genome.fa.s5.2.7.7.80.10.50.1000.132.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  132  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)
40804944--40804972	15	1.9	15	100	0	58	6	27	0	65	1.18
40805093--40805138	23	2.0	23	87	8	67	6	21	2	69	1.22
40807382--40807436	24	2.3	24	93	0	92	36	27	9	27	1.87
40808738--40809112	126	3.0	126	86	1	502	31	14	15	38	1.88
40809118--40809170	23	2.2	25	77	12	58	58	5	3	32	1.39
40809173--40809252	30	2.7	30	84	3	101	41	22	1	35	1.62
40809200--40809453	22	11.5	22	62	18	80	42	17	1	38	1.57
40809199--40809428	64	3.5	63	69	18	187	41	18	1	38	1.59
40809304--40809473	29	5.9	28	69	18	91	42	19	0	37	1.56
40809173--40809453	136	2.1	136	94	0	490	41	18	1	38	1.57
40809433--40809498	34	2.0	34	87	3	98	42	18	0	39	1.50
40809337--40809499	85	1.9	86	94	1	292	43	18	0	37	1.55
40809291--40809504	114	1.8	114	80	6	250	42	18	0	38	1.54
40810227--40810278	19	2.7	19	85	11	70	30	7	1	59	1.36
40815620--40815749	49	2.8	46	74	13	106	40	16	6	37	1.73
40815619--40815818	93	2.2	88	78	13	201	44	15	5	34	1.70
40815790--40815818	14	2.0	15	93	6	51	58	13	0	27	1.36
40816396--40816443	20	2.4	21	83	10	66	72	6	0	20	1.05
40819883--40819916	2	17.0	2	87	0	50	44	0	52	2	1.16
40822590--40822643	23	2.3	23	96	0	99	57	7	0	35	1.27
40822590--40822643	10	4.6	13	70	25	57	57	7	0	35	1.27
40823337--40823402	20	3.3	20	73	12	64	43	0	6	50	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40828979--40829687	354	2.0	355	92	0	1177	20	24	15	39	1.91
40832551--40832603	3	17.7	3	100	0	106	67	32	0	0	0.91
40833786--40833838	21	2.5	21	73	11	54	5	0	35	58	1.22
40835463--40835503	20	2.0	20	90	0	64	21	26	24	26	2.00
40835471--40835520	20	2.5	20	86	0	64	26	22	20	32	1.98
40835488--40835601	20	5.7	20	73	12	81	19	15	21	43	1.87
40835442--40835560	60	2.0	60	83	0	148	18	19	22	39	1.92
40835483--40835609	40	3.2	40	82	5	150	17	16	22	43	1.88
40838221--40838255	10	3.4	10	92	4	52	74	0	5	20	1.02
40839472--40839524	26	2.0	26	96	0	97	33	9	11	45	1.72
40843577--40843617	21	2.0	21	95	0	73	19	26	21	31	1.97
40846361--40846391	16	1.9	16	93	0	53	29	16	12	41	1.85
40849451--40849516	31	2.1	31	88	0	96	45	13	9	31	1.75
40849607--40849645	16	2.3	17	86	8	53	25	0	2	71	0.98
40851592--40851621	12	2.5	12	94	0	51	70	6	3	20	1.25
40859581--40859810	46	4.9	45	75	11	178	22	28	20	29	1.98
40866101--40866384	46	6.1	46	78	11	240	23	30	18	27	1.98
40866100--40866370	94	2.9	91	77	12	275	23	30	18	27	1.98
40879589--40879629	21	1.9	21	85	5	55	19	21	19	39	1.93
40898800--40898915	23	4.9	23	78	7	101	24	18	19	37	1.94
40899618--40899647	15	2.0	15	93	0	51	33	6	30	30	1.83
40899863--40899926	30	2.1	30	85	5	85	18	31	29	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40907265--40907681	55	7.9	54	75	12	362	23	24	16	35	1.95
40907276--40907673	109	3.7	108	80	7	499	23	24	16	35	1.95
40907288--40907734	209	2.1	209	94	0	786	23	24	15	35	1.94
40909401--40909440	20	2.0	21	85	5	55	12	22	17	47	1.81
40909380--40909479	21	4.9	21	75	11	84	15	20	18	47	1.83
40917387--40917440	20	2.7	20	94	2	90	14	16	18	50	1.79
40919183--40919233	17	2.8	20	75	22	58	31	0	1	66	1.03
40919219--40919290	25	2.9	24	76	8	74	33	6	2	56	1.40
40921611--40921674	26	2.7	23	75	15	67	43	4	0	51	1.22
40922476--40922525	16	3.1	16	71	23	50	50	0	0	50	1.00
40927338--40927378	20	2.0	20	100	0	82	39	19	4	36	1.73
40928206--40928367	43	3.8	42	82	8	184	31	25	19	24	1.98
40933909--40933965	29	2.0	29	96	0	105	19	26	17	36	1.94
40935656--40935700	13	3.3	14	77	22	51	60	0	4	35	1.17
40935752--40935794	20	2.4	19	82	17	56	72	0	27	0	0.85
40937522--40937568	20	2.3	20	92	0	76	21	42	27	8	1.81
40940861--40940937	38	2.0	38	92	0	127	22	12	24	40	1.89
40947232--40947277	20	2.3	21	82	14	62	26	17	28	28	1.98
40947270--40947404	60	2.2	60	84	6	166	28	19	25	26	1.98
40948078--40948116	16	2.4	16	91	0	60	46	17	12	23	1.83
40955268--40955397	47	2.8	47	82	2	163	32	26	16	24	1.96
40961302--40961330	13	2.2	13	100	0	58	31	0	13	55	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40966771--40966832	6	10.5	6	96	3	117	16	0	0	83	0.64
40968624--40968664	22	1.9	22	85	5	57	24	4	19	51	1.66
40969776--40969804	13	2.2	13	100	0	58	31	0	13	55	1.39
40981455--40981493	13	3.0	13	76	0	51	38	0	0	61	0.96
40982772--40982814	22	2.0	22	85	0	59	55	9	13	20	1.66
40983522--40983567	18	2.8	18	84	15	64	0	30	41	28	1.56
40985339--40985376	13	2.8	13	85	14	51	60	0	0	39	0.97
40987859--40987955	3	32.0	3	84	2	68	54	3	9	32	1.48
40987992--40988024	17	1.9	17	88	11	50	66	0	3	30	1.06
40991579--40991615	11	3.4	11	88	0	56	16	10	13	59	1.61
40991698--40991758	14	4.3	14	73	8	52	36	3	19	40	1.68
40993764--40993791	12	2.3	12	100	0	56	32	14	7	46	1.71
41000406--41000500	42	2.3	42	83	5	129	18	25	32	23	1.97
41010136--41010185	26	1.9	26	91	0	82	36	18	20	26	1.95
41021505--41021539	18	1.9	18	100	0	70	34	34	8	22	1.85
41046581--41046643	31	2.0	31	81	6	74	63	3	12	20	1.42
41049774--41049846	29	2.5	29	82	6	85	35	1	8	54	1.39
41054889--41054927	16	2.5	15	84	8	51	43	0	2	53	1.14
41057850--41058045	103	1.9	104	80	4	227	36	9	18	35	1.84
41060747--41060794	20	2.4	20	85	0	60	37	16	29	16	1.91
41060766--41060805	20	2.0	20	85	5	53	37	15	30	17	1.90
41067311--41067669	178	2.0	178	97	0	682	35	27	10	26	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41077592--41077633	16	2.6	16	85	7	50	45	0	0	54	0.99
41077595--41077680	26	3.3	25	74	6	91	46	0	0	53	1.00
41077623--41077653	14	2.2	14	94	0	53	61	0	0	38	0.96
41077650--41077691	15	2.8	15	82	10	50	42	0	0	57	0.99
41082412--41082467	29	1.9	29	85	0	76	46	7	8	37	1.63
41082419--41082493	29	2.5	29	80	4	87	46	9	9	34	1.68
41083911--41083955	22	2.2	21	77	14	51	33	2	24	40	1.68
41084374--41084409	19	1.9	18	88	5	54	44	0	2	52	1.15
41084374--41084431	18	3.1	19	78	12	57	44	0	3	51	1.18
41084413--41084449	20	1.9	20	88	5	58	29	0	8	62	1.24
41086085--41086240	44	3.5	44	78	5	172	27	17	22	32	1.97
41087956--41088005	22	2.3	22	80	19	61	16	10	6	68	1.38
41087959--41088004	21	2.2	21	85	14	60	15	8	6	69	1.34
41090361--41090702	142	2.5	141	78	9	303	40	10	17	31	1.83
41103650--41103708	30	1.9	31	89	3	93	27	11	8	52	1.66
41106935--41107001	25	2.6	25	75	17	66	52	4	4	38	1.42
41106916--41106976	20	3.2	20	74	25	78	47	6	1	44	1.39
41108507--41108572	21	3.2	21	66	33	61	27	16	16	39	1.90
41108508--41108589	41	2.0	41	97	0	155	28	19	13	39	1.89
41115211--41115262	21	2.4	21	81	12	61	51	1	1	44	1.23
41115586--41115614	4	7.5	4	92	7	51	75	0	0	24	0.80
41119033--41119150	62	1.9	61	94	1	209	35	5	10	49	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41120117--41120181	28	2.3	28	100	0	130	27	9	0	63	1.25
41123234--41123262	14	2.1	14	100	0	58	41	0	6	51	1.28
41123205--41123372	62	2.7	62	94	0	300	47	10	5	36	1.63
41125370--41125462	46	2.0	46	95	0	168	17	19	30	33	1.95
41128807--41128831	9	2.8	9	100	0	50	52	0	24	24	1.48
41134677--41134733	28	2.0	28	96	0	105	49	1	17	31	1.57
41139820--41139926	26	4.2	26	96	1	198	30	5	27	36	1.80
41142694--41142801	26	4.2	26	97	0	207	30	6	26	36	1.82
41145858--41146011	28	5.5	28	91	1	220	32	28	12	25	1.93
41153872--41153994	27	4.6	26	95	3	142	33	27	12	26	1.92

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