genome.fa.s3.2.7.7.80.10.50.1000.123.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: A03
Parameters: 2 7 7 80 10 50 1000
Length:  108673976

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   

This is table  123  of  333  ( 39894 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)
39733135--39733171	9	4.1	9	89	0	56	32	10	10	45	1.74
39733357--39733391	14	2.4	15	85	9	54	74	5	5	14	1.19
39734679--39734735	23	2.5	23	82	0	69	17	8	21	52	1.71
39739127--39739304	46	3.8	46	79	6	189	28	19	30	21	1.98
39741822--39741993	40	4.3	40	88	2	222	25	27	21	25	1.99
39741822--39742046	80	2.8	79	79	5	229	25	27	20	25	1.99
39749067--39749238	40	4.3	40	88	2	222	25	27	21	25	1.99
39749069--39749291	40	5.6	39	83	5	216	25	27	21	25	1.99
39749067--39749291	80	2.8	79	80	7	240	25	27	21	25	1.99
39749223--39749300	40	1.9	41	82	10	97	26	28	20	24	1.99
39752465--39752489	13	1.9	13	100	0	50	16	24	28	32	1.96
39758114--39758175	30	2.1	30	96	0	115	56	12	4	25	1.56
39761186--39761223	17	2.1	19	90	9	62	21	7	10	60	1.54
39766946--39767191	49	4.9	50	80	4	264	26	17	26	30	1.97
39766949--39767178	100	2.3	98	84	3	273	25	17	26	30	1.97
39774456--39774700	49	4.9	49	82	4	294	25	18	26	28	1.98
39776060--39776101	12	3.5	12	83	6	50	28	21	40	9	1.84
39777127--39777180	24	2.2	26	81	15	69	48	0	7	44	1.31
39781983--39782028	16	2.9	16	84	9	60	54	0	4	41	1.20
39785209--39785391	48	4.0	46	73	13	162	26	21	25	26	2.00
39786716--39786766	18	2.8	18	93	0	93	17	29	37	15	1.91
39787402--39787563	29	5.5	29	88	1	207	25	26	11	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39787402--39787563	59	2.8	58	85	3	216	25	26	11	37	1.89
39787733--39787776	23	2.0	22	86	13	63	43	11	6	38	1.67
39794599--39794816	40	5.5	40	85	4	257	24	22	27	24	2.00
39802548--39802765	40	5.5	40	84	4	257	23	22	27	25	2.00
39805521--39805637	27	4.3	28	81	8	118	40	18	9	31	1.83
39805516--39805638	54	2.3	54	80	7	133	39	18	8	33	1.82
39805616--39805792	27	6.9	27	76	12	147	29	22	7	41	1.80
39805605--39805709	54	1.9	54	80	0	120	30	23	7	38	1.83
39805695--39805732	19	2.0	19	100	0	76	26	21	10	42	1.85
39805668--39805764	46	2.1	46	88	0	140	27	21	9	41	1.84
39805716--39805992	27	10.2	27	79	7	150	37	20	8	33	1.82
39805616--39805802	100	1.9	100	80	2	223	30	22	6	40	1.80
39805770--39805908	53	2.6	54	86	2	199	38	22	8	30	1.84
39805784--39806021	27	8.8	27	78	6	196	39	19	9	31	1.84
39806052--39806143	27	3.4	27	90	3	132	33	20	26	19	1.96
39806946--39807016	37	1.9	37	94	0	124	33	19	25	21	1.97
39806983--39807106	26	4.8	26	88	1	187	27	20	22	29	1.99
39807251--39807339	42	2.1	42	85	0	115	33	13	16	35	1.88
39807366--39807439	30	2.4	31	90	4	123	29	16	25	28	1.97
39812945--39813000	28	2.0	28	100	0	112	42	21	0	35	1.53
39815532--39816012	47	10.2	47	90	3	743	31	8	30	29	1.87
39815722--39815794	22	3.3	22	67	7	67	30	9	30	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39815532--39815997	140	3.3	141	92	2	749	30	8	31	29	1.87
39815532--39816012	96	5.1	94	90	4	743	31	8	30	29	1.87
39816130--39816208	37	2.1	37	90	0	122	24	18	31	25	1.98
39817960--39817985	13	2.0	13	100	0	52	30	0	15	53	1.42
39819143--39819230	45	2.0	44	95	2	158	23	13	26	36	1.92
39831144--39831220	23	3.4	23	76	3	84	37	23	24	14	1.92
39832550--39832613	31	2.1	31	87	0	92	23	23	14	39	1.91
39832807--39832972	24	7.0	24	87	4	230	26	21	22	29	1.99
39832806--39832971	47	3.5	48	86	5	223	26	21	22	29	1.99
39832807--39832972	71	2.3	71	90	5	255	26	21	22	29	1.99
39833023--39833061	20	2.0	20	100	0	78	30	20	12	35	1.90
39833024--39833068	20	2.2	20	92	0	72	31	22	13	33	1.92
39834309--39834411	27	3.8	27	75	7	91	25	21	18	34	1.96
39834428--39834657	27	8.4	27	77	3	158	34	9	17	38	1.82
39834436--39834657	81	2.7	80	76	8	207	32	8	18	40	1.81
39834645--39834734	46	2.0	46	90	0	144	38	8	24	27	1.85
39834681--39834732	27	1.9	27	88	0	77	38	9	26	25	1.86
39834728--39834795	27	2.5	27	87	0	100	39	7	25	27	1.82
39834691--39834770	38	2.1	38	86	4	108	38	8	27	25	1.85
39834801--39834889	27	3.3	27	81	6	110	32	10	15	41	1.81
39842645--39842685	18	2.3	18	82	0	55	39	17	4	39	1.71
39842656--39842694	18	2.2	18	85	0	51	38	17	7	35	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39842656--39842706	25	2.0	26	92	7	86	41	15	7	35	1.76
39842887--39842967	23	3.6	23	81	8	94	35	18	27	18	1.94
39842864--39842967	45	2.2	48	81	10	117	31	20	26	21	1.98
39845289--39845354	33	2.0	33	100	0	132	30	9	27	33	1.88
39850081--39850209	48	2.7	49	83	8	165	20	20	27	31	1.98
39856967--39856991	13	1.9	13	100	0	50	40	24	4	32	1.73
39864416--39864464	22	2.2	22	96	0	89	40	16	34	8	1.78
39865367--39865472	42	2.5	42	74	10	99	26	26	20	26	1.99
39866678--39866781	32	3.2	32	97	0	190	38	18	8	34	1.81
39867081--39867219	25	5.6	24	72	14	95	34	21	25	18	1.96
39867159--39867218	26	2.3	26	88	0	93	36	23	23	16	1.94
39874330--39874431	25	4.2	24	71	12	82	36	16	24	22	1.94
39874338--39874484	26	5.8	25	73	13	81	37	19	22	20	1.94
39874411--39874485	26	2.9	25	84	4	87	38	22	20	18	1.93
39874365--39874492	52	2.6	48	78	10	123	37	20	22	19	1.94
39881926--39882012	24	3.6	25	77	11	67	35	19	24	20	1.96
39882063--39882122	26	2.3	26	85	0	84	38	23	20	18	1.93
39882078--39882137	26	2.3	26	88	5	86	33	23	23	20	1.97
39882786--39882828	19	2.3	19	84	8	52	32	11	0	55	1.36
39885473--39885501	7	4.1	7	100	0	58	27	27	0	44	1.54
39899533--39899619	26	3.4	25	86	9	122	29	20	22	26	1.99
39905812--39905938	39	3.2	39	88	2	173	25	25	22	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39905825--39905956	40	3.3	40	89	1	167	25	24	22	28	2.00
39913604--39913775	93	1.8	93	91	0	281	27	30	21	20	1.98
39913596--39913771	46	3.8	46	78	7	185	28	29	21	21	1.98
39941944--39942121	40	4.5	40	92	2	288	24	28	23	24	2.00
39943392--39943573	37	4.9	37	95	0	319	25	31	19	23	1.98
39943782--39944415	47	13.1	47	86	6	827	26	30	12	30	1.93
39943782--39944415	147	4.4	142	88	5	831	26	30	12	30	1.93
39943782--39944415	194	3.3	194	92	2	1047	26	30	12	30	1.93
39951257--39951428	40	4.3	40	86	2	204	26	28	20	24	1.99
39951257--39951481	80	2.8	80	77	8	199	26	28	20	24	1.99
39951413--39951490	40	1.9	41	82	10	97	26	28	20	24	1.99
39958475--39958646	40	4.3	40	85	2	204	26	28	20	24	1.99
39958475--39958699	80	2.8	80	77	8	199	26	28	20	24	1.99
39958631--39958708	40	1.9	41	82	10	97	26	28	20	24	1.99
39965575--39965622	25	1.9	25	86	0	69	33	25	16	25	1.96
39965659--39965721	20	3.2	20	91	8	110	34	12	19	33	1.89
39965774--39965903	24	5.4	24	92	2	199	30	21	21	26	1.98
39965774--39965903	47	2.7	48	90	3	199	30	21	21	26	1.98
39966111--39966174	31	2.1	31	90	0	101	35	15	23	25	1.94
39969256--39969313	29	2.0	30	82	3	73	41	0	37	20	1.53
39969442--39969474	9	3.7	9	84	15	50	42	24	9	24	1.83
39969825--39969869	23	2.0	22	83	12	56	26	8	22	42	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39970046--39970185	66	2.1	63	83	8	181	22	28	27	21	1.99
39975795--39975887	42	2.2	43	84	1	125	37	24	12	24	1.91
39983195--39983344	75	2.0	75	98	0	291	32	24	5	37	1.78
39985034--39985066	16	2.2	16	89	10	52	30	9	21	39	1.84
39991377--39991422	20	2.2	21	88	3	67	19	19	21	39	1.93
39991384--39991431	21	2.3	20	92	3	78	16	16	22	43	1.87
39992789--39992820	12	2.7	12	95	0	55	28	18	18	34	1.95
40010324--40010384	30	2.0	30	83	0	77	31	22	8	37	1.84
40011687--40011724	19	2.0	19	94	0	67	23	0	10	65	1.23
40015648--40015832	40	4.7	40	82	6	207	25	26	22	25	2.00

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