genome.fa.s4.2.7.7.80.10.50.1000.175.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: Chr04 98600468 
Parameters: 2 7 7 80 10 50 1000
Length:  98600468

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   

This is table  175  of  325  ( 38914 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)
53816566--53816643	29	2.7	29	81	0	93	21	32	17	28	1.96
53821047--53821231	79	2.3	80	82	9	209	24	27	23	24	2.00
53821040--53821231	40	4.8	40	76	7	151	24	27	22	25	2.00
53823357--53823579	58	3.9	58	77	6	179	29	14	29	27	1.95
53823361--53823491	29	4.5	29	87	1	174	27	16	31	25	1.96
53823479--53823579	28	3.5	28	86	6	114	29	13	26	29	1.94
53825523--53825686	58	2.8	58	81	4	179	28	15	30	26	1.96
53825523--53825653	29	4.5	29	87	3	176	27	16	30	25	1.96
53825672--53825741	29	2.4	29	88	6	99	30	15	24	30	1.96
53825670--53825741	28	2.5	28	86	6	101	30	15	25	29	1.96
53827648--53827750	29	3.6	29	81	2	118	21	16	33	29	1.95
53831048--53831198	40	3.8	40	77	13	134	27	23	26	22	2.00
53831084--53831214	40	3.3	40	79	2	156	25	23	27	23	2.00
53833006--53833047	21	2.0	21	90	0	66	38	0	9	52	1.34
53835420--53835585	40	4.2	40	82	3	176	24	27	22	26	2.00
53839140--53839388	50	5.0	50	79	8	274	27	16	26	30	1.96
53839598--53839628	16	1.9	16	93	0	53	45	0	19	35	1.51
53839957--53840282	179	1.8	179	91	1	537	37	9	20	32	1.85
53839957--53840293	180	1.9	178	90	2	532	38	9	19	32	1.84
53844220--53844403	40	4.6	40	86	2	253	25	24	26	23	2.00
53849232--53849313	27	3.0	28	92	7	143	18	10	25	45	1.82
53850933--53850970	20	1.9	20	88	0	58	52	10	2	34	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53857222--53857311	26	3.4	27	85	11	125	21	8	24	45	1.80
53857225--53857311	27	3.3	26	86	10	124	20	9	24	45	1.80
53857234--53857314	27	3.0	27	87	8	130	19	11	23	45	1.82
53858944--53858981	20	1.9	20	94	0	67	55	10	0	34	1.34
53863252--53863435	40	4.6	40	86	2	262	25	24	26	23	2.00
53865254--53865298	15	3.0	15	90	0	72	13	17	13	55	1.69
53865254--53865312	30	2.0	30	82	0	73	15	18	11	54	1.71
53866989--53867160	93	1.8	93	92	2	292	26	30	20	21	1.98
53866981--53867155	46	3.8	46	77	8	203	27	30	20	21	1.98
53867032--53867175	46	3.1	46	71	14	116	28	29	20	22	1.98
53869481--53869557	31	2.5	31	93	0	136	23	28	18	29	1.97
53869776--53869844	25	2.8	25	82	4	77	24	23	23	28	1.99
53869881--53869914	2	17.0	2	100	0	68	50	0	0	50	1.00
53869911--53869945	10	3.4	10	88	7	52	34	14	17	34	1.90
53869911--53869950	21	1.9	21	89	0	62	32	12	17	37	1.87
53869913--53869958	21	2.2	21	84	0	56	36	15	15	32	1.88
53877417--53877502	31	2.8	30	87	5	120	23	26	17	32	1.96
53877721--53877789	25	2.8	25	88	0	102	26	23	24	26	2.00
53877840--53877874	10	3.4	10	88	7	52	31	17	14	37	1.89
53877840--53877879	21	1.9	21	89	0	62	32	15	15	37	1.88
53877842--53877887	21	2.2	21	84	0	56	36	17	13	32	1.88
53880141--53880210	27	2.5	28	88	2	106	28	14	25	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53880141--53880222	27	3.0	27	80	8	103	29	13	23	34	1.93
53888056--53888125	27	2.5	28	88	2	106	28	14	25	31	1.95
53888056--53888137	27	3.0	27	80	8	103	29	13	23	34	1.93
53892243--53892301	30	2.0	30	82	0	73	40	6	27	25	1.80
53892919--53893158	50	4.7	50	80	4	232	26	17	25	30	1.97
53892919--53893152	101	2.3	102	82	0	290	26	17	24	30	1.97
53893161--53893244	26	3.3	26	61	15	66	26	17	23	32	1.97
53893021--53893295	137	2.0	137	89	0	415	26	17	25	30	1.97
53893160--53893349	50	3.8	50	87	2	247	27	17	25	29	1.97
53893548--53893579	16	2.0	16	93	0	55	46	0	18	34	1.49
53898063--53898089	14	1.9	14	100	0	54	22	7	7	62	1.46
53898522--53898546	13	1.9	13	100	0	50	44	0	8	48	1.32
53903945--53903987	17	2.5	17	84	3	50	18	6	4	69	1.29
53906409--53906435	14	1.9	14	100	0	54	22	7	7	62	1.46
53906868--53906892	13	1.9	13	100	0	50	44	0	8	48	1.32
53910031--53910218	39	4.8	39	87	0	214	23	30	21	23	1.99
53910070--53910219	39	3.8	39	91	0	237	24	30	20	24	1.99
53910036--53910218	78	2.3	79	87	1	251	22	30	22	24	1.99
53921531--53921726	29	6.7	30	84	2	172	23	23	12	40	1.89
53921529--53921726	58	3.4	58	80	1	218	24	23	12	39	1.89
53926341--53926418	37	2.1	37	100	0	156	20	32	19	28	1.97
53926529--53926741	49	4.3	49	96	0	399	29	33	9	27	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53929838--53930013	46	3.8	46	75	14	182	22	19	27	29	1.98
53929834--53930004	93	1.8	93	89	2	272	22	19	28	28	1.98
53932948--53933009	15	4.2	15	80	10	65	11	19	12	56	1.66
53946347--53946553	49	4.3	47	90	2	270	28	31	8	30	1.87
53952427--53952554	29	4.4	29	79	2	132	36	9	25	28	1.87
53952507--53952613	29	3.7	29	82	7	119	38	13	27	21	1.90
53958322--53958381	16	3.8	16	74	12	61	45	1	1	51	1.21
53960568--53960624	22	2.8	22	82	15	61	36	1	0	61	1.07
53969080--53969178	28	3.5	28	79	6	101	29	27	15	28	1.96
53976730--53976828	28	3.5	28	79	6	101	29	27	15	28	1.96
53976820--53976877	29	2.0	29	100	0	116	31	13	17	37	1.89
53981687--53981814	37	3.4	37	95	1	220	25	32	17	24	1.97
53981854--53982005	48	3.2	48	87	0	232	30	26	6	35	1.82
53981997--53982185	49	3.9	49	96	2	355	30	28	8	32	1.87
53981997--53982185	96	1.9	97	96	2	353	30	28	8	32	1.87
53983947--53984103	39	4.0	39	89	5	237	27	19	31	21	1.98
53983949--53984147	39	5.1	39	87	3	202	24	19	31	24	1.98
53988110--53988285	46	3.8	46	79	12	216	20	21	29	28	1.98
53988107--53988278	93	1.8	93	96	0	317	20	21	29	27	1.98
53991462--53991645	40	4.6	39	75	6	138	26	23	27	22	2.00
53991502--53991690	80	2.4	81	77	4	186	23	24	29	22	1.99
53996908--53997083	46	3.8	46	79	12	216	20	21	29	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53996905--53997076	93	1.8	93	96	0	317	20	21	29	27	1.98
54000114--54000200	40	2.2	40	82	0	111	20	26	26	26	1.99
54000716--54000767	25	2.1	25	82	7	61	28	32	9	28	1.89
54000943--54001214	40	6.8	40	96	0	481	26	27	19	26	1.99
54003014--54003143	40	3.3	40	86	5	167	25	29	21	23	1.99
54006284--54006411	37	3.4	37	95	1	220	25	32	17	24	1.97
54006451--54006602	48	3.2	48	88	0	241	30	27	6	34	1.82
54006435--54006733	96	3.1	97	79	10	271	32	28	7	32	1.84
54006594--54006735	47	3.0	47	96	2	257	30	28	8	31	1.87
54012343--54012574	40	5.8	40	92	1	376	22	28	24	24	2.00
54015689--54015816	40	3.2	40	92	2	195	25	21	26	25	2.00
54015689--54015854	80	2.1	79	81	7	185	26	20	26	26	1.99
54023721--54023902	40	4.5	40	83	6	208	24	21	27	25	2.00
54023721--54023907	81	2.3	81	82	7	229	24	21	27	26	1.99
54023721--54023930	40	5.2	40	76	12	173	25	20	27	26	1.99
54027459--54027599	39	3.6	39	79	8	142	26	26	22	23	2.00
54035446--54035629	40	4.7	40	83	7	180	27	27	21	23	1.99
54043472--54043660	40	4.7	40	80	7	240	25	26	22	25	2.00
54043472--54043656	80	2.3	80	88	1	282	25	27	22	24	2.00
54058690--54058824	29	4.7	29	86	3	155	23	31	15	29	1.95
54058636--54058825	58	3.3	58	77	4	179	24	33	16	26	1.96
54066674--54066808	29	4.7	29	86	3	155	23	31	15	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54066620--54066809	58	3.3	58	77	4	179	24	33	16	26	1.96
54074185--54074259	25	3.0	25	84	0	105	30	21	21	26	1.98
54078866--54078934	28	2.5	28	95	2	122	44	26	10	18	1.81
54083100--54083168	28	2.5	28	92	2	113	43	26	10	20	1.83
54087474--54087665	40	4.8	40	86	1	224	22	27	24	25	2.00
54096486--54096584	28	3.5	29	83	6	114	30	27	15	27	1.96
54099350--54099893	49	11.3	49	93	3	874	32	8	29	29	1.86
54102901--54103117	48	4.5	48	78	2	193	27	29	17	26	1.97
54102899--54103129	96	2.4	96	77	1	239	26	29	16	27	1.97
54116029--54116092	29	2.2	29	83	2	85	31	18	28	21	1.97

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