genome.fa.s4.2.7.7.80.10.50.1000.133.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: A04
Parameters: 2 7 7 80 10 50 1000
Length:  82679320

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   

This is table  133  of  255  ( 30512 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)
42710828--42710865	4	9.5	4	100	0	76	50	23	0	26	1.50
42714853--42714896	6	7.5	6	94	5	81	68	31	0	0	0.90
42714847--42714896	18	2.8	18	90	3	66	70	28	0	2	0.99
42720570--42720683	59	1.9	59	98	0	219	28	15	15	39	1.89
42721740--42721788	22	2.3	21	85	3	71	24	34	28	12	1.91
42725988--42726026	19	2.1	19	85	9	53	33	0	2	64	1.08
42726075--42726110	16	2.2	16	90	0	54	27	0	2	69	1.02
42726077--42726126	20	2.5	20	80	0	64	24	0	4	72	1.02
42729690--42729782	48	1.9	48	100	0	186	25	19	19	35	1.95
42737066--42737133	29	2.3	29	85	5	93	27	30	13	27	1.94
42736955--42737282	174	1.9	174	96	0	611	31	24	14	29	1.94
42737235--42737313	29	2.7	30	80	13	101	31	30	12	25	1.93
42740181--42740220	21	2.0	21	90	5	64	20	27	40	12	1.88
42741448--42741761	46	6.7	47	75	9	216	25	28	18	26	1.98
42751421--42751500	42	1.9	42	97	0	151	43	11	12	32	1.78
42754319--42754353	15	2.3	15	90	9	54	14	0	17	68	1.21
42756259--42756436	40	4.5	39	81	7	189	21	23	28	25	1.99
42756259--42756436	80	2.2	80	87	3	243	21	23	28	25	1.99
42764226--42764443	40	5.5	40	86	2	262	23	22	28	26	1.99
42775321--42775661	168	2.0	168	94	1	603	23	15	24	36	1.93
42777595--42777646	21	2.5	21	96	0	95	40	11	25	23	1.88
42781157--42781215	29	2.0	30	86	3	84	37	5	27	30	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42791987--42792024	20	1.9	20	94	0	67	44	0	0	55	0.99
42795091--42795132	20	2.0	21	90	4	68	30	30	2	35	1.71
42800363--42800878	255	2.0	255	99	0	1023	37	20	9	32	1.85
42803548--42803689	57	2.5	59	85	5	175	31	21	19	27	1.97
42810242--42810295	25	2.2	25	89	0	81	29	20	22	27	1.98
42810248--42810308	25	2.4	25	91	0	95	26	22	21	29	1.99
42810248--42810320	25	2.9	25	87	0	74	28	20	21	28	1.98
42812447--42812541	48	2.0	48	87	8	140	33	30	17	17	1.94
42813755--42813898	40	3.6	40	85	3	209	25	23	26	24	2.00
42813755--42813934	80	2.3	79	88	3	256	25	23	26	25	2.00
42816197--42816239	22	2.0	22	81	9	52	46	6	34	11	1.67
42820989--42821132	40	3.6	40	83	3	191	26	22	25	25	2.00
42820989--42821168	80	2.3	78	85	3	227	26	22	25	25	2.00
42828525--42828660	68	2.0	68	100	0	272	23	38	8	29	1.85
42831587--42831830	122	2.0	122	99	0	479	31	34	13	20	1.91
42843693--42843870	27	6.6	26	82	6	178	26	15	28	29	1.96
42843694--42843849	82	1.9	81	86	3	224	26	15	28	29	1.96
42843690--42843870	82	2.2	81	82	2	220	27	15	27	29	1.96
42843775--42843881	27	3.9	27	86	1	88	26	14	28	30	1.95
42849629--42849830	88	2.3	88	92	0	332	27	17	24	30	1.97
42849814--42850691	44	20.4	44	85	4	1103	29	16	30	22	1.96
42850132--42850199	34	2.0	34	94	0	118	35	20	29	14	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42849814--42850691	172	5.1	172	85	4	1033	29	16	30	22	1.96
42850986--42851025	8	4.8	8	88	11	62	85	0	12	2	0.71
42850986--42851025	9	4.6	9	84	3	55	85	0	12	2	0.71
42850986--42851025	18	2.3	18	91	8	66	85	0	12	2	0.71
42851206--42851243	19	2.0	19	94	0	67	31	23	10	34	1.89
42851326--42851363	19	2.0	19	94	0	67	34	10	23	31	1.89
42851696--42851720	11	2.3	11	100	0	50	68	8	0	24	1.16
42852246--42852285	19	2.0	20	86	13	57	77	2	5	15	1.04
42852529--42852571	8	5.2	8	81	15	52	9	6	0	83	0.80
42853051--42853090	20	2.0	20	100	0	80	15	35	5	45	1.68
42854359--42854412	28	1.9	28	92	0	90	22	27	0	50	1.50
42854799--42854851	16	3.3	16	75	17	56	43	15	0	41	1.46
42855164--42855336	86	2.0	86	100	0	346	28	24	6	39	1.81
42858649--42858806	27	5.9	27	78	11	146	36	21	22	19	1.95
42858649--42858806	54	2.9	54	85	2	194	36	21	22	19	1.95
42880306--42880653	40	8.7	40	97	0	633	28	20	28	22	1.98
42888972--42889319	40	8.7	40	97	0	633	28	20	28	22	1.98
42901107--42901204	27	3.5	28	90	2	135	26	13	28	31	1.94
42901135--42901217	27	3.0	27	87	5	96	30	12	25	32	1.92
42901107--42901218	28	4.0	27	83	6	98	28	12	25	33	1.92
42909421--42909518	27	3.5	28	90	2	135	26	13	28	31	1.94
42909449--42909531	27	3.0	27	87	5	96	30	12	25	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42909421--42909532	28	4.0	27	83	6	98	28	12	25	33	1.92
42916808--42916832	3	8.3	3	100	0	50	36	0	0	64	0.94
42917119--42917159	9	4.7	9	77	17	50	68	0	4	26	1.10
42917519--42917586	20	3.4	21	72	9	63	27	2	2	66	1.21
42917571--42917638	27	2.5	28	81	11	70	39	2	0	57	1.14
42924299--42924359	29	2.1	31	81	9	74	26	13	13	47	1.79
42924975--42925000	9	2.9	9	100	0	52	7	11	0	80	0.89
42940286--42940466	79	2.3	81	83	7	219	24	27	22	25	2.00
42940286--42940466	40	4.6	40	83	6	217	24	27	22	25	2.00
42948503--42948726	40	5.7	40	85	4	258	25	28	20	25	1.99
42948503--42948672	39	4.3	39	90	3	243	25	28	20	24	1.99
42948503--42948672	79	2.2	79	90	2	261	25	28	20	24	1.99
42948503--42948726	79	2.8	79	84	2	252	25	28	20	25	1.99
42951667--42951741	26	2.9	26	91	0	132	36	25	5	33	1.79
42955560--42955737	27	6.6	27	77	6	137	30	28	15	25	1.96
42955560--42955737	54	3.3	54	78	7	164	30	28	15	25	1.96
42972345--42972836	245	2.0	245	97	0	930	27	30	16	25	1.97
42983599--42983830	40	5.8	40	92	1	306	27	27	20	24	1.99
42986693--42987114	40	10.8	40	89	5	641	22	27	19	29	1.98
42986756--42987114	189	1.9	190	94	0	630	23	27	19	28	1.98
42995665--42996134	40	11.8	40	93	1	775	23	27	19	29	1.98
42995665--42996134	198	2.4	199	93	1	800	23	27	19	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43002349--43002374	7	3.7	7	100	0	52	15	0	26	57	1.38
43002611--43002673	32	2.0	32	100	0	126	26	6	15	50	1.68
43009389--43009456	25	2.9	23	73	10	66	63	1	2	32	1.18
43009975--43009999	13	1.9	13	100	0	50	40	16	0	44	1.47
43010809--43010846	18	2.2	18	90	4	60	18	0	7	73	1.06
43012653--43012811	27	5.9	27	81	10	164	35	21	23	19	1.96
43012671--43012814	54	2.7	54	93	2	236	35	22	23	18	1.96
43012917--43012979	26	2.3	26	83	5	72	30	11	25	33	1.90
43019671--43019829	27	5.9	27	83	10	182	34	22	24	18	1.96
43019689--43019832	54	2.7	54	95	2	254	34	23	24	17	1.96
43021416--43021521	26	4.1	26	95	0	194	36	26	6	30	1.82
43022204--43022235	13	2.3	15	89	10	50	40	3	18	37	1.67
43023000--43023027	10	2.8	10	100	0	56	10	28	10	50	1.71
43023151--43023181	13	2.4	13	94	0	53	29	48	9	12	1.73
43032880--43033029	67	2.2	67	81	8	171	32	17	28	21	1.96
43032904--43033087	67	2.8	64	77	8	194	29	17	29	22	1.97
43044486--43044520	15	2.4	14	86	9	52	40	0	14	45	1.45
43051950--43052009	29	2.1	29	100	0	120	51	13	3	31	1.57
43053272--43053363	42	2.2	42	92	0	148	33	14	22	29	1.93
43053272--43053393	42	2.9	42	86	1	136	31	15	24	28	1.96
43053595--43053624	15	1.9	16	93	6	53	33	0	26	40	1.57
43054566--43054619	20	2.7	19	75	11	54	20	38	27	12	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43056248--43056568	95	3.4	96	75	12	297	23	30	18	27	1.98
43056440--43056565	46	2.7	46	87	4	173	21	33	19	26	1.97
43056242--43056561	145	2.3	138	79	13	339	23	30	18	27	1.98
43057287--43057319	5	6.6	5	100	0	66	39	0	0	60	0.97
43059067--43059091	12	2.1	12	100	0	50	16	24	20	40	1.91
43059069--43059171	45	2.3	45	88	3	145	20	18	19	41	1.90
43072717--43072854	40	3.4	40	79	12	156	21	21	29	27	1.98
43073557--43073586	15	2.0	15	100	0	60	26	0	46	26	1.53
43075716--43075777	31	2.0	31	96	0	115	12	17	22	46	1.82
43077667--43077777	40	2.7	41	79	6	109	21	11	28	37	1.89

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