genome.fa.s1.2.7.7.80.10.50.1000.156.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: A01
Parameters: 2 7 7 80 10 50 1000
Length:  104050246

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   

This is table  156  of  316  ( 37835 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)
49465369--49465530	29	5.5	29	73	7	157	36	12	27	22	1.91
49465369--49465602	88	2.7	88	87	1	308	37	13	26	23	1.92
49465357--49465530	59	2.9	58	77	9	199	36	14	27	22	1.93
49468068--49468243	46	3.8	46	80	10	205	20	21	29	28	1.98
49468064--49468236	93	1.9	93	93	0	301	20	21	30	27	1.98
49471194--49471249	15	3.7	15	88	7	87	12	16	10	60	1.58
49473644--49473818	46	3.8	45	78	10	183	21	20	28	30	1.98
49473640--49473811	93	1.8	93	89	0	272	21	20	28	29	1.98
49484781--49484977	27	7.3	27	83	3	254	26	21	17	34	1.95
49484781--49484977	80	2.4	81	84	2	263	26	21	17	34	1.95
49488524--49488591	33	2.0	34	85	2	93	26	25	20	27	1.99
49488560--49488618	27	2.2	26	79	8	64	28	25	22	23	1.99
49488572--49488623	27	1.9	27	88	0	77	28	23	21	26	1.99
49488960--49489115	27	5.4	27	73	15	107	25	21	21	30	1.98
49489022--49489096	36	2.1	36	82	0	87	25	21	20	33	1.97
49488994--49489115	63	1.9	63	88	0	181	25	22	19	32	1.97
49489057--49489128	27	2.7	27	86	4	101	26	22	16	34	1.95
49489982--49490044	30	2.1	31	93	3	110	52	25	9	12	1.69
49492439--49492541	46	2.2	46	96	0	188	23	30	17	29	1.97
49498974--49499103	29	4.5	29	91	0	199	30	27	14	27	1.95
49506804--49506933	29	4.5	29	91	0	199	30	28	13	26	1.94
49526806--49526844	14	2.7	15	76	8	53	43	10	5	41	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49527984--49528108	27	4.6	27	88	4	139	39	24	8	28	1.83
49527984--49528108	54	2.3	54	87	2	171	39	24	8	28	1.83
49527984--49528124	54	2.6	54	83	4	142	39	23	7	29	1.82
49528038--49528219	27	6.7	27	81	2	129	36	24	9	29	1.87
49528201--49528693	27	18.3	27	88	1	684	33	20	21	24	1.97
49529321--49529410	27	3.3	26	84	6	108	17	23	22	36	1.95
49529559--49529647	6	14.3	6	69	19	58	19	19	14	47	1.83
49529559--49529638	31	2.5	31	87	2	106	18	20	13	47	1.82
49531598--49531784	54	3.5	54	78	4	182	39	20	8	32	1.83
49531598--49531697	27	3.7	27	91	2	157	42	23	6	29	1.77
49531598--49531722	27	4.6	27	89	2	155	40	21	8	30	1.82
49531593--49531833	27	8.9	27	79	0	126	37	21	8	31	1.84
49531815--49532169	27	13.3	27	83	2	421	34	20	20	23	1.96
49532818--49532919	27	3.8	27	80	5	89	19	21	19	39	1.93
49533079--49533141	6	10.3	6	81	10	74	19	19	15	46	1.85
49533067--49533141	37	2.0	37	89	0	114	18	18	16	46	1.84
49535067--49535252	27	6.9	27	82	7	182	37	21	10	31	1.87
49535067--49535252	81	2.3	81	82	5	207	37	21	10	31	1.87
49535228--49535302	27	2.8	26	75	4	78	36	24	9	30	1.87
49535284--49536070	27	29.3	27	82	3	899	35	19	20	23	1.96
49536497--49536561	22	3.0	22	75	8	60	20	23	21	35	1.96
49536720--49536821	27	3.8	27	85	5	116	18	24	21	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49536720--49536821	54	1.9	53	83	2	132	18	24	21	35	1.96
49536958--49537051	6	15.3	6	71	18	61	19	17	13	50	1.79
49536958--49537037	37	2.1	38	90	2	126	18	17	13	50	1.79
49539869--49540580	359	2.0	359	99	0	1415	30	19	19	31	1.96
49554073--49554256	40	4.6	40	77	10	189	26	27	22	24	2.00
49554075--49554257	79	2.3	81	82	7	214	26	26	22	24	2.00
49561799--49561982	40	4.6	41	83	9	222	26	27	22	23	2.00
49561801--49561982	79	2.3	81	84	8	232	25	27	22	24	2.00
49567608--49567636	4	7.2	4	100	0	58	75	0	0	24	0.80
49569256--49569288	16	1.9	18	88	11	52	24	15	12	48	1.78
49572357--49572435	37	2.1	37	88	4	115	26	30	20	22	1.98
49572554--49573345	47	16.5	49	93	2	1287	29	29	9	31	1.88
49572554--49573345	145	5.5	144	94	1	1317	29	29	9	31	1.88
49576937--49577288	40	8.8	40	91	0	560	25	26	22	26	2.00
49578502--49578580	37	2.1	37	85	0	104	22	31	21	24	1.98
49578699--49579150	47	9.5	47	92	2	717	28	30	8	32	1.87
49578699--49579150	96	4.8	96	93	0	743	28	30	8	32	1.87
49578699--49579150	143	3.2	141	91	2	717	28	30	8	32	1.87
49583944--49584045	42	2.4	43	83	6	127	28	23	19	28	1.98
49584373--49584405	9	3.7	9	100	0	66	24	24	0	51	1.48
49586784--49586895	29	3.9	28	79	6	109	28	31	13	26	1.94
49587103--49587138	8	4.5	8	96	0	63	11	25	19	44	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49591304--49591411	29	3.8	29	82	6	130	27	27	15	28	1.96
49591301--49591411	58	1.9	57	87	1	159	27	28	15	27	1.96
49593346--49593648	47	6.4	47	94	0	507	28	31	7	33	1.86
49593346--49593704	94	3.7	94	91	4	529	28	31	7	32	1.85
49593590--49593704	59	1.9	59	100	0	230	31	31	6	30	1.84
49593593--49593721	59	2.2	59	92	2	206	31	31	6	30	1.84
49600827--49600940	46	2.5	46	80	7	115	31	19	25	23	1.98
49608726--49608765	15	2.7	15	92	0	62	15	7	17	60	1.57
49620594--49620771	27	6.6	27	84	3	205	29	28	15	26	1.96
49620615--49620770	82	1.9	81	88	3	233	29	28	15	26	1.96
49621251--49621277	12	2.2	12	100	0	54	40	0	7	51	1.30
49628596--49628773	27	6.6	27	84	3	205	29	28	15	26	1.96
49628617--49628772	82	1.9	81	88	3	233	29	28	15	26	1.96
49629255--49629281	12	2.2	12	100	0	54	40	0	7	51	1.30
49645045--49645223	79	2.2	80	83	7	222	24	27	22	24	2.00
49645020--49645223	40	5.1	40	81	8	220	25	27	22	25	2.00
49660442--49660542	50	2.0	50	100	0	202	39	15	16	27	1.90
49662359--49662421	31	2.0	31	100	0	126	49	19	6	25	1.71
49663986--49664026	20	2.0	20	100	0	82	19	31	4	43	1.72
49665909--49666084	46	3.8	46	76	4	174	30	29	19	21	1.97
49665916--49666088	93	1.9	93	90	0	274	28	30	19	21	1.98
49669397--49669466	24	2.9	25	79	10	83	32	20	27	20	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49674273--49674311	20	2.0	20	89	0	60	12	25	38	23	1.90
49680936--49681112	50	3.5	50	93	2	284	35	15	22	26	1.94
49681088--49681174	31	2.8	31	96	0	156	26	18	28	26	1.98
49681200--49681364	47	3.7	43	83	11	174	29	15	25	29	1.96
49681203--49681407	42	4.7	43	77	13	170	30	14	25	29	1.95
49682704--49682743	20	2.0	20	100	0	80	20	30	5	45	1.72
49685332--49685402	24	3.0	24	80	11	85	35	19	25	19	1.96
49691239--49691346	26	4.2	26	96	0	198	36	27	6	29	1.82
49693278--49693318	20	2.0	20	95	0	73	9	26	41	21	1.84
49701032--49701207	51	3.5	48	78	8	183	24	19	25	30	1.98
49705134--49705176	16	2.7	16	92	0	77	41	16	23	18	1.89
49707679--49707703	13	1.9	13	100	0	50	32	20	16	32	1.94
49708253--49708431	27	6.6	27	80	6	182	27	14	28	29	1.95
49708251--49708431	82	2.2	81	79	4	204	28	14	28	29	1.95
49715584--49715608	13	1.9	13	100	0	50	32	20	16	32	1.94
49716155--49716333	27	6.6	27	82	6	191	27	15	27	29	1.96
49716157--49716307	82	1.9	81	87	4	223	27	15	27	28	1.96
49716153--49716333	82	2.2	81	80	4	213	28	14	27	29	1.96
49730308--49730405	29	3.4	29	76	0	106	35	17	28	18	1.93
49733161--49733238	29	2.8	28	73	21	72	24	14	34	26	1.93
49747393--49747427	17	2.1	17	88	0	52	20	5	8	65	1.40
49749911--49750019	43	2.6	42	79	5	121	28	24	16	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49752887--49753200	27	11.6	27	81	1	317	40	19	8	31	1.81
49752887--49753200	54	5.8	54	84	2	353	40	19	8	31	1.81
49752936--49753254	81	3.9	81	76	12	199	38	20	8	32	1.82
49753130--49753254	27	4.6	27	73	5	101	37	21	9	31	1.86
49753246--49753431	54	3.5	54	88	2	250	34	18	20	25	1.96
49753237--49753429	81	2.4	80	84	1	253	35	18	20	25	1.95
49753237--49753433	27	7.3	27	83	3	218	35	19	19	25	1.96
49753659--49753806	73	2.0	73	90	0	233	20	27	21	31	1.98
49753957--49754078	25	5.0	23	73	16	93	18	16	14	50	1.79
49753966--49754033	31	2.2	31	86	0	91	20	16	13	50	1.78

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