genome.fa.s4.2.7.7.80.10.50.1000.178.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  178  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)
54821242--54821339	32	3.2	32	68	24	100	44	22	2	30	1.64
54822927--54822965	19	2.1	19	100	0	78	35	5	15	43	1.69
54824277--54824348	27	2.7	27	80	0	99	30	9	16	43	1.80
54825680--54825851	46	3.7	46	80	13	201	29	29	18	22	1.97
54825686--54825857	93	1.8	93	90	2	274	29	29	19	22	1.98
54825680--54825873	46	4.2	46	72	15	159	29	29	19	22	1.98
54827145--54827239	27	3.5	27	76	2	102	36	7	13	42	1.73
54833672--54833878	53	3.8	55	77	4	206	19	23	18	38	1.93
54835755--54835957	39	5.1	40	83	8	238	24	22	28	25	1.99
54835756--54835971	79	2.7	79	80	10	237	25	22	27	24	2.00
54847141--54847325	39	4.7	41	83	9	215	24	22	27	25	2.00
54847142--54847343	79	2.5	80	80	10	236	24	22	27	24	2.00
54849099--54849199	28	3.5	28	86	6	114	29	13	26	29	1.94
54857046--54857146	28	3.5	28	86	6	114	29	13	26	29	1.94
54863377--54863431	25	2.1	28	83	10	71	36	0	18	45	1.49
54866704--54866776	29	2.5	29	84	0	92	27	28	12	31	1.93
54867007--54867045	8	4.9	8	100	0	78	10	25	25	38	1.87
54875425--54875591	40	4.2	40	79	2	158	23	27	22	26	2.00
54877322--54877403	29	2.9	29	75	8	78	28	31	10	29	1.91
54879685--54879777	28	3.3	28	84	11	127	23	32	16	27	1.96
54879685--54879788	28	3.7	28	76	19	108	24	32	16	26	1.96
54883483--54883689	48	4.3	47	80	7	211	27	16	30	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54883483--54883689	96	2.2	95	82	6	240	27	16	30	25	1.97
54886815--54886981	40	4.2	40	79	6	169	26	22	26	24	2.00
54894018--54894185	40	4.2	40	80	3	169	26	22	26	24	2.00
54897143--54897340	49	4.0	49	84	6	222	24	17	29	28	1.97
54897144--54897330	99	1.9	99	86	2	268	24	17	29	28	1.97
54899387--54899419	17	2.0	17	88	5	50	57	18	0	24	1.40
54901689--54901728	21	2.0	20	85	14	55	27	0	22	50	1.50
54906889--54907065	46	3.8	47	75	14	188	22	19	28	29	1.98
54906887--54907058	93	1.8	93	91	4	285	22	20	28	28	1.99
54919103--54919273	25	7.1	23	87	8	243	28	22	21	28	1.99
54919325--54919430	20	5.3	20	95	0	194	32	19	12	35	1.89
54919467--54919514	25	1.9	25	86	0	69	25	16	25	33	1.96
54922223--54922513	24	12.1	24	97	0	528	20	17	25	36	1.94
54923925--54924026	27	3.8	26	71	12	71	23	19	20	36	1.95
54924040--54924325	27	10.6	27	75	6	177	31	10	19	38	1.85
54924131--54924325	81	2.4	81	88	2	277	30	9	21	38	1.85
54924022--54924311	54	5.4	54	76	10	200	30	10	19	39	1.85
54924393--54924474	38	2.2	38	86	0	110	37	7	31	23	1.82
54924304--54924439	27	5.0	27	88	0	182	38	10	24	27	1.87
54924375--54924498	65	1.9	65	88	0	185	33	8	31	25	1.87
54924431--54924498	27	2.5	27	95	0	118	35	5	32	26	1.81
54924495--54924593	27	3.7	27	80	2	92	31	12	17	39	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54927269--54927377	28	4.0	27	75	11	98	18	24	19	37	1.94
54931508--54931623	27	4.3	27	84	9	155	18	24	22	35	1.96
54931508--54931623	55	2.1	54	84	9	155	18	24	22	35	1.96
54932762--54932811	25	2.0	25	100	0	100	16	16	8	60	1.58
54940185--54940253	34	2.0	34	100	0	138	28	5	21	43	1.76
54944452--54944483	3	10.7	3	93	0	55	28	0	3	68	1.04
54948111--54948180	27	2.6	27	93	2	113	30	28	14	27	1.95
54951430--54951500	28	2.5	28	86	4	90	30	29	14	25	1.94
54958258--54958424	40	4.2	40	82	3	185	23	26	22	26	2.00
54958274--54958383	39	2.8	39	87	4	141	23	29	23	23	1.99
54966229--54966395	40	4.2	40	81	3	176	24	26	22	26	2.00
54971573--54971620	16	2.9	16	77	17	53	31	37	12	18	1.88
54977144--54977223	24	3.5	24	76	10	85	26	18	15	40	1.90
54981435--54981551	49	2.3	49	85	8	148	28	12	30	28	1.93
54984779--54984809	16	1.9	16	93	0	53	9	9	9	70	1.33
54987968--54988198	48	4.9	48	78	9	269	28	25	20	25	1.99
54990522--54990737	46	4.6	46	73	9	168	28	19	28	22	1.98
54990529--54990789	140	1.9	141	85	2	364	28	19	28	23	1.98
54999591--54999638	25	1.9	25	86	0	69	33	25	16	25	1.96
54999686--54999741	11	5.5	11	71	16	57	35	12	19	32	1.89
54999675--54999741	20	3.3	20	93	0	116	34	11	20	32	1.90
54999791--54999957	23	7.1	23	91	2	262	28	21	20	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54999790--54999964	24	7.4	23	90	2	242	28	21	21	28	1.99
54999790--54999953	71	2.3	70	92	1	274	27	21	21	29	1.99
54999790--54999957	47	3.6	46	87	4	255	28	21	20	29	1.98
55000171--55000231	31	2.0	31	90	0	95	32	14	26	26	1.95
55000221--55000248	7	4.0	7	100	0	56	57	0	14	28	1.38
55002018--55002092	28	2.6	28	78	2	87	21	36	20	22	1.96
55002076--55002149	29	2.6	29	95	0	139	27	31	14	27	1.95
55009893--55009967	29	2.6	29	78	4	80	21	36	21	21	1.96
55009951--55010024	29	2.6	29	95	0	139	27	31	14	27	1.95
55018655--55018702	25	1.9	25	86	0	69	33	25	16	25	1.96
55018750--55018805	11	5.5	11	71	16	57	35	12	19	32	1.89
55018739--55018805	20	3.3	20	93	0	116	34	11	20	32	1.90
55018858--55019020	23	7.0	23	92	4	272	27	22	20	29	1.98
55018853--55019027	24	7.4	24	92	3	284	29	21	21	28	1.98
55018853--55019028	71	2.5	70	91	3	289	30	21	21	27	1.98
55018853--55019020	47	3.6	46	91	4	273	29	21	20	28	1.98
55019234--55019294	31	2.0	31	93	0	104	32	16	26	24	1.96
55024347--55024484	68	2.0	68	97	0	258	21	24	17	36	1.94
55027985--55028054	27	2.6	27	95	2	122	30	27	14	28	1.95
55036018--55036087	27	2.6	27	95	2	122	30	27	14	28	1.95
55050608--55050709	28	3.5	29	81	6	109	28	27	14	29	1.95
55058421--55058522	28	3.5	29	81	6	109	28	27	14	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55061493--55061639	78	1.9	79	87	5	217	23	30	24	21	1.99
55061524--55061683	40	4.0	40	75	5	144	23	26	22	27	1.99
55069728--55069915	40	4.7	38	82	11	209	21	29	25	23	1.99
55069696--55069915	120	1.8	119	83	5	291	22	29	25	23	1.99
55069728--55069959	40	5.8	40	76	7	193	21	27	24	25	2.00
55069696--55069958	120	2.2	120	80	4	280	22	27	24	25	2.00
55069728--55069915	80	2.3	80	98	0	358	21	29	25	23	1.99
55070027--55070246	110	2.0	110	100	0	440	34	24	12	28	1.92
55072283--55072462	92	2.0	92	98	0	351	36	10	18	34	1.85
55079873--55079977	48	2.2	47	81	6	113	20	17	27	35	1.94
55080204--55080278	37	2.0	37	97	0	141	29	8	17	45	1.77
55080870--55080945	38	2.0	38	100	0	152	31	5	28	34	1.80
55085795--55086035	120	2.0	120	95	0	428	23	16	22	38	1.93
55089275--55089317	22	2.0	22	90	0	68	30	9	4	55	1.52
55094409--55094434	2	13.0	2	100	0	52	50	0	0	50	1.00
55095683--55095820	61	2.3	61	82	7	165	24	28	15	31	1.95
55098907--55098973	32	2.1	32	100	0	134	41	20	2	34	1.68
55101897--55101987	44	2.1	44	100	0	182	35	16	17	30	1.92
55104894--55105114	45	4.8	45	83	5	228	26	31	17	24	1.97
55112160--55112839	340	2.0	340	97	0	1290	25	18	22	34	1.96
55119506--55119755	40	6.2	40	91	1	385	22	28	24	25	1.99
55126533--55126782	40	6.2	40	91	1	385	22	28	24	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55129013--55129051	21	1.9	21	89	5	62	23	25	35	15	1.94
55130199--55130518	94	3.4	94	73	15	250	23	29	20	27	1.99
55130198--55130558	47	7.7	47	75	16	226	22	28	20	27	1.99
55133598--55133649	26	2.0	26	100	0	104	30	15	11	42	1.82
55137434--55137640	53	3.8	53	75	4	200	37	16	24	21	1.93
55141129--55141326	71	2.8	70	92	3	294	33	17	28	20	1.95
55141195--55141312	41	3.1	41	60	28	98	32	17	28	21	1.96
55141163--55141326	71	2.3	71	100	0	328	35	17	28	18	1.94
55148692--55148889	71	2.8	70	92	3	294	33	17	28	20	1.95
55148758--55148875	41	3.1	41	60	28	98	32	17	28	21	1.96

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