genome.fa.s3.2.7.7.80.10.50.1000.144.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  144  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)
47190144--47190182	17	2.2	19	90	9	64	48	5	2	43	1.38
47200514--47200651	38	3.6	38	84	5	170	32	26	21	19	1.97
47200582--47200666	38	2.5	33	83	11	100	32	28	18	20	1.96
47204003--47204078	9	8.4	9	88	0	107	43	23	9	23	1.82
47205050--47205371	40	8.1	40	82	5	346	44	26	16	13	1.84
47205050--47205371	80	4.0	80	83	3	407	44	26	16	13	1.84
47205050--47205362	120	2.6	119	83	4	387	44	25	16	13	1.84
47220473--47220511	19	2.1	19	100	0	78	38	15	30	15	1.88
47220807--47220977	79	2.2	79	83	6	204	26	19	26	26	1.99
47220760--47220944	40	4.7	40	80	6	207	24	21	27	26	1.99
47231201--47231257	22	2.6	22	91	0	96	22	7	17	52	1.68
47232926--47232987	32	1.9	33	90	3	99	45	1	14	38	1.55
47234383--47234412	12	2.5	12	94	0	51	13	23	3	60	1.48
47238013--47238190	46	3.8	46	79	4	205	29	28	20	21	1.98
47238021--47238192	93	1.8	93	91	0	281	28	29	20	21	1.98
47242066--47242178	43	2.7	43	80	6	149	23	18	25	31	1.97
47242933--47242977	24	1.9	23	82	13	56	31	4	24	40	1.75
47246826--47246876	25	2.0	25	100	0	102	27	7	7	56	1.55
47248095--47248132	17	2.4	16	86	8	51	31	26	28	13	1.93
47250199--47250375	27	6.5	26	83	6	158	25	15	29	28	1.96
47250199--47250354	82	1.9	81	85	3	215	26	16	29	28	1.96
47250195--47250375	82	2.2	81	81	2	211	26	16	28	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47262766--47262792	14	1.9	14	100	0	54	44	0	25	29	1.54
47264236--47264372	38	3.6	38	91	3	197	21	21	24	32	1.98
47266697--47266845	41	3.7	40	80	2	181	27	27	22	22	1.99
47271545--47271722	27	6.6	27	83	3	205	26	15	28	29	1.96
47271546--47271701	82	1.9	81	88	3	233	26	15	28	29	1.96
47271542--47271722	82	2.2	81	83	2	229	27	15	27	29	1.96
47277573--47277760	41	4.6	41	87	2	281	28	28	22	20	1.98
47277573--47277760	81	2.3	82	88	2	281	28	28	22	20	1.98
47279595--47279680	27	3.1	29	85	5	115	30	26	15	27	1.96
47281155--47281186	16	2.0	16	100	0	64	12	6	31	50	1.65
47288397--47289111	84	8.3	83	80	9	500	44	10	11	32	1.75
47288397--47289161	88	8.9	87	82	6	592	44	10	12	33	1.76
47289094--47289233	73	1.9	73	82	5	176	46	9	13	30	1.75
47289914--47289960	20	2.4	20	82	3	60	48	8	8	34	1.64
47293430--47293476	24	2.0	24	100	0	94	42	8	0	48	1.33
47293840--47293905	33	2.0	33	100	0	132	27	18	24	30	1.98
47294532--47294585	3	18.3	3	77	11	58	62	0	35	1	1.06
47295963--47296003	18	2.3	18	87	8	57	29	21	0	48	1.50
47296113--47296206	39	2.4	38	78	5	91	27	26	20	25	1.99
47297208--47297253	25	1.9	25	86	8	69	10	13	4	71	1.27
47298673--47298810	43	3.2	43	91	1	224	43	19	7	28	1.79
47300455--47300497	15	2.9	15	89	0	68	37	39	6	16	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47300782--47300952	62	2.8	62	94	0	306	48	12	11	26	1.76
47300914--47300991	24	3.2	26	60	26	60	47	17	10	24	1.79
47300913--47301021	48	2.3	48	100	0	218	45	16	11	25	1.81
47300961--47301157	64	3.1	64	90	0	322	46	14	14	24	1.82
47301006--47301045	16	2.5	16	87	0	62	47	17	15	20	1.83
47300851--47301085	112	2.1	110	87	1	335	46	13	12	27	1.80
47301293--47301318	6	4.3	6	100	0	52	69	15	0	15	1.20
47301327--47301368	18	2.3	18	76	15	50	50	9	11	28	1.70
47301396--47301440	6	7.5	6	82	9	56	62	13	6	17	1.52
47301386--47301428	18	2.4	18	84	0	59	58	11	6	23	1.57
47301938--47302010	31	2.4	29	77	8	83	23	10	19	46	1.81
47305831--47305873	22	2.0	22	86	9	61	79	2	2	16	0.95
47305990--47306016	3	9.0	3	100	0	54	66	0	0	33	0.92
47307739--47308259	44	11.8	44	69	8	252	29	19	20	30	1.97
47307925--47308169	133	1.8	133	83	5	325	30	20	20	29	1.97
47307735--47308311	221	2.6	221	86	1	818	29	18	20	31	1.96
47308284--47308627	44	7.5	44	68	13	119	29	24	18	27	1.98
47308457--47308629	44	3.9	44	78	4	170	28	26	17	26	1.98
47314420--47314448	4	7.2	4	100	0	58	51	24	0	24	1.48
47318887--47318959	18	4.2	16	74	22	60	68	2	0	28	1.03
47318842--47319148	10	33.0	9	69	19	79	59	3	1	34	1.27
47319764--47320017	9	27.7	9	70	17	130	32	1	3	63	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47319800--47319909	58	1.9	58	83	3	141	32	0	3	63	1.12
47319964--47320015	19	2.8	18	77	5	59	36	1	0	61	1.07
47322064--47322197	40	3.3	40	85	0	169	23	17	25	33	1.96
47326974--47327012	20	2.0	20	94	0	69	46	15	15	23	1.83
47327074--47327182	23	4.8	22	83	7	130	33	20	22	22	1.97
47327060--47327182	45	2.7	44	86	6	165	31	21	22	23	1.98
47329018--47329059	20	2.1	20	86	0	57	19	26	16	38	1.92
47329269--47329310	23	2.0	21	86	13	59	23	16	21	38	1.93
47331228--47331341	35	3.3	35	69	7	106	17	21	20	40	1.91
47331259--47331373	34	3.4	34	69	7	115	19	21	17	41	1.90
47331228--47331390	69	2.4	69	94	0	281	19	23	19	38	1.93
47331576--47331629	27	2.0	27	85	3	74	12	7	38	40	1.72
47331591--47331642	27	1.9	27	84	0	68	17	9	36	36	1.82
47337961--47337985	12	2.1	12	100	0	50	48	16	8	28	1.74
47340235--47340396	57	2.8	57	78	5	137	32	23	14	29	1.95
47349127--47349192	34	1.9	34	87	0	96	53	24	0	22	1.47
47353131--47353190	26	2.3	27	91	8	106	28	20	31	20	1.97
47354193--47354284	29	3.2	29	82	14	118	27	13	28	31	1.93
47360105--47360150	23	2.0	23	95	0	83	23	8	23	43	1.82
47360634--47360763	50	2.6	51	87	4	192	36	16	21	26	1.94
47360739--47360825	31	2.8	31	92	0	147	25	19	28	26	1.99
47360852--47360971	46	2.6	46	85	5	154	29	15	25	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47360943--47361040	42	2.3	42	91	3	153	31	14	26	27	1.95
47360943--47361054	42	2.7	42	84	8	147	31	14	25	28	1.95
47361031--47361116	42	2.0	42	100	0	172	41	13	20	23	1.88
47370148--47370209	30	2.1	30	90	0	97	27	3	8	61	1.40
47370334--47370366	11	2.8	12	90	9	50	69	0	0	30	0.88
47372011--47372050	22	1.9	22	85	10	57	37	17	7	37	1.78
47384701--47384753	28	2.0	27	88	7	81	39	13	16	30	1.87
47385990--47386021	12	2.4	14	90	10	50	62	0	0	37	0.95
47393568--47393620	21	2.5	21	93	0	88	28	18	24	28	1.98
47400131--47400156	13	2.0	13	100	0	52	23	30	38	7	1.83
47402498--47402577	19	4.3	19	88	6	128	37	17	8	36	1.81
47403050--47403322	87	3.1	86	65	19	204	26	20	20	33	1.97
47403099--47403379	86	3.2	86	67	21	249	25	19	21	33	1.97
47403041--47403374	175	1.9	175	92	1	562	26	20	20	32	1.97
47403418--47403974	84	6.8	86	70	15	364	24	21	22	31	1.98
47403466--47403606	41	3.4	42	70	12	137	26	20	21	31	1.98
47403576--47403712	68	2.0	68	92	2	231	20	23	21	35	1.96
47403644--47403976	84	4.0	83	84	6	442	24	21	23	30	1.99
47405280--47405378	42	2.3	42	82	5	119	33	23	16	27	1.95
47405269--47405418	43	3.5	42	79	8	126	30	25	18	26	1.98
47408164--47408257	48	1.9	48	85	6	127	32	28	14	23	1.94
47410289--47410417	46	2.8	46	82	10	165	23	20	27	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47417685--47417857	46	3.7	46	79	10	199	21	20	27	30	1.98
47417682--47417852	93	1.8	93	92	0	288	21	20	28	29	1.98
47425530--47425559	6	5.0	6	91	0	51	16	3	0	80	0.85
47428300--47428461	24	6.8	24	73	6	123	24	14	29	32	1.94
47428300--47428460	48	3.4	47	74	5	144	24	14	29	32	1.94
47428756--47428848	45	2.1	45	100	0	186	17	11	19	51	1.75
47430107--47430163	27	2.1	27	100	0	114	31	19	14	35	1.91
47435127--47435305	46	3.9	46	91	1	270	41	13	22	22	1.89
47440134--47440193	25	2.3	26	86	8	79	60	6	6	26	1.47
47440195--47440220	9	2.9	9	100	0	52	80	19	0	0	0.71

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