genome.fa.s5.2.7.7.80.10.50.1000.170.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  170  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)
53723049--53723272	25	9.5	24	61	11	95	32	27	7	33	1.84
53723073--53723247	22	7.5	23	62	11	70	30	28	9	32	1.88
53722880--53723331	47	9.7	47	83	6	560	31	28	8	32	1.86
53734756--53734834	31	2.5	31	95	0	140	26	24	18	30	1.98
53735039--53735226	26	7.3	26	84	2	240	27	23	20	28	1.99
53735039--53735226	52	3.7	51	90	6	285	27	23	20	28	1.99
53736029--53736116	27	3.3	27	87	3	124	18	23	20	37	1.94
53736147--53736519	27	13.7	27	77	4	196	32	9	19	38	1.83
53736149--53736525	54	6.9	54	74	4	238	32	8	19	38	1.83
53736230--53736418	81	2.3	79	83	7	254	30	8	19	41	1.81
53737550--53737604	27	2.0	27	100	0	110	32	16	14	36	1.89
53746048--53746135	27	3.3	27	79	6	97	38	22	12	26	1.90
53749706--53749756	24	2.1	24	92	0	84	13	15	31	39	1.87
53754685--53754804	40	3.0	40	97	0	222	25	30	21	21	1.98
53759020--53759203	67	2.8	64	75	8	176	29	17	29	23	1.97
53767461--53767532	25	3.0	23	80	10	72	23	23	23	29	1.99
53767566--53767630	11	6.1	11	76	7	62	32	16	13	36	1.89
53767580--53767628	21	2.3	20	83	10	71	32	20	10	36	1.86
53767980--53768036	20	2.8	20	86	2	78	22	36	19	21	1.95
53770890--53770916	13	2.1	13	100	0	54	51	14	0	33	1.43
53773841--53773903	6	10.5	6	81	6	74	77	0	6	15	0.96
53778994--53779167	79	2.2	79	90	5	280	48	14	17	19	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53779072--53779168	30	3.2	30	84	7	108	48	15	16	19	1.81
53778994--53779143	6	24.8	6	75	16	141	49	13	16	20	1.79
53779300--53779401	27	3.8	26	87	5	105	36	20	23	19	1.95
53779559--53779621	22	2.8	23	83	7	76	33	22	23	20	1.97
53780049--53780667	27	23.3	27	86	3	781	25	21	19	33	1.97
53780374--53780413	19	2.1	19	95	0	71	27	22	22	27	1.99
53780345--53780494	46	3.1	46	79	14	183	26	22	21	30	1.98
53780409--53780725	54	5.9	53	80	7	220	26	18	19	35	1.95
53780652--53781029	27	14.1	26	79	6	224	31	8	23	36	1.85
53780860--53781050	81	2.4	81	85	0	211	36	7	23	32	1.83
53782937--53782963	13	2.1	13	100	0	54	51	14	0	33	1.43
53783685--53783732	24	2.0	24	100	0	96	20	25	29	25	1.99
53786665--53786717	27	2.0	27	88	0	79	28	7	18	45	1.77
53787097--53787167	29	2.5	29	80	13	76	28	7	18	46	1.75
53795205--53795504	40	7.6	40	80	6	342	24	20	28	27	1.99
53795205--53795504	80	3.8	80	91	2	462	24	20	28	27	1.99
53803362--53803661	40	7.6	40	81	6	342	24	20	28	27	1.99
53803362--53803661	80	3.8	80	91	2	462	24	20	28	27	1.99
53805716--53805793	27	2.9	27	84	7	104	15	23	24	37	1.93
53807005--53807154	29	5.1	29	83	3	158	20	23	15	40	1.90
53808308--53808357	22	2.3	22	82	6	57	14	24	24	38	1.92
53811795--53811849	22	2.5	22	82	5	67	18	32	18	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53812756--53812826	29	2.4	29	81	4	81	22	21	12	43	1.86
53825846--53825891	24	1.9	24	90	0	74	10	26	13	50	1.74
53837075--53837225	28	5.4	28	91	1	214	33	27	11	26	1.92
53842417--53842489	33	2.2	33	82	4	85	31	24	23	20	1.98
53842583--53842686	26	4.0	26	80	1	91	38	18	20	23	1.93
53846907--53846954	6	8.0	6	86	6	62	43	18	2	35	1.62
53848129--53848166	11	3.1	12	85	14	51	57	0	0	42	0.98
53850002--53850121	60	2.0	60	96	0	222	30	13	11	45	1.79
53853330--53853463	43	2.9	46	80	8	139	22	18	29	29	1.97
53856867--53856979	46	2.5	44	87	7	147	29	18	30	21	1.97
53856821--53857135	96	3.3	94	74	11	286	28	19	29	22	1.98
53865282--53865464	79	2.3	81	83	7	223	25	27	21	24	1.99
53865280--53865464	40	4.7	40	80	10	200	25	28	21	24	1.99
53873465--53873645	79	2.3	80	82	7	217	25	28	21	24	1.99
53873444--53873647	40	5.1	40	80	8	220	25	27	21	24	1.99
53880581--53880700	46	2.6	43	83	12	134	28	20	27	24	1.99
53880666--53880795	48	2.6	50	79	11	135	29	16	30	23	1.97
53896348--53896514	59	2.8	59	83	1	183	35	5	8	50	1.57
53899444--53899512	25	2.8	25	88	2	95	21	23	2	52	1.61
53899610--53899906	125	2.4	124	86	2	418	30	18	12	38	1.88
53899801--53899855	28	2.0	28	82	7	67	38	18	3	40	1.68
53900127--53900200	28	2.7	28	89	2	105	39	28	0	32	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53900795--53900850	23	2.4	24	75	3	60	16	7	7	69	1.33
53900959--53901000	7	6.3	7	83	10	61	11	0	14	73	1.09
53902578--53902612	17	2.1	17	100	0	70	40	31	22	5	1.78
53906730--53906905	43	4.1	43	88	1	257	30	33	23	12	1.92
53906877--53906960	38	2.2	38	89	0	132	32	27	20	20	1.97
53923857--53923883	8	3.4	8	100	0	54	62	14	0	22	1.31
53934813--53934850	19	2.0	19	85	10	51	68	0	10	21	1.19
53937685--53937864	49	3.7	49	88	3	247	30	28	16	24	1.97
53939538--53939595	30	1.9	30	86	6	82	56	17	17	8	1.64
53939538--53939595	15	3.9	15	82	8	73	56	17	17	8	1.64
53942602--53942826	49	4.5	49	84	4	263	31	27	16	25	1.96
53942645--53942826	99	1.8	101	88	4	280	30	27	16	25	1.97
53957708--53958465	48	16.1	48	89	5	1156	34	6	28	30	1.82
53957708--53958465	144	5.4	144	92	4	1294	34	6	28	30	1.82
53958196--53958262	33	2.0	33	97	0	125	35	8	28	26	1.87
53958148--53958310	81	2.0	81	98	0	317	34	7	28	29	1.84
53957860--53958406	177	3.0	177	92	4	853	34	6	28	30	1.83
53958004--53958453	225	2.0	225	96	0	837	34	6	28	30	1.83
53959797--53959972	46	3.8	46	76	16	184	21	19	28	30	1.97
53959793--53959964	93	1.8	93	90	2	274	21	19	29	29	1.98
53966110--53966179	28	2.5	28	88	9	99	27	14	27	31	1.95
53969921--53969964	18	2.4	18	96	0	79	11	20	43	25	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53970335--53970386	27	2.0	26	84	3	68	17	26	21	34	1.95
53972218--53972428	29	7.2	28	77	7	163	25	22	13	38	1.91
53972219--53972428	58	3.6	57	77	11	185	24	22	13	38	1.91
53972316--53972434	59	2.0	58	88	1	175	25	21	12	40	1.89
53973200--53973236	5	7.4	5	100	0	74	37	0	0	62	0.96
53977771--53977857	40	2.2	39	91	4	138	35	20	22	20	1.96
53977781--53977877	40	2.4	40	87	0	131	37	21	24	16	1.94
53977825--53977877	20	2.7	20	70	5	54	37	18	28	15	1.91
53981691--53981780	29	3.1	28	90	4	128	23	30	12	34	1.91
53983079--53983111	16	2.1	16	94	0	57	48	24	21	6	1.72
53985834--53985881	25	1.9	25	82	0	60	33	22	16	27	1.96
53985918--53985964	20	2.3	20	96	0	85	34	10	21	34	1.88
53986013--53986108	24	4.0	24	89	6	142	30	20	20	28	1.98
53986303--53986363	31	2.0	31	83	0	77	31	13	27	27	1.94
53990464--53990550	27	3.2	27	91	3	131	18	26	20	34	1.96
53990688--53990898	27	7.9	27	80	6	205	29	8	21	40	1.83
53990695--53990927	54	4.3	53	80	4	234	29	9	21	40	1.83
53990695--53990898	81	2.5	80	90	3	311	28	8	21	40	1.83
53990581--53991009	27	15.8	27	76	6	204	32	9	19	38	1.84
53993060--53993157	27	3.5	28	88	5	128	32	28	13	25	1.93
54001336--54001433	27	3.5	28	88	5	128	32	28	13	25	1.93
54019241--54019617	48	7.9	48	97	0	673	34	6	28	30	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54019758--54019860	37	2.8	37	96	0	188	23	20	32	24	1.98
54023941--54023968	11	2.5	11	100	0	56	0	7	0	92	0.37
54024699--54024732	16	2.1	16	89	10	52	0	2	8	88	0.62
54030760--54030808	20	2.5	20	77	9	57	44	6	6	42	1.54
54031567--54031617	8	5.9	8	80	15	57	56	3	0	39	1.18
54031565--54031639	19	4.0	19	76	13	66	56	4	2	37	1.32
54031902--54031981	28	2.9	28	78	12	74	31	5	2	61	1.31
54038891--54038952	31	2.0	31	90	0	97	41	3	19	35	1.67
54041704--54041984	144	2.0	144	95	0	508	38	17	12	31	1.87
54044995--54045019	12	2.1	12	100	0	50	44	0	16	40	1.47

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