	22	30	1.93
38302987--38303018	11	2.6	13	90	9	50	75	3	6	15	1.14
38304815--38304880	33	2.0	33	82	8	80	33	13	22	30	1.93
38308055--38308088	15	2.3	15	89	0	50	35	29	32	2	1.73
38312452--38312608	30	5.2	30	77	1	163	28	26	15	29	1.96
38312464--38312608	60	2.4	60	98	0	281	28	26	15	28	1.96
38315337--38315390	20	2.7	20	88	0	81	24	29	16	29	1.97
38315678--38315896	45	4.9	45	94	0	366	39	15	19	25	1.91
38319510--38319681	93	1.8	93	91	2	283	27	30	20	20	1.98
38319502--38319677	46	3.8	46	79	5	203	28	29	20	21	1.98
38322059--38322138	15	5.4	15	76	7	74	57	12	20	10	1.63
38322070--38322147	15	5.2	15	72	9	61	55	14	19	11	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38324593--38324617	13	1.9	13	100	0	50	36	16	32	16	1.90
38325123--38325160	10	3.8	10	83	13	51	21	18	31	28	1.97
38325100--38325160	20	3.0	20	83	9	63	27	14	27	29	1.95
38325124--38325161	20	1.9	20	94	0	67	18	18	34	28	1.95
38327946--38327985	13	2.8	15	85	14	66	15	7	0	77	0.98
38327951--38327999	13	3.7	13	89	10	73	12	8	2	77	1.07
38328957--38328981	13	1.9	13	100	0	50	36	16	32	16	1.90
38329487--38329524	10	3.8	10	83	13	51	21	18	31	28	1.97
38329464--38329524	20	3.0	20	83	9	63	27	14	27	29	1.95
38329488--38329525	20	1.9	20	94	0	67	18	18	34	28	1.95
38329834--38329880	20	2.3	20	81	0	58	29	34	12	23	1.92
38331580--38331607	14	2.0	14	100	0	56	71	0	0	28	0.86
38331673--38331714	18	2.5	17	92	7	68	78	4	7	9	1.08
38331667--38331714	18	2.6	18	86	6	60	79	4	6	10	1.05
38331729--38331768	18	2.3	18	86	4	55	72	10	12	5	1.26
38332711--38332742	15	2.1	16	94	5	57	71	0	21	6	1.07
38332825--38332858	18	1.9	18	88	5	52	52	2	35	8	1.47
38334124--38334177	20	2.7	20	82	0	63	24	20	18	37	1.94
38334124--38334197	30	2.5	30	86	8	98	21	20	18	39	1.93
38334124--38334188	20	3.2	20	71	16	53	23	21	16	38	1.93
38337264--38337369	48	2.2	47	83	9	126	58	1	24	15	1.47
38340660--38340706	20	2.3	20	81	0	58	29	34	12	23	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38343348--38343519	93	1.8	93	87	2	256	29	29	19	22	1.98
38343340--38343515	46	3.8	46	72	7	158	30	28	18	22	1.97
38350892--38350916	13	1.9	13	100	0	50	16	32	16	36	1.90
38352200--38352263	30	2.2	29	97	2	119	25	17	23	34	1.96
38353714--38353960	27	9.1	27	82	4	121	28	12	20	38	1.90
38353714--38353860	54	2.7	54	81	4	136	29	13	19	37	1.90
38353754--38353961	81	2.6	79	81	7	238	29	11	20	38	1.88
38353764--38353960	54	3.7	53	83	6	236	29	11	20	38	1.88
38356749--38356833	30	2.8	30	76	0	107	28	27	17	27	1.98
38358228--38358290	21	3.0	21	88	2	90	30	3	33	33	1.74

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   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259