genome.fa.s4.2.7.7.80.10.50.1000.177.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  177  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)
54532578--54532661	15	5.9	14	77	5	62	9	16	16	57	1.65
54549506--54549681	46	3.8	46	79	12	200	19	21	30	29	1.97
54549503--54549674	93	1.8	93	92	4	294	19	21	30	28	1.98
54553060--54553248	96	2.0	96	93	2	326	27	12	18	41	1.86
54555429--54555595	40	4.2	40	78	6	160	25	22	27	24	2.00
54563434--54563584	40	3.8	40	79	6	155	25	22	27	23	2.00
54565625--54565690	20	3.5	20	67	10	57	36	13	15	34	1.87
54565612--54565685	38	1.9	38	94	0	130	31	12	16	40	1.85
54567665--54567708	18	2.4	18	84	0	52	59	9	4	27	1.48
54568605--54568680	29	2.6	29	85	0	98	26	28	19	25	1.99
54570537--54570586	18	2.5	20	81	15	59	14	40	26	20	1.90
54573152--54573213	29	2.1	29	87	0	88	30	29	14	25	1.95
54574727--54574813	24	3.6	24	96	0	165	21	17	25	35	1.95
54574727--54574835	48	2.3	48	91	3	175	24	17	23	33	1.96
54574727--54574835	24	4.5	24	90	2	157	24	17	23	33	1.96
54578158--54578200	18	2.2	20	80	12	54	34	6	11	46	1.67
54587740--54587764	2	12.5	2	100	0	50	48	0	0	52	1.00
54590081--54590141	25	2.4	25	97	2	113	29	13	18	39	1.88
54596237--54596404	47	3.7	47	78	17	167	27	29	20	21	1.98
54596237--54596404	92	1.8	91	94	1	300	27	29	20	21	1.98
54596824--54596883	30	2.0	30	90	0	93	30	25	8	36	1.85
54614734--54614758	8	3.1	8	100	0	50	36	0	12	52	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54615464--54615621	40	4.0	40	80	4	160	26	23	26	23	2.00
54615464--54615648	40	4.6	40	80	6	146	25	23	27	23	2.00
54615464--54615651	80	2.3	80	78	12	197	26	23	27	23	2.00
54621975--54622166	55	3.5	53	76	4	186	39	18	21	20	1.93
54623465--54623561	48	2.0	48	91	0	158	29	25	17	26	1.97
54623527--54623664	37	3.7	37	79	1	116	28	23	18	29	1.98
54627300--54627333	13	2.4	14	85	14	52	41	20	0	38	1.53
54627308--54627334	13	2.1	13	100	0	54	37	22	0	40	1.54
54631155--54631250	27	3.6	27	81	0	102	35	22	22	18	1.96
54631390--54631513	27	4.6	27	79	4	142	21	20	19	37	1.94
54631520--54631576	27	2.1	27	83	0	69	33	12	15	38	1.85
54631595--54631834	27	8.9	27	76	9	188	28	8	22	41	1.82
54631596--54631834	54	4.4	54	80	4	268	28	8	22	41	1.82
54631596--54631854	107	2.4	107	82	5	308	27	8	22	41	1.83
54631532--54631883	27	13.1	27	74	7	160	30	9	19	39	1.85
54634356--54634978	48	13.0	48	92	0	985	35	6	26	31	1.82
54635013--54635146	37	3.6	37	96	0	250	26	17	31	24	1.97
54640808--54640914	42	2.5	43	77	7	110	34	26	16	22	1.95
54646190--54646460	40	6.8	40	93	0	436	25	29	21	23	1.99
54647728--54647835	37	2.9	37	94	1	182	26	30	19	23	1.98
54647960--54648157	48	4.2	48	96	2	357	31	28	6	34	1.81
54647960--54648157	95	2.1	94	95	2	353	31	28	6	34	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54647984--54648283	95	3.2	95	86	7	350	28	28	9	33	1.89
54648127--54648318	47	4.1	47	87	2	271	27	28	10	33	1.90
54648080--54648318	92	2.6	93	84	6	279	28	28	10	33	1.89
54652125--54652174	25	2.0	25	81	11	59	30	34	6	30	1.81
54652351--54652622	40	6.8	40	93	0	429	25	29	21	24	1.99
54653887--54653995	37	2.9	37	93	0	173	27	30	18	23	1.98
54654141--54654275	48	2.8	48	95	0	234	31	26	8	34	1.86
54654245--54654417	47	3.7	47	90	0	265	25	28	12	34	1.92
54668949--54668998	25	2.0	25	81	11	59	30	34	6	30	1.81
54669175--54669446	40	6.8	40	96	0	463	25	29	22	23	1.99
54670714--54670821	37	2.9	37	93	1	173	26	29	19	24	1.98
54670967--54671148	48	3.8	48	97	1	339	30	27	7	35	1.84
54670975--54671275	95	3.2	94	85	7	348	27	28	10	33	1.90
54671118--54671310	47	4.1	46	89	1	269	26	29	10	32	1.90
54671211--54671281	22	3.1	22	64	28	58	23	29	14	32	1.94
54671071--54671310	93	2.6	94	84	5	281	27	29	10	32	1.89
54676831--54676880	26	2.0	24	88	7	73	64	6	0	30	1.18
54676851--54676909	21	2.8	21	78	12	59	69	8	0	22	1.15
54677832--54678001	46	3.7	46	80	10	193	23	19	27	30	1.98
54677826--54677997	93	1.8	93	89	0	272	23	19	27	29	1.98
54682333--54682455	27	4.6	27	78	10	110	39	21	9	29	1.86
54682354--54682486	27	5.0	27	79	8	103	38	21	10	30	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54682325--54682502	54	3.3	54	76	6	175	39	21	10	29	1.86
54682478--54682700	27	8.2	27	83	2	241	30	21	7	39	1.82
54682503--54682700	81	2.4	80	90	5	299	29	21	7	40	1.81
54683002--54683082	27	2.8	29	80	12	87	22	20	19	37	1.95
54683233--54683291	6	9.7	6	72	17	50	20	18	13	47	1.82
54683235--54683291	12	4.7	12	77	12	62	21	19	12	47	1.81
54683216--54683282	31	2.2	31	86	5	91	20	19	11	47	1.81
54685233--54685366	27	5.0	27	77	13	107	40	21	7	30	1.81
54685240--54685402	27	6.1	27	78	11	99	42	20	7	28	1.80
54685233--54685411	54	3.3	55	76	6	170	42	20	7	29	1.80
54685387--54685690	27	11.2	27	84	1	313	30	21	6	40	1.79
54685387--54685690	54	5.6	54	85	0	365	30	21	6	40	1.79
54685412--54685690	81	3.4	81	87	0	387	29	21	7	41	1.79
54686015--54686073	27	2.2	26	84	3	73	22	23	18	35	1.96
54688270--54688451	51	3.6	51	91	2	289	26	22	22	28	1.99
54688278--54688451	26	6.8	26	90	2	264	27	22	23	26	2.00
54688501--54688574	20	3.8	20	87	10	102	35	18	9	36	1.84
54691464--54691630	45	3.7	45	86	0	226	26	13	25	34	1.93
54696219--54696321	29	3.6	29	92	2	154	26	15	32	26	1.96
54701375--54701407	15	2.2	16	89	10	52	30	0	15	54	1.41
54702434--54702556	45	2.7	45	88	0	192	25	13	26	34	1.93
54705115--54705218	23	4.5	23	84	3	120	21	19	20	39	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54712439--54712607	40	4.2	40	80	4	173	23	26	21	28	1.99
54720546--54720714	40	4.2	40	80	4	173	23	26	21	28	1.99
54735323--54735368	22	2.0	23	84	12	60	19	8	2	69	1.25
54738733--54738798	34	1.9	34	84	6	89	24	22	22	30	1.99
54741255--54741303	25	2.0	25	95	0	89	24	20	16	38	1.92
54744307--54744464	43	3.7	42	75	10	160	28	28	19	23	1.98
54746591--54746765	28	6.3	28	88	1	235	24	17	36	22	1.95
54747098--54747222	27	4.6	27	89	0	196	37	20	11	31	1.87
54747098--54747236	54	2.6	54	88	0	206	37	21	10	30	1.88
54747213--54747277	27	2.4	27	84	0	76	40	16	15	27	1.89
54747228--54747279	27	1.9	27	92	0	86	34	17	19	28	1.94
54749341--54749383	19	2.3	19	100	0	86	25	34	4	34	1.77
54752067--54752226	29	5.5	29	82	4	180	25	31	16	26	1.97
54753513--54753561	25	2.0	23	84	7	62	8	16	0	75	1.03
54769394--54769538	75	1.9	75	84	5	195	29	26	18	24	1.98
54776945--54777086	40	3.5	40	83	1	124	27	23	26	21	1.99
54776984--54777096	40	2.8	39	86	5	145	23	23	28	23	2.00
54779127--54779186	30	2.0	30	83	0	75	31	23	8	36	1.84
54781098--54781123	13	2.0	13	100	0	52	69	0	15	15	1.20
54783259--54783394	48	2.9	47	80	5	166	33	29	16	21	1.95
54786455--54786521	20	3.3	20	89	0	98	31	11	23	32	1.91
54786571--54786674	23	4.4	24	88	3	149	27	18	24	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54790973--54791263	24	12.1	24	97	0	510	36	25	18	20	1.95
54796456--54796746	24	12.1	24	97	0	510	36	25	18	20	1.95
54803311--54803377	20	3.3	20	87	0	98	34	11	20	32	1.90
54803428--54803546	23	5.1	23	89	2	166	27	19	21	31	1.97
54803761--54803824	31	2.1	31	90	0	101	35	15	23	25	1.94
54807722--54807791	26	2.7	25	80	8	77	31	22	20	25	1.98
54811212--54811380	57	3.0	57	92	0	277	33	25	13	28	1.93
54820102--54820126	11	2.3	11	100	0	50	52	36	0	12	1.39
54821259--54821350	29	3.1	29	66	25	82	47	22	1	28	1.58
54821240--54821362	61	2.0	61	98	0	237	43	23	1	30	1.63

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