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: 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  133  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)
40246281--40246449	40	4.2	40	80	4	173	23	26	21	28	1.99
40250537--40250719	24	7.6	24	94	0	285	36	25	17	20	1.94
40250515--40250719	72	2.8	72	88	1	286	35	24	17	22	1.95
40254274--40254302	13	2.2	13	100	0	58	31	0	13	55	1.39
40254619--40254652	18	1.9	18	88	5	52	61	5	5	26	1.42
40255330--40255377	20	2.5	20	86	3	62	64	2	6	27	1.28
40255372--40255434	27	2.3	26	76	10	63	50	11	0	38	1.38
40255401--40255430	15	2.0	15	93	0	51	40	10	0	50	1.36
40268092--40268336	49	4.9	49	82	3	310	30	26	16	26	1.97
40272461--40272566	44	2.5	44	89	6	155	21	16	28	33	1.96
40272461--40272618	42	3.7	42	80	9	149	23	16	27	32	1.96
40278850--40278901	15	3.2	15	73	19	50	44	0	1	53	1.11
40278934--40278970	16	2.3	16	86	13	58	40	0	0	59	0.97
40278980--40279037	22	2.7	22	84	5	66	51	0	0	48	1.00
40280723--40280775	24	2.1	24	83	13	63	60	3	13	22	1.49
40280834--40280875	22	1.9	22	85	9	59	50	2	9	38	1.48
40285589--40285634	20	2.2	21	84	3	58	71	4	0	23	1.03
40285606--40285634	10	2.9	10	100	0	58	79	0	0	20	0.74
40285761--40285817	17	3.2	18	83	11	73	66	0	1	31	1.02
40285902--40285950	20	2.3	21	82	10	64	59	6	0	34	1.22
40285833--40285987	48	3.2	47	72	19	129	57	3	1	38	1.23
40285900--40285998	38	2.6	37	76	12	103	59	4	0	36	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40286572--40286645	10	7.9	9	76	13	69	28	1	2	67	1.12
40286572--40286645	19	3.9	18	74	13	69	28	1	2	67	1.12
40286572--40286641	29	2.5	27	84	6	86	27	1	2	68	1.12
40286618--40286681	20	3.3	19	76	8	58	31	3	6	59	1.38
40286580--40286692	29	3.9	28	71	11	84	31	2	3	61	1.26
40286930--40286963	17	1.9	18	94	5	61	55	5	11	26	1.58
40288344--40288393	10	5.0	10	83	9	66	70	2	6	22	1.20
40288407--40288443	13	2.8	13	87	4	56	45	10	0	43	1.39
40289066--40289247	96	1.9	97	88	1	276	31	25	14	27	1.95
40290302--40290345	12	3.6	12	77	17	54	72	0	4	22	1.02
40290318--40290383	5	12.4	5	76	20	55	77	0	3	19	0.90
40290302--40290383	25	3.1	25	80	14	94	75	0	3	20	0.95
40290311--40290385	12	6.2	12	74	20	52	76	0	2	21	0.92
40290311--40290382	16	4.4	17	81	15	89	76	0	2	20	0.91
40294019--40294078	10	6.0	10	82	7	68	68	3	6	21	1.28
40294092--40294129	13	2.8	13	88	4	58	44	13	0	42	1.43
40294402--40294471	19	3.9	18	71	17	56	35	0	4	60	1.17
40295049--40295121	20	3.7	20	73	8	69	42	19	6	31	1.77
40304571--40304673	42	2.4	42	79	9	102	30	19	22	28	1.98
40306513--40306687	98	1.8	95	86	6	253	25	29	18	26	1.98
40306610--40306868	46	5.5	47	78	13	241	25	29	16	28	1.97
40306510--40306874	94	3.9	92	78	12	300	25	29	18	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40306508--40306832	46	6.9	47	75	14	235	25	29	17	27	1.97
40316465--40316564	51	2.0	51	85	0	137	24	19	28	29	1.98
40319886--40319963	33	2.4	32	80	6	84	34	17	23	24	1.96
40321272--40321347	38	2.0	38	97	0	143	28	13	22	35	1.92
40322728--40322765	16	2.4	16	95	0	67	23	13	34	28	1.92
40323521--40323749	46	5.0	46	87	3	291	22	24	14	38	1.92
40323521--40323749	93	2.5	92	85	3	307	22	24	14	38	1.92
40327155--40327321	40	4.2	40	81	2	176	24	27	22	25	2.00
40327171--40327321	80	1.9	79	83	6	198	23	27	22	25	2.00
40328146--40328191	17	2.5	19	74	22	53	34	23	17	23	1.96
40335157--40335322	40	4.2	39	81	3	172	24	27	22	25	2.00
40335173--40335322	79	1.9	79	84	5	205	24	27	22	26	2.00
40336147--40336192	17	2.5	19	74	22	53	34	23	17	23	1.96
40338705--40338912	40	5.2	40	84	4	233	25	22	26	25	2.00
40346738--40346945	40	5.2	40	84	4	233	25	22	26	25	2.00
40352206--40352407	40	5.1	40	93	2	311	28	28	20	22	1.99
40367189--40367257	30	2.3	30	92	0	111	24	34	21	18	1.96
40370008--40370174	40	4.2	40	82	2	185	25	27	21	25	1.99
40370008--40370174	80	2.1	79	83	7	205	25	27	21	25	1.99
40370999--40371044	17	2.5	19	74	22	53	34	23	17	23	1.96
40378016--40378182	40	4.2	40	82	2	185	25	27	21	25	1.99
40378016--40378182	80	2.1	79	83	7	205	25	27	21	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40379006--40379051	17	2.5	19	74	22	53	34	23	17	23	1.96
40382256--40382295	21	1.9	21	84	0	53	25	30	35	10	1.88
40383232--40383258	2	13.5	2	100	0	54	48	0	0	51	1.00
40383506--40383741	48	4.9	48	77	6	226	24	30	18	27	1.98
40383506--40383732	98	2.4	96	79	9	250	23	29	18	27	1.98
40387035--40387166	44	3.0	42	79	5	122	35	21	16	25	1.95
40387004--40387162	43	3.7	43	77	4	142	32	24	17	25	1.97
40393355--40393513	27	5.9	27	82	11	184	34	22	24	18	1.96
40393373--40393513	54	2.6	54	93	2	239	34	23	24	17	1.96
40395125--40395232	26	4.2	26	93	0	189	36	24	7	32	1.83
40400471--40400629	27	5.9	27	82	11	184	34	22	24	18	1.96
40400489--40400629	54	2.6	54	93	2	239	34	23	24	17	1.96
40402252--40402359	26	4.2	26	93	0	189	36	24	7	32	1.83
40405696--40405757	31	2.0	31	96	0	115	59	20	6	12	1.55
40411412--40411463	25	2.1	25	100	0	104	44	19	25	11	1.84
40416337--40416543	24	8.6	24	96	0	342	36	25	17	20	1.95
40423124--40423292	40	4.2	40	80	4	173	23	26	21	28	1.99
40431427--40431556	46	2.8	48	81	11	171	29	29	20	20	1.98
40431432--40431575	46	3.1	45	75	11	148	29	29	20	20	1.98
40433940--40434027	29	3.0	29	80	8	97	56	15	17	10	1.66
40433940--40434018	15	5.4	15	77	10	83	58	13	17	10	1.63
40433951--40434027	15	5.2	15	75	9	77	55	15	16	11	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40436935--40437106	93	1.8	93	96	0	317	27	30	22	20	1.98
40436927--40437102	46	3.8	46	81	10	232	28	29	21	20	1.98
40438931--40438985	28	1.9	29	92	3	94	12	21	45	20	1.84
40441124--40441285	81	2.0	81	100	0	324	39	9	22	28	1.86
40443656--40443783	42	3.0	42	87	5	132	25	19	28	26	1.99
40443683--40443783	42	2.4	43	93	1	168	23	19	29	26	1.98
40448229--40448258	15	2.1	15	93	6	53	30	6	26	36	1.82
40449922--40450086	43	3.9	43	84	4	183	24	20	30	24	1.99
40456812--40456891	29	2.8	29	92	0	124	18	23	38	18	1.93
40483344--40483501	68	2.3	68	78	9	167	20	29	15	34	1.93
40502105--40502177	25	3.0	24	75	13	67	30	17	21	30	1.97
40507045--40507094	23	2.2	23	100	0	100	38	26	28	8	1.84
40511403--40511473	21	3.3	22	75	7	58	42	18	16	22	1.89
40511849--40511957	28	3.9	28	75	8	87	53	9	13	23	1.69
40513352--40513393	22	2.0	21	85	4	57	45	4	0	50	1.23
40516840--40516883	22	2.0	22	86	0	61	36	0	4	59	1.18
40521924--40521969	22	2.1	22	100	0	92	36	28	4	30	1.76
40522551--40522590	21	1.9	21	94	0	71	22	30	25	22	1.99
40526098--40526135	19	2.1	18	85	14	51	55	5	2	36	1.37
40526118--40526167	7	7.0	7	79	2	55	52	2	0	46	1.12
40526308--40526345	2	19.0	2	100	0	76	50	0	0	50	1.00
40527158--40527199	13	3.2	13	74	12	50	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40535498--40535532	16	2.2	16	94	0	61	74	2	0	22	0.95
40536183--40536223	22	1.9	21	85	5	55	26	2	17	53	1.56
40542829--40542891	30	2.1	30	100	0	126	31	12	23	31	1.92
40544123--40544378	80	3.2	80	87	3	358	24	22	26	25	2.00
40544123--40544352	40	5.8	40	91	1	338	23	22	27	26	2.00
40548314--40548511	43	4.6	43	96	0	351	30	33	24	11	1.90
40548504--40548587	38	2.2	38	82	0	105	33	25	20	21	1.97
40552337--40552462	45	2.9	44	82	10	127	23	28	23	24	1.99
40552779--40552983	41	4.9	43	92	4	314	30	32	24	12	1.93
40552779--40552983	83	2.5	84	88	6	310	30	32	24	12	1.93

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