genome.fa.s5.2.7.7.80.10.50.1000.94.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: A05
Parameters: 2 7 7 80 10 50 1000
Length:  100714657

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   

This is table  94  of  318  ( 38109 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)
31253704--31253815	27	4.2	26	79	7	116	16	22	22	38	1.93
31262486--31262906	218	1.9	218	92	0	698	26	14	19	38	1.91
31268924--31268960	18	2.1	18	100	0	74	16	27	21	35	1.94
31270606--31270674	21	3.4	21	69	15	63	33	8	18	39	1.82
31270566--31270674	40	2.7	39	79	12	114	33	7	18	40	1.78
31270865--31270992	45	2.6	50	78	16	160	21	17	18	42	1.90
31270890--31270992	45	2.3	45	91	0	170	21	17	18	42	1.89
31273453--31273526	34	2.2	34	90	0	112	31	21	20	27	1.98
31277046--31277078	18	1.9	17	88	11	50	30	15	12	42	1.83
31277701--31277837	60	2.3	60	86	8	181	26	24	20	28	1.99
31277700--31277801	28	3.5	27	74	19	89	25	27	20	26	1.99
31279276--31279340	14	5.0	12	80	14	60	76	1	18	3	0.99
31280503--31280541	3	13.0	3	94	0	69	64	0	2	33	1.08
31282085--31282134	25	2.0	25	88	0	73	36	28	2	34	1.69
31283805--31283864	30	2.0	30	87	6	86	36	8	26	28	1.85
31284286--31284462	47	3.8	47	75	13	177	22	20	27	30	1.98
31285317--31285438	61	2.0	61	100	0	244	37	9	11	40	1.75
31299864--31299936	21	3.5	20	74	18	51	57	2	1	38	1.22
31299864--31299925	22	2.8	22	78	7	63	56	3	1	38	1.25
31300254--31300311	19	2.8	21	84	7	66	22	3	1	72	1.09
31300695--31300740	23	2.0	24	83	12	60	36	2	8	52	1.45
31302877--31302919	6	7.3	6	89	5	70	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31310309--31310350	17	2.5	17	81	11	50	47	2	0	50	1.14
31312902--31312970	32	2.2	31	82	10	79	49	10	0	40	1.37
31316280--31316348	33	2.1	33	88	0	102	18	17	34	28	1.94
31317383--31317428	23	2.0	23	84	12	60	45	10	6	36	1.65
31317390--31317434	23	2.0	23	82	8	56	40	13	8	37	1.76
31320743--31320827	42	2.0	42	100	0	170	49	4	12	32	1.62
31320873--31320909	2	18.5	2	94	0	65	54	0	45	0	1.00
31321191--31321286	47	2.0	47	93	0	165	30	19	22	27	1.98
31323802--31323925	39	3.2	39	87	0	167	22	20	28	29	1.98
31325809--31325869	28	2.2	28	100	0	122	54	9	6	29	1.59
31332963--31333007	22	2.0	22	82	4	54	48	4	0	46	1.22
31333192--31333232	21	2.0	21	85	0	55	39	9	4	46	1.58
31333243--31333289	15	3.1	16	81	9	62	27	2	2	68	1.13
31356939--31356978	21	1.9	21	85	10	55	47	0	2	50	1.14
31357569--31357624	25	2.3	25	78	9	62	37	3	7	51	1.47
31359005--31359038	11	3.1	11	86	0	50	14	8	11	64	1.49
31365431--31365459	2	14.5	2	100	0	58	51	0	0	48	1.00
31367256--31367302	24	2.0	24	91	0	76	36	2	38	23	1.67
31368723--31368835	27	4.2	26	77	8	109	16	24	22	36	1.94
31368723--31368835	55	2.1	54	83	5	138	16	24	22	36	1.94
31372140--31372289	40	3.7	40	83	6	169	29	17	24	29	1.97
31374021--31374075	19	2.8	20	78	15	62	40	10	12	36	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31389559--31389611	26	2.0	26	100	0	106	18	18	11	50	1.76
31392589--31392760	46	3.7	46	80	6	172	23	30	19	26	1.98
31396864--31396901	19	2.0	19	94	0	67	39	15	15	28	1.89
31405643--31405708	28	2.6	24	81	13	71	9	18	0	72	1.10
31410658--31410777	60	2.0	62	85	6	165	25	20	26	27	1.99
31411027--31411051	10	2.5	10	100	0	50	28	0	0	72	0.86
31412811--31412883	8	8.6	8	72	24	53	41	1	1	56	1.16
31420753--31420818	25	2.6	24	79	9	60	57	1	7	33	1.36
31420752--31420818	26	2.6	26	81	9	66	56	1	7	34	1.36
31426114--31426153	19	2.0	20	90	4	64	37	7	17	37	1.78
31432858--31432900	16	2.8	16	83	13	54	46	0	51	2	1.13
31434329--31434372	21	2.1	21	83	4	54	43	2	0	54	1.12
31438574--31438641	31	2.2	32	89	2	102	50	8	16	25	1.73
31445399--31445445	3	15.7	3	100	0	94	34	31	0	34	1.58
31445580--31445612	8	4.2	8	92	3	50	18	0	0	81	0.68
31445566--31445612	16	2.9	16	78	9	51	19	0	2	78	0.85
31454341--31454594	47	5.3	47	91	2	366	28	29	8	33	1.87
31454341--31455197	49	17.2	49	84	10	1041	28	28	8	33	1.87
31454577--31454618	22	1.9	22	100	0	84	35	19	9	35	1.84
31454528--31454667	71	2.0	71	98	0	271	30	25	8	35	1.86
31454791--31454881	27	3.3	27	66	19	78	31	28	4	35	1.77
31455118--31455275	78	2.0	78	97	0	298	27	29	10	32	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31455167--31455226	29	2.1	29	100	0	120	25	30	13	31	1.93
31455071--31455322	125	2.0	124	93	3	425	27	29	9	32	1.89
31454844--31455371	174	2.9	174	86	9	727	28	29	8	33	1.87
31455196--31455388	49	4.0	49	95	2	345	29	27	8	34	1.86
31455196--31455388	96	2.0	97	94	2	343	29	27	8	34	1.86
31460552--31460654	50	2.1	50	88	0	152	30	15	19	34	1.93
31460620--31461217	44	13.1	44	69	13	278	33	16	19	29	1.95
31460568--31460796	94	2.4	94	85	0	314	29	17	20	31	1.96
31460551--31461015	44	9.9	50	73	11	249	30	17	20	30	1.96
31460620--31460908	138	2.1	138	84	2	375	30	20	19	30	1.97
31460756--31461008	93	2.7	94	85	3	323	32	18	18	29	1.95
31460881--31461109	94	2.4	93	82	5	246	35	15	19	30	1.92
31471599--31471830	43	5.4	43	94	1	378	12	24	34	29	1.92
31475541--31475629	39	2.3	39	94	2	151	37	20	5	37	1.76
31476941--31477000	31	1.9	31	83	6	77	48	5	6	40	1.51
31479415--31479443	11	2.7	11	94	5	51	44	0	0	55	0.99
31485704--31485732	14	2.1	14	93	6	51	0	20	0	79	0.74
31485776--31485851	25	3.0	25	73	17	68	40	3	1	53	1.27
31486896--31486927	3	10.7	3	93	0	55	3	34	0	62	1.11
31488671--31488742	3	25.0	3	73	10	53	29	4	2	63	1.27
31488841--31488901	24	2.6	24	73	2	61	37	9	4	47	1.58
31489302--31489353	23	2.2	24	83	6	63	34	7	3	53	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31489312--31489404	36	2.6	36	77	8	100	33	6	4	55	1.45
31489813--31489868	21	2.9	20	82	10	55	37	3	7	51	1.47
31489860--31489914	28	2.0	28	82	7	67	34	0	7	58	1.26
31489863--31489979	13	9.2	13	71	20	70	35	1	6	56	1.36
31493771--31493827	4	15.0	4	78	10	66	28	22	0	49	1.50
31493771--31493826	11	5.0	11	82	4	76	28	23	0	48	1.51
31493772--31493827	15	3.7	16	81	11	55	28	21	0	50	1.49
31502129--31502430	75	4.0	75	87	5	360	30	15	20	33	1.94
31504340--31504414	3	24.0	3	71	12	53	32	5	2	60	1.33
31504959--31505028	23	2.7	27	76	19	85	35	5	2	55	1.38
31504945--31505025	23	3.4	24	79	14	80	37	6	3	53	1.44
31504982--31505074	36	2.6	36	81	8	109	34	6	3	55	1.41
31505485--31505547	23	3.2	20	79	18	62	34	3	7	53	1.46
31507568--31507609	20	2.1	19	86	8	57	42	9	0	47	1.36
31510648--31510681	3	11.3	3	100	0	68	32	0	0	67	0.91
31513757--31513797	15	2.7	15	92	3	64	34	7	0	58	1.26
31513821--31513869	17	3.0	16	82	11	64	32	0	10	57	1.32
31513828--31513867	15	2.6	15	84	4	53	32	0	7	60	1.25
31513913--31513989	24	3.2	24	72	15	70	37	7	2	51	1.45
31521451--31521511	30	2.0	30	81	9	70	59	6	34	0	1.24
31527396--31527572	46	3.9	44	77	11	185	22	19	28	29	1.98
31527393--31527564	93	1.8	93	91	0	281	21	20	29	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31534242--31534812	251	2.3	249	89	5	853	29	15	19	35	1.93
31534680--31534879	73	2.7	73	85	3	240	26	16	22	34	1.95
31534429--31535064	322	2.0	324	91	2	1028	28	16	19	34	1.94
31534820--31535031	84	2.5	84	84	9	252	32	17	18	31	1.94
31534820--31535057	89	2.7	86	80	12	249	31	18	18	31	1.95
31536901--31536931	15	2.1	15	93	0	53	35	3	0	61	1.12
31536954--31536996	15	2.9	15	82	6	52	32	0	9	58	1.30
31537370--31537404	2	17.5	2	87	0	52	48	0	5	45	1.26
31553569--31553630	29	2.1	28	82	8	70	46	4	1	46	1.33
31555854--31555889	4	9.0	4	87	0	54	22	2	27	47	1.65

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