genome.fa.s11.2.7.7.80.10.50.1000.126.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: A11
Parameters: 2 7 7 80 10 50 1000
Length:  114316535

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   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   319   320   
          321   322   323   324   325   326   327   328   329   330   331   332   333   334   335   336   
          337   338   339   340   341   342   343   344   345   346   347   348   349   350   351   352   
          353   354   355   356   

This is table  126  of  356  ( 42641 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)
40077234--40077431	81	2.4	81	90	0	306	39	7	23	29	1.81
40094706--40094731	13	2.0	13	100	0	52	61	30	0	7	1.24
40099258--40099296	17	2.3	17	90	0	60	10	17	0	71	1.12
40099992--40100037	23	1.9	25	86	8	69	47	4	8	39	1.54
40100096--40100152	9	6.2	9	72	11	53	28	3	1	66	1.18
40100121--40100153	10	3.3	10	95	0	57	24	3	0	72	0.98
40100066--40100153	20	4.6	19	68	13	65	30	4	1	63	1.21
40100128--40100161	11	3.2	11	91	4	52	29	0	0	70	0.87
40100128--40100173	21	2.2	21	84	3	58	28	2	2	67	1.14
40103168--40103202	16	2.2	16	100	0	70	45	25	5	22	1.74
40107558--40107633	38	2.0	38	97	0	143	32	13	22	31	1.92
40108826--40108970	40	3.6	40	87	0	200	26	24	26	22	2.00
40110843--40110992	50	3.0	49	87	1	203	26	26	20	27	1.99
40114212--40114429	47	4.7	47	79	12	227	26	30	18	24	1.98
40114211--40114522	95	3.3	92	80	8	314	25	30	17	25	1.97
40114210--40114522	142	2.2	139	80	6	337	25	30	18	25	1.98
40117174--40117317	50	2.9	50	92	0	225	27	27	20	25	1.99
40135845--40135891	24	2.0	24	100	0	94	29	12	17	40	1.86
40136615--40136649	13	2.7	13	90	0	52	8	25	40	25	1.84
40140493--40140773	39	7.2	39	88	0	409	24	22	28	23	1.99
40140489--40140773	117	2.4	117	92	0	482	24	22	28	24	1.99
40147338--40147385	24	2.0	24	100	0	96	37	8	20	33	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40147655--40147794	41	3.5	40	86	3	167	33	26	15	24	1.95
40147636--40147794	40	4.0	41	85	2	207	33	27	15	23	1.94
40151353--40151584	48	4.9	47	74	10	175	26	31	18	24	1.97
40156471--40156641	46	3.7	46	77	14	197	27	19	29	23	1.98
40157305--40157388	41	2.0	41	100	0	168	34	14	9	41	1.78
40159432--40159635	80	2.5	80	89	3	295	24	23	26	25	2.00
40159432--40159635	40	5.1	39	84	5	257	24	23	26	25	2.00
40167620--40167835	40	5.5	38	82	11	226	24	23	27	24	2.00
40167620--40167835	80	2.7	79	88	7	291	24	23	27	24	2.00
40182487--40182664	27	6.6	27	82	3	178	29	27	15	27	1.96
40185979--40186038	15	4.0	15	80	0	66	56	11	18	13	1.66
40185980--40186038	30	2.0	30	82	0	73	55	11	18	13	1.68
40190756--40191067	47	6.6	47	91	2	464	32	8	29	29	1.87
40190756--40191067	96	3.3	94	88	5	439	32	8	29	29	1.87
40194230--40194468	101	2.4	100	81	3	273	30	27	16	25	1.97
40194230--40194472	50	4.8	50	82	3	263	29	26	17	26	1.97
40208770--40208921	40	3.8	41	87	3	193	24	20	28	26	1.99
40208770--40208941	80	2.2	80	81	3	195	23	19	27	28	1.99
40214083--40214161	37	2.1	37	90	0	122	25	31	18	24	1.98
40214280--40214705	47	8.9	47	94	1	708	29	30	8	31	1.87
40214594--40214669	22	3.3	22	64	10	62	28	28	11	30	1.92
40226644--40226736	41	2.3	40	87	3	134	36	12	3	47	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40231247--40231282	18	2.0	18	100	0	72	22	5	22	50	1.70
40233645--40233899	39	6.5	39	86	0	348	20	31	17	30	1.96
40233645--40233899	117	2.2	117	89	0	393	20	31	17	30	1.96
40238994--40239226	39	6.0	39	87	1	299	19	21	28	30	1.97
40243566--40243603	20	1.9	20	88	0	58	36	31	13	18	1.89
40257681--40257736	21	2.6	22	85	2	78	19	37	28	14	1.91
40261838--40261955	45	2.7	46	80	11	156	27	18	27	27	1.98
40263026--40263088	27	2.3	27	80	0	72	36	23	7	31	1.84
40263043--40263314	27	10.1	27	86	4	361	26	23	9	40	1.86
40263043--40263314	54	5.0	54	89	0	402	26	23	9	40	1.86
40263048--40263345	81	3.7	81	83	3	357	28	22	9	39	1.86
40263348--40263424	27	2.9	27	84	0	100	40	22	10	27	1.86
40263406--40263582	27	6.6	27	88	0	246	35	20	20	23	1.96
40263800--40263882	27	3.1	26	87	5	103	20	22	20	36	1.95
40264185--40264266	27	3.1	27	85	5	96	15	23	24	36	1.94
40264384--40264533	6	24.8	6	72	16	114	22	16	11	49	1.78
40264387--40264527	30	4.9	30	79	11	159	22	17	11	48	1.78
40265269--40265504	38	6.2	38	85	2	296	21	20	25	32	1.98
40265269--40265504	76	3.1	76	88	1	330	21	20	25	32	1.98
40265497--40265619	45	2.7	45	91	2	194	21	22	29	26	1.99
40284441--40284509	30	2.3	30	94	0	120	20	28	23	27	1.99
40287319--40287463	40	3.6	39	80	9	150	24	22	27	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40287319--40287486	40	4.3	38	78	8	124	26	21	26	25	1.99
40289798--40289837	20	2.0	20	100	0	80	30	15	10	45	1.78
40290688--40290734	23	2.0	23	84	8	60	31	10	8	48	1.68
40293449--40293490	15	2.9	14	86	6	57	2	28	0	69	1.01
40294667--40294753	41	2.1	41	97	0	165	35	19	9	35	1.84
40294905--40295034	41	3.1	41	71	18	142	16	26	9	47	1.76
40294881--40295052	83	2.1	83	94	0	299	14	26	11	47	1.77
40294893--40295022	42	3.1	42	66	25	112	13	28	10	47	1.75
40300079--40300190	55	2.0	55	98	0	215	35	10	11	41	1.76
40300088--40300172	26	3.2	26	63	21	66	34	11	11	42	1.78
40307446--40307484	20	1.9	21	85	15	55	43	2	2	51	1.29
40312502--40312564	20	3.3	20	81	14	80	41	23	4	30	1.75
40312747--40312799	24	2.3	23	83	9	72	33	20	26	18	1.96
40322985--40323015	14	2.3	13	94	5	53	61	6	9	22	1.50
40327772--40327802	15	2.1	15	100	0	62	38	6	25	29	1.81
40329480--40329528	19	2.5	20	83	3	64	36	24	6	32	1.80
40329706--40329800	24	3.9	24	79	6	86	34	18	21	25	1.96
40331627--40331741	60	1.9	60	80	3	133	35	3	10	50	1.54
40331728--40331766	14	2.8	14	96	0	69	51	7	23	17	1.71
40333820--40333995	40	4.4	40	84	4	230	27	28	22	21	1.99
40333820--40333995	80	2.2	80	88	0	262	27	28	22	21	1.99
40341953--40342166	40	5.4	40	85	7	242	27	28	21	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40341992--40342166	80	2.2	79	91	1	278	26	29	22	21	1.99
40355929--40355970	21	2.0	21	85	0	57	21	16	42	19	1.89
40368025--40368050	11	2.4	11	100	0	52	80	0	0	19	0.71
40369313--40370514	605	2.0	605	90	0	1906	29	20	17	31	1.96
40374396--40374565	56	3.1	55	85	7	254	27	6	17	48	1.71
40375635--40375815	100	1.8	100	85	3	256	27	13	27	32	1.94
40375639--40375827	50	3.8	50	79	4	202	26	13	27	32	1.94
40376027--40376056	16	1.9	15	93	6	51	43	0	23	33	1.54
40379965--40380466	126	4.0	125	84	3	620	28	18	15	38	1.91
40380518--40380636	30	3.6	34	74	12	115	43	15	0	40	1.47
40380527--40380654	64	2.1	60	85	5	166	41	17	0	41	1.49
40383260--40383476	46	4.7	47	76	12	191	30	19	27	22	1.98
40392156--40392215	30	2.0	30	96	0	111	28	21	30	20	1.98
40392186--40392351	46	3.5	46	80	9	151	30	19	28	22	1.98
40392186--40392394	47	4.5	48	77	11	159	30	18	28	22	1.97
40400001--40400041	16	2.5	17	80	15	50	60	2	31	4	1.30
40404440--40404604	39	4.2	39	94	0	276	21	20	29	27	1.98
40404440--40404642	39	5.2	39	89	1	248	21	21	29	27	1.99
40404440--40404674	117	2.0	117	79	6	253	21	20	28	28	1.98
40408555--40408627	34	2.2	33	85	2	101	24	19	26	30	1.98
40419539--40419627	21	4.4	20	68	16	58	41	6	28	23	1.79
40419557--40419622	18	3.5	18	67	18	53	43	4	28	22	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40419563--40419643	39	2.1	39	97	0	153	46	4	24	23	1.72
40419581--40419645	21	3.2	21	68	12	64	52	4	21	21	1.65
40419574--40419659	39	2.2	39	82	0	100	55	3	24	16	1.56
40425226--40425336	36	3.1	36	84	6	136	17	16	29	36	1.91
40428378--40428593	46	4.6	46	76	9	197	22	31	17	28	1.96
40428927--40428992	30	2.3	30	84	5	82	31	21	15	31	1.94
40432090--40432162	27	2.7	27	85	2	94	31	21	6	39	1.80
40432156--40432336	54	3.4	54	81	4	206	39	21	11	28	1.87
40432184--40432333	81	1.9	81	87	2	221	39	21	10	28	1.87
40432156--40432350	27	7.2	27	84	5	182	40	20	10	28	1.86

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   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   319   320   
          321   322   323   324   325   326   327   328   329   330   331   332   333   334   335   336   
          337   338   339   340   341   342   343   344   345   346   347   348   349   350   351   352   
          353   354   355   356