genome.fa.s11.2.7.7.80.10.50.1000.127.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  127  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)
40432184--40432447	27	9.7	27	81	3	199	38	19	10	31	1.86
40433353--40433422	25	2.8	24	91	4	104	24	27	22	25	2.00
40433352--40433435	25	3.4	24	83	8	98	27	23	22	26	2.00
40446518--40446715	27	7.3	27	80	7	188	26	23	8	41	1.82
40446519--40446677	79	2.0	81	88	2	241	27	22	8	42	1.81
40446717--40446898	54	3.4	54	82	3	172	42	19	7	30	1.79
40446747--40446896	27	5.6	27	83	6	180	43	22	6	28	1.76
40446714--40446895	81	2.3	80	80	6	181	42	19	8	30	1.80
40446747--40446974	54	4.2	54	77	6	201	41	19	7	31	1.80
40446747--40446924	81	2.2	82	79	9	186	43	20	6	30	1.76
40446904--40446959	27	2.1	26	83	9	69	39	14	10	35	1.81
40446747--40446953	109	1.9	107	83	6	265	42	20	6	30	1.78
40447956--40448034	20	4.0	20	73	6	70	32	21	25	20	1.97
40447990--40448051	20	3.1	20	72	9	63	33	14	29	22	1.94
40447972--40448154	40	4.6	40	78	5	172	32	18	27	22	1.97
40452923--40453012	45	2.0	45	95	0	162	35	7	21	35	1.82
40458174--40458309	39	3.5	39	91	7	213	25	19	27	27	1.98
40458179--40458342	39	4.2	39	83	9	201	25	19	27	27	1.99
40466025--40466210	40	4.7	40	88	5	252	24	22	27	26	2.00
40466078--40466243	80	2.1	79	86	5	228	25	20	27	26	1.99
40469172--40469349	40	4.5	40	92	3	272	23	20	27	28	1.99
40470581--40470870	50	5.8	49	75	6	188	32	24	16	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40475262--40475330	26	2.7	26	88	4	95	27	26	20	26	1.99
40481702--40481748	23	2.1	23	92	4	78	68	0	21	10	1.20
40482204--40482335	40	3.3	40	91	1	203	50	6	23	19	1.69
40482308--40482376	23	3.0	23	80	6	86	50	7	20	21	1.72
40498254--40498297	22	2.0	22	82	8	54	40	2	0	56	1.11
40498275--40498337	25	2.5	24	78	14	74	49	0	1	49	1.10
40498275--40498363	26	3.5	25	78	6	81	50	1	2	46	1.21
40500673--40500742	34	2.1	34	100	0	140	30	18	14	37	1.90
40502572--40502720	42	3.5	42	79	4	129	28	26	17	27	1.98
40502602--40502720	42	2.8	41	82	6	130	29	28	17	24	1.97
40508087--40508290	49	4.3	48	75	10	197	24	30	19	26	1.98
40508087--40508290	46	4.3	46	77	11	189	24	30	19	26	1.98
40508394--40508571	46	3.8	47	74	14	172	21	29	20	28	1.98
40514453--40514718	49	5.6	49	78	10	234	22	27	20	28	1.99
40514609--40514720	46	2.4	46	80	7	136	21	27	22	28	1.99
40522215--40522380	48	3.6	46	70	15	130	25	20	24	29	1.99
40522290--40522393	48	2.2	48	92	0	172	25	20	25	28	1.99
40522215--40522387	90	1.9	90	84	2	231	25	20	24	29	1.99
40534470--40534517	2	25.0	2	91	8	82	50	50	0	0	1.00
40557572--40557615	19	2.2	20	84	12	54	29	4	15	50	1.64
40557918--40558015	20	4.9	20	72	12	85	35	16	30	17	1.92
40557918--40558048	40	3.3	40	80	10	160	35	16	30	16	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40566164--40566312	27	5.4	27	92	3	226	28	12	28	30	1.93
40566164--40566312	55	2.7	55	92	0	235	28	12	28	30	1.93
40570949--40571021	36	2.0	36	97	0	137	34	10	15	39	1.82
40574118--40574147	15	2.0	15	100	0	60	33	6	33	26	1.83
40583479--40583594	43	2.8	41	75	12	101	24	18	27	30	1.98
40591442--40591729	47	6.1	47	90	0	432	32	11	29	26	1.91
40591471--40591542	22	3.1	22	64	24	58	33	13	29	23	1.93
40591700--40591897	98	2.0	96	88	3	290	35	7	27	29	1.84
40591699--40591883	48	3.8	48	87	5	282	36	7	26	30	1.83
40591477--40591883	47	8.5	49	80	13	262	34	10	28	27	1.90
40592029--40592137	37	2.9	37	94	0	182	23	19	31	25	1.98
40594230--40594423	78	2.5	79	82	3	230	28	25	22	22	1.99
40594218--40594441	39	5.7	40	82	4	197	29	25	23	22	1.99
40599124--40599278	85	1.8	84	86	4	222	29	25	15	29	1.96
40599124--40599278	42	3.7	42	86	1	220	29	25	15	29	1.96
40604120--40604231	47	2.4	47	80	4	127	48	19	10	21	1.79
40613878--40613907	15	2.0	15	93	0	51	66	10	6	16	1.41
40619103--40619143	17	2.4	17	95	0	73	48	2	19	29	1.61
40630885--40631196	46	6.6	46	75	12	190	27	18	28	24	1.98
40631060--40631194	49	2.7	51	82	7	161	26	17	28	27	1.97
40635467--40635630	40	4.1	40	90	3	233	21	25	29	24	1.99
40643462--40643676	40	5.4	40	87	2	265	24	22	27	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40646522--40646562	21	2.0	21	95	0	73	9	36	29	24	1.87
40647884--40648022	51	2.8	48	82	5	172	28	20	24	26	1.99
40658399--40658528	46	2.8	49	80	12	164	29	26	20	23	1.99
40658401--40658544	46	3.1	45	73	18	136	29	27	20	22	1.98
40663963--40664165	40	5.1	40	90	2	284	22	23	28	25	1.99
40673845--40673892	24	2.0	24	95	0	87	41	16	10	31	1.82
40681021--40681085	24	2.7	24	76	9	69	61	3	7	27	1.38
40681335--40681374	20	2.0	20	90	0	62	37	2	12	47	1.55
40686430--40686595	82	2.0	83	90	1	262	43	22	17	16	1.88
40686743--40686772	7	4.3	7	100	0	60	43	0	0	56	0.99
40700447--40700503	17	3.2	17	66	9	51	45	1	21	31	1.62
40700575--40700605	15	2.1	15	100	0	62	32	6	19	41	1.77
40707220--40707252	16	2.0	17	88	5	50	51	0	12	36	1.39
40710009--40710055	3	15.7	3	100	0	94	68	31	0	0	0.90
40710076--40710179	34	3.1	34	66	18	101	61	5	3	28	1.37
40710060--40710201	65	2.2	63	93	3	248	62	4	3	28	1.32
40710068--40710169	31	3.2	31	66	17	91	59	5	3	30	1.39
40710289--40710338	12	4.2	12	84	5	66	64	0	2	34	1.05
40710289--40710338	24	2.1	24	88	7	75	64	0	2	34	1.05
40716222--40716286	31	2.1	30	83	8	78	35	9	13	41	1.77
40716222--40716286	30	2.1	31	83	8	80	35	9	13	41	1.77
40716403--40716474	31	2.3	31	90	4	110	37	13	9	38	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40716949--40717193	128	1.9	126	88	1	364	30	11	25	32	1.91
40724315--40724381	12	5.5	12	76	3	71	59	16	5	17	1.56
40724315--40724390	25	3.1	25	80	3	100	59	14	6	19	1.57
40724567--40724592	7	3.7	7	100	0	52	61	0	26	11	1.30
40730220--40730522	40	7.6	40	90	1	423	23	19	29	28	1.98
40737927--40738229	40	7.6	40	91	1	432	23	19	29	28	1.98
40742309--40742795	47	10.1	47	85	7	636	28	29	9	32	1.88
40742424--40742449	13	2.0	13	100	0	52	38	38	0	23	1.55
40742380--40742496	60	2.0	60	98	0	225	31	29	6	31	1.84
40756755--40756838	44	1.9	44	95	0	150	34	23	13	28	1.92
40761391--40761514	29	4.3	29	89	4	189	34	12	29	24	1.91
40761391--40761514	59	2.2	56	89	4	185	34	12	29	24	1.91
40761519--40761638	33	3.7	33	81	2	152	33	12	20	33	1.90
40761519--40761645	65	1.9	66	90	3	202	34	11	20	33	1.89
40770826--40770883	20	2.9	19	85	10	71	62	0	12	25	1.30
40774287--40774464	27	6.6	27	84	3	205	29	28	15	26	1.96
40774308--40774463	82	1.9	81	88	3	233	29	28	15	26	1.96
40776674--40776752	41	1.9	40	82	5	95	20	39	21	18	1.93
40777690--40777962	47	5.8	47	80	12	237	23	27	18	30	1.98
40783358--40783621	40	6.7	40	88	5	342	25	26	21	25	2.00
40791316--40791619	40	7.7	40	87	4	386	26	26	20	26	1.99
40796462--40796716	46	5.5	46	76	8	223	23	29	19	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40796450--40796716	94	2.9	94	81	9	289	23	29	18	28	1.98
40800586--40800621	17	2.1	17	100	0	72	47	5	11	36	1.63
40809300--40809506	53	3.8	53	74	6	193	37	17	24	20	1.94
40829960--40830037	24	3.2	24	74	13	61	19	29	16	34	1.94
40830202--40830271	25	2.8	25	77	2	68	27	22	15	34	1.95
40850684--40850855	40	4.3	40	94	2	285	27	27	19	25	1.99
40858591--40858815	40	5.7	40	90	5	307	26	26	21	25	1.99
40859894--40859918	13	1.9	13	100	0	50	0	8	4	88	0.64
40860422--40860501	15	5.4	15	75	12	76	58	12	18	10	1.61
40860433--40860510	15	5.2	15	72	14	63	56	14	17	11	1.67

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