genome.fa.s5.2.7.7.80.10.50.1000.149.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  149  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)
46398661--46398706	23	2.0	23	100	0	92	39	26	8	26	1.85
46411712--46411933	46	4.8	45	76	10	173	24	30	17	27	1.97
46412509--46412584	38	2.0	38	92	0	125	40	18	3	36	1.69
46416386--46416475	39	2.3	39	94	1	153	30	24	10	35	1.88
46426559--46426700	40	3.6	40	90	2	216	25	27	22	24	2.00
46440821--46441024	53	3.8	53	75	5	187	35	18	24	21	1.95
46448268--46448469	53	3.8	53	72	6	183	37	18	24	19	1.94
46455480--46455506	13	2.1	13	100	0	54	14	33	37	14	1.88
46459675--46459824	41	3.7	41	79	1	176	20	21	27	30	1.98
46467473--46467622	41	3.7	41	84	1	221	21	23	26	28	1.99
46471396--46471571	54	3.3	54	76	4	185	18	22	21	38	1.94
46481628--46481668	21	2.0	20	86	13	57	26	2	21	48	1.63
46483849--46483886	17	2.2	17	95	0	67	26	13	31	28	1.93
46489358--46489444	42	2.1	42	89	4	131	28	10	3	57	1.48
46489358--46489444	41	2.1	43	87	8	126	28	10	3	57	1.48
46491435--46491514	38	2.2	36	81	14	103	17	12	11	58	1.62
46491450--46491523	38	1.9	38	100	0	148	21	10	13	54	1.69
46494893--46494957	35	1.9	34	82	17	82	64	1	26	7	1.29
46494950--46495012	18	3.5	17	73	18	56	68	1	15	14	1.29
46504372--46504468	29	3.4	29	89	1	142	27	14	26	30	1.95
46505723--46505751	12	2.5	12	94	5	51	41	20	0	37	1.53
46512146--46512353	64	3.2	65	76	12	183	22	29	16	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46515358--46515580	119	1.9	120	83	6	292	25	27	22	25	2.00
46515356--46515580	40	5.7	40	85	6	278	25	27	22	24	2.00
46524417--46524601	40	4.7	40	80	6	198	25	27	21	25	1.99
46540662--46540851	79	2.4	81	81	7	219	25	27	21	25	1.99
46540643--46540846	40	5.1	40	80	8	220	24	27	22	25	2.00
46548585--46548769	79	2.3	82	83	7	229	24	27	22	24	2.00
46548566--46548769	40	5.1	40	81	8	229	24	27	22	25	2.00
46550625--46550889	40	6.7	40	87	4	349	25	27	22	24	2.00
46550625--46550889	119	2.2	121	85	4	351	25	27	22	24	2.00
46552747--46553011	40	6.7	40	87	4	349	25	27	21	25	2.00
46552747--46553011	119	2.2	121	85	4	351	25	27	21	25	2.00
46561267--46561360	34	2.8	34	81	0	107	29	23	24	22	1.99
46567040--46567081	23	1.9	23	85	9	61	28	16	11	42	1.84
46576151--46576175	13	1.9	13	100	0	50	32	16	16	36	1.90
46577855--46578167	47	6.6	47	93	1	500	32	8	30	28	1.86
46586281--46586356	31	2.5	31	86	6	109	26	25	18	30	1.98
46586562--46586723	26	6.3	26	88	2	233	27	22	20	28	1.99
46587525--46587611	27	3.2	27	90	3	122	18	25	20	35	1.95
46587642--46588000	27	13.3	27	76	7	275	31	9	20	38	1.84
46587754--46587986	81	2.9	78	85	6	306	30	8	20	41	1.81
46587977--46588108	27	4.9	27	81	5	142	40	7	22	29	1.82
46588086--46588138	27	2.0	27	92	0	88	28	1	22	47	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46587989--46588108	54	2.2	54	90	0	195	40	8	23	27	1.83
46587989--46588135	54	2.7	54	86	0	177	38	6	23	31	1.81
46588089--46588147	27	2.2	27	84	0	73	32	3	18	45	1.66
46601015--46601324	27	11.5	27	87	1	345	38	20	10	30	1.85
46601042--46601361	81	4.0	81	80	6	209	38	20	9	31	1.85
46601236--46601361	27	4.7	26	76	7	101	37	23	8	30	1.85
46601351--46601425	27	2.8	27	93	0	123	36	18	22	22	1.95
46602084--46602134	27	1.9	26	84	4	66	17	27	19	35	1.94
46613057--46613285	41	5.6	41	78	3	201	35	14	29	20	1.92
46613155--46613249	40	2.3	40	85	3	118	30	15	32	21	1.94
46614809--46614942	41	3.2	41	88	3	178	29	25	17	27	1.98
46616279--46616337	26	2.3	26	93	0	100	27	37	18	16	1.93
46619939--46619963	12	2.1	12	100	0	50	32	0	0	68	0.90
46620762--46621044	115	2.5	113	79	8	283	38	21	13	26	1.91
46624237--46624318	41	2.0	41	100	0	164	43	12	7	36	1.70
46624293--46624387	47	2.0	47	100	0	190	37	23	4	34	1.74
46624918--46625125	14	14.7	14	72	11	66	43	33	0	22	1.60
46624888--46625016	7	18.1	7	75	9	73	36	39	0	24	1.55
46624934--46625036	21	4.9	21	80	4	91	38	40	0	20	1.53
46625024--46625062	7	5.6	7	90	0	51	51	25	0	23	1.49
46628117--46628313	98	2.0	97	90	1	304	32	22	9	36	1.86
46628362--46628397	3	12.0	3	100	0	72	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46628862--46628919	13	4.4	13	72	10	55	39	29	8	22	1.84
46633553--46633586	17	2.0	17	94	0	59	50	0	20	29	1.49
46633555--46633595	17	2.4	17	87	0	55	56	0	12	31	1.36
46635289--46635513	40	5.6	39	85	5	265	24	21	28	25	1.99
46643265--46643489	40	5.7	40	82	8	255	24	21	27	25	1.99
46662057--46662090	17	2.0	17	88	0	50	47	0	20	32	1.51
46662947--46663029	43	1.9	43	85	4	114	25	12	26	36	1.91
46676332--46676502	93	1.8	93	92	0	288	21	21	28	28	1.99
46676336--46676510	46	3.8	45	79	7	190	21	21	28	28	1.99
46695919--46695972	27	2.0	27	96	0	99	50	18	5	25	1.69
46705832--46706007	46	3.8	46	81	4	210	22	21	27	28	1.99
46705829--46705999	93	1.8	93	93	0	297	22	21	28	27	1.99
46708391--46708613	47	4.7	47	78	8	206	24	30	18	27	1.98
46708440--46708611	94	1.8	94	87	2	256	25	30	17	26	1.97
46709730--46709823	49	1.9	49	95	0	170	42	12	6	38	1.69
46712660--46712854	40	4.9	39	85	6	257	25	27	21	25	1.99
46718331--46718388	28	2.0	29	87	9	84	15	41	22	20	1.90
46725963--46726219	47	5.5	47	78	9	195	22	29	19	28	1.98
46725994--46726259	46	5.7	45	76	13	157	22	29	19	28	1.98
46730970--46730995	3	8.7	3	100	0	52	65	0	34	0	0.93
46733542--46733644	40	2.5	41	82	1	109	33	27	14	25	1.94
46738351--46738388	20	1.9	20	88	0	58	36	31	13	18	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46758435--46758513	37	2.1	37	90	0	122	25	31	18	24	1.98
46758632--46759029	47	8.5	47	94	0	661	29	29	8	33	1.86
46767138--46767195	27	2.2	26	84	9	73	51	13	5	29	1.63
46771227--46771303	39	2.0	39	94	5	138	25	18	10	45	1.81
46778025--46778087	30	2.1	30	93	0	108	25	3	14	57	1.52
46780128--46780195	33	2.1	33	100	0	136	32	17	20	29	1.96
46784293--46784374	40	2.0	40	100	0	164	14	24	23	37	1.92
46786456--46786515	24	2.5	24	83	5	68	28	3	6	61	1.37
46787829--46787883	26	2.1	27	86	3	76	52	38	1	7	1.40
46789007--46789044	15	2.5	15	86	0	58	28	7	2	60	1.38
46789148--46789182	3	11.7	3	87	0	52	31	2	0	65	1.07
46789340--46789387	24	2.1	22	84	7	60	22	10	10	56	1.63
46791624--46791662	9	4.3	9	90	0	51	33	7	0	58	1.26
46791600--46791676	21	3.7	21	80	13	79	33	5	1	59	1.28
46791624--46791676	15	3.5	15	86	0	70	30	7	1	60	1.35
46791625--46791656	12	2.7	12	100	0	64	34	6	0	59	1.23
46791786--46791820	3	11.7	3	87	0	52	31	5	0	62	1.18
46791977--46792024	24	2.1	22	84	7	60	22	8	8	60	1.52
46805264--46805520	44	5.8	44	79	4	239	32	16	20	30	1.95
46805295--46805554	132	2.0	132	80	3	290	32	17	21	28	1.96
46805280--46805554	88	3.1	88	76	9	272	32	17	21	28	1.96
46805270--46805554	44	6.5	44	77	5	155	32	17	21	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46807204--46807241	4	9.8	4	82	5	51	18	0	5	76	0.97
46814430--46814473	22	2.0	22	100	0	88	27	22	9	40	1.84
46816103--46816141	18	2.2	18	86	9	53	76	2	0	20	0.90
46828672--46828887	47	4.6	47	89	2	315	31	8	30	29	1.87
46828672--46828887	96	2.3	94	88	1	315	31	8	30	29	1.87
46832699--46832916	81	2.7	79	79	8	215	42	10	14	33	1.79
46832761--46833242	87	5.6	87	78	6	441	42	9	14	33	1.78
46833475--46833518	22	2.0	23	86	4	63	65	2	0	31	1.05
46833474--46833527	22	2.6	21	75	11	58	66	1	0	31	1.02
46835046--46835079	17	2.0	17	88	11	52	52	14	2	29	1.56

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