genome.fa.s12.2.7.7.80.10.50.1000.36.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: Gbar_A12
Parameters: 2 7 7 80 10 50 1000
Length:  102106374

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   

This is table  36  of  311  ( 37258 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)
10303115--10303297	97	1.9	97	93	0	312	40	28	6	24	1.78
10306326--10306433	26	4.2	26	93	0	189	36	24	7	32	1.83
10310545--10310598	27	2.0	27	82	7	65	18	27	18	35	1.94
10312326--10312392	34	1.9	35	90	3	109	19	11	31	37	1.88
10317589--10317624	17	2.1	17	100	0	72	58	8	5	27	1.50
10317929--10318100	46	3.7	46	79	13	208	29	29	20	20	1.98
10331532--10331557	13	2.0	13	100	0	52	15	30	15	38	1.88
10332822--10332892	35	2.1	34	91	2	115	50	16	8	23	1.73
10335489--10335539	17	3.2	17	68	21	56	45	5	21	27	1.75
10335478--10335556	30	2.6	30	95	2	140	39	6	26	27	1.80
10335478--10335546	15	4.6	15	67	13	52	40	7	24	27	1.81
10343240--10343285	21	2.3	19	85	11	56	43	0	34	21	1.53
10344224--10344266	20	2.2	19	83	4	50	37	11	9	41	1.74
10345052--10345095	23	2.0	22	86	4	61	47	9	15	27	1.76
10345418--10345459	20	2.2	19	83	12	50	61	2	9	26	1.39
10345926--10345960	17	2.1	17	88	0	52	45	20	20	14	1.85
10346851--10346897	22	2.2	22	84	3	60	14	8	23	53	1.69
10350773--10350803	15	2.1	15	100	0	62	32	19	0	48	1.49
10371031--10371069	21	1.9	20	89	5	60	61	7	2	28	1.37
10372546--10372583	19	2.0	20	89	5	60	15	2	10	71	1.25
10384084--10384183	49	2.0	49	98	0	191	39	14	15	32	1.86
10384169--10384195	13	2.1	13	100	0	54	40	7	7	44	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10384401--10384480	19	4.2	19	77	4	72	41	21	7	30	1.80
10384422--10384459	20	1.9	20	88	0	58	39	23	7	28	1.83
10384626--10384740	24	4.7	24	80	12	103	32	20	21	25	1.98
10389471--10389595	19	6.4	19	67	15	67	58	1	5	34	1.31
10389465--10389567	46	2.2	47	79	8	113	62	1	3	32	1.25
10389470--10389569	21	4.4	22	72	18	80	61	2	4	33	1.26
10390197--10390224	8	3.5	8	100	0	56	10	64	25	0	1.26
10395349--10395474	28	4.5	28	95	1	227	33	27	11	26	1.92
10400921--10400998	29	2.7	28	84	11	104	25	15	30	28	1.96
10400951--10401277	173	1.9	174	93	0	566	29	14	24	31	1.94
10405102--10405140	15	2.5	16	87	8	62	53	0	5	41	1.23
10410583--10410637	27	2.0	27	100	0	110	20	29	7	43	1.78
10411713--10411810	33	2.9	35	73	19	91	45	4	0	50	1.20
10411761--10411817	30	1.9	30	82	13	73	45	5	0	49	1.24
10412021--10412088	34	2.0	34	100	0	136	35	29	8	26	1.87
10415123--10415148	13	2.0	13	100	0	52	23	0	30	46	1.53
10424789--10424835	22	2.1	22	92	0	76	38	6	14	40	1.72
10428431--10428567	21	6.6	21	76	1	132	16	20	17	45	1.85
10428430--10428567	42	3.3	41	79	4	152	15	20	17	46	1.84
10435038--10435082	19	2.3	19	84	3	54	44	0	4	51	1.21
10435082--10435139	21	2.8	21	76	7	66	67	3	0	29	1.07
10449130--10449171	22	1.9	22	90	0	66	42	14	2	40	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10456585--10456625	17	2.4	17	84	11	57	46	0	7	46	1.30
10457607--10457675	34	2.0	34	100	0	138	37	17	14	30	1.90
10463067--10463101	16	2.1	17	89	5	54	42	2	14	40	1.60
10464095--10464155	6	10.2	6	85	7	79	18	21	0	60	1.36
10466508--10466542	18	1.9	18	94	0	61	31	11	20	37	1.88
10468894--10469072	84	2.1	85	82	7	211	26	18	11	43	1.85
10468894--10469072	87	2.1	84	84	5	225	26	18	11	43	1.85
10480353--10480458	53	2.0	53	88	3	160	42	14	10	33	1.79
10481925--10482128	53	3.8	53	76	3	183	36	18	23	22	1.95
10486378--10486558	91	2.0	90	95	1	326	30	19	8	40	1.81
10493395--10493435	22	1.9	21	85	14	57	24	2	19	53	1.57
10498671--10498733	30	2.1	30	90	0	99	55	12	3	28	1.52
10498763--10498805	22	2.0	22	85	0	59	55	6	13	23	1.62
10499656--10499703	18	2.7	18	80	0	60	58	0	0	41	0.98
10499664--10499713	20	2.7	18	85	11	73	68	0	0	32	0.90
10499664--10499715	9	5.6	9	80	8	59	67	0	0	32	0.91
10499671--10499723	20	2.7	20	85	5	63	67	1	0	30	1.01
10506915--10506940	8	3.2	8	100	0	52	88	0	11	0	0.52
10506844--10507120	96	2.8	99	89	5	429	46	4	20	28	1.70
10511498--10511544	24	2.0	24	83	8	60	57	31	4	6	1.43
10517787--10517915	46	2.8	46	93	0	213	29	28	21	20	1.98
10517795--10517934	46	3.0	45	87	4	131	28	28	21	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10533041--10533072	2	16.0	2	100	0	64	50	0	50	0	1.00
10545509--10545631	38	3.3	38	93	1	203	23	30	21	24	1.99
10546694--10546720	4	6.8	4	100	0	54	77	0	0	22	0.76
10546761--10546802	22	1.9	22	85	9	59	23	52	9	14	1.71
10546881--10546924	22	2.0	22	81	4	52	13	4	31	50	1.62
10546907--10546946	21	2.0	20	90	5	62	5	0	25	70	1.08
10547056--10547103	20	2.4	20	93	6	80	14	14	2	68	1.30
10547297--10547379	3	27.3	3	73	20	59	30	3	1	65	1.17
10547297--10547379	18	4.4	18	79	13	87	30	3	1	65	1.17
10547296--10547383	27	3.3	26	73	12	81	30	3	1	64	1.17
10550183--10550229	19	2.5	19	86	6	60	27	19	8	44	1.79
10553021--10553053	6	5.5	6	100	0	66	54	15	30	0	1.41
10554237--10554363	66	1.9	66	96	0	236	33	19	11	35	1.88
10554428--10554933	218	2.3	218	93	1	847	36	21	22	19	1.95
10554473--10555153	44	15.6	44	73	8	396	36	21	22	20	1.95
10554554--10555241	132	5.2	132	85	4	840	36	21	21	20	1.95
10554996--10555326	175	1.9	175	85	2	459	36	22	19	21	1.95
10554473--10555345	132	6.7	130	81	8	669	36	21	21	20	1.95
10554425--10555342	87	10.5	86	74	9	420	36	21	21	20	1.96
10555347--10555545	68	2.9	68	88	2	285	27	23	22	26	1.99
10555657--10556120	44	10.6	44	78	7	399	30	18	23	27	1.97
10555688--10556120	176	2.5	176	94	0	760	31	18	23	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10555598--10556153	44	12.7	44	76	7	251	30	18	23	26	1.98
10555598--10556153	176	3.2	176	86	2	699	30	18	23	26	1.98
10555923--10556176	132	1.9	132	92	0	427	32	18	22	25	1.97
10556523--10556564	22	1.9	22	85	9	59	23	52	9	14	1.71
10556637--10556714	23	3.4	22	82	8	77	10	1	26	61	1.36
10557042--10557121	3	26.3	3	72	20	53	30	3	1	65	1.18
10557045--10557123	12	6.5	12	74	12	72	30	3	1	64	1.19
10563679--10563722	21	2.1	21	100	0	88	22	11	9	56	1.62
10565621--10565650	14	2.2	13	94	5	51	40	20	6	33	1.78
10569736--10569809	28	2.6	28	87	4	105	31	32	13	22	1.93
10569794--10570008	40	5.4	40	88	0	313	33	26	16	23	1.96
10569794--10570008	80	2.7	80	92	0	358	33	26	16	23	1.96
10572766--10572811	6	7.7	6	85	0	65	39	2	10	47	1.51
10572766--10572812	12	3.9	12	88	0	76	40	2	10	46	1.50
10575433--10575477	22	2.0	22	91	0	72	33	2	15	48	1.57
10579208--10579252	22	2.0	22	91	0	72	33	2	15	48	1.57
10583880--10583936	28	2.0	28	96	0	105	40	3	24	31	1.72
10597109--10597147	6	6.3	6	84	3	51	76	2	5	15	1.06
10607347--10607392	24	1.9	24	86	8	67	39	23	13	23	1.90
10608433--10608575	62	2.3	61	86	1	196	23	25	24	26	2.00
10608436--10608575	61	2.3	62	87	1	192	22	25	25	26	2.00
10609804--10609836	12	2.8	12	100	0	66	51	15	15	18	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10610977--10611002	5	5.2	5	100	0	52	80	0	19	0	0.71
10616768--10616823	27	2.1	26	93	3	94	58	3	23	14	1.51
10618264--10618322	31	1.9	31	100	0	118	30	18	23	27	1.98
10623845--10623897	21	2.4	21	93	6	88	20	13	20	45	1.84
10625660--10625750	33	2.8	33	98	0	173	28	41	10	18	1.84
10627716--10627757	21	2.0	21	100	0	84	19	14	19	47	1.82
10630947--10631003	12	4.8	12	72	12	55	19	17	14	49	1.80
10631259--10631303	23	2.0	23	82	8	56	40	11	15	33	1.83
10632361--10632385	8	3.1	8	100	0	50	84	0	0	16	0.63
10642553--10642578	12	2.2	12	100	0	52	7	15	30	46	1.74

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