genome.fa.s1.2.7.7.80.10.50.1000.99.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_A01
Parameters: 2 7 7 80 10 50 1000
Length:  115637255

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   326   327   328   329   330   331   332   333   334   335   336   
          337   338   339   340   341   342   343   344   345   346   347   348   349   

This is table  99  of  349  ( 41854 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)
30709332--30709458	43	2.9	43	85	2	164	28	28	17	25	1.97
30714877--30715001	45	2.8	45	87	0	142	29	28	20	20	1.98
30714994--30715164	38	4.5	38	82	2	209	35	26	18	19	1.95
30715017--30715164	38	3.9	39	84	5	214	33	26	20	19	1.96
30715461--30715595	43	3.1	44	82	6	175	28	29	17	25	1.97
30717846--30717913	33	2.1	33	100	0	136	19	26	14	39	1.90
30720607--30720682	5	14.8	5	83	15	86	21	0	1	77	0.84
30720610--30720694	13	6.8	12	78	17	77	22	0	2	75	0.92
30720607--30720687	19	4.3	19	77	17	96	22	0	1	76	0.86
30730239--30730281	4	10.2	4	85	14	52	74	0	0	25	0.82
30730235--30730281	22	2.1	22	88	7	69	74	0	0	25	0.82
30730245--30730279	18	1.9	18	94	0	61	71	0	0	28	0.86
30735261--30735415	43	3.6	43	79	11	131	25	17	23	32	1.96
30744812--30744865	27	2.0	28	81	3	65	48	3	0	48	1.19
30746566--30746590	3	8.3	3	100	0	50	32	0	0	68	0.90
30754379--30754452	24	3.0	24	86	4	94	21	25	20	32	1.97
30754416--30754470	23	2.3	24	84	9	69	25	23	18	32	1.97
30754544--30754606	19	3.3	19	73	4	63	31	6	20	41	1.77
30762119--30762196	23	3.3	23	78	8	77	24	23	16	35	1.95
30767094--30767139	16	3.0	15	85	14	67	52	15	21	10	1.73
30768540--30768595	26	2.2	26	100	0	112	30	7	26	35	1.83
30770215--30770301	27	3.2	27	85	6	115	18	21	25	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30771594--30771719	46	2.7	46	91	2	191	21	19	26	31	1.97
30773038--30773112	27	2.8	27	88	8	100	21	25	18	34	1.96
30774794--30774824	4	7.8	4	92	0	53	70	0	3	25	1.02
30776695--30776912	45	4.5	49	77	10	182	29	23	18	28	1.98
30776735--30777187	45	9.9	45	69	10	222	29	22	16	31	1.96
30776695--30776917	96	2.3	96	82	1	250	28	23	18	29	1.98
30788136--30788306	93	1.8	93	91	0	279	26	29	22	21	1.99
30788133--30788303	46	3.7	45	75	14	170	26	28	22	21	1.99
30788726--30788785	30	2.0	30	90	0	93	30	25	8	36	1.85
30792590--30792620	4	7.8	4	92	0	53	70	0	3	25	1.02
30793742--30793779	14	2.9	13	88	11	60	81	0	10	7	0.87
30797741--30797778	20	1.9	20	84	10	51	65	2	5	26	1.27
30804089--30804131	4	11.0	4	95	5	79	0	23	0	76	0.78
30804208--30804266	16	3.9	15	80	12	59	49	5	0	45	1.24
30806719--30806779	31	2.0	31	90	0	95	34	8	8	49	1.62
30809383--30809453	34	2.1	34	97	0	133	38	12	22	26	1.90
30810365--30810888	261	2.0	261	100	0	1048	40	10	17	32	1.83
30828338--30828421	42	2.0	42	97	0	159	44	9	14	32	1.77
30838064--30838189	43	2.9	43	80	8	157	34	23	16	25	1.96
30856296--30856336	20	2.0	20	100	0	82	41	4	24	29	1.75
30862770--30862995	47	4.8	47	74	11	187	24	28	18	28	1.98
30862768--30862995	94	2.4	93	86	3	305	24	28	18	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30865637--30865781	43	3.4	43	85	3	177	28	15	25	30	1.96
30868809--30868910	50	2.0	50	94	0	177	38	16	19	25	1.92
30869312--30869355	21	2.1	21	95	0	79	25	15	22	36	1.94
30877279--30877476	27	7.3	27	85	4	238	27	15	27	30	1.96
30877279--30877476	82	2.4	80	83	5	254	27	15	27	30	1.96
30882372--30882567	27	7.2	27	84	3	241	28	15	26	30	1.96
30888200--30888253	22	2.5	21	81	3	63	12	31	37	18	1.89
30899110--30899197	43	2.0	43	97	0	167	31	10	18	39	1.84
30900162--30900200	15	2.6	16	92	8	64	48	0	5	46	1.24
30901091--30901137	16	2.9	16	78	15	51	25	8	31	34	1.86
30908257--30908296	20	2.0	21	90	5	64	75	0	7	17	1.03
30914736--30914872	45	3.1	45	88	4	190	25	24	23	26	2.00
30916754--30916824	26	2.8	26	91	4	110	25	23	22	28	2.00
30916753--30916837	25	3.4	25	80	15	88	28	22	22	27	1.99
30917044--30917127	31	2.7	31	96	1	152	32	17	26	23	1.97
30918376--30918607	47	4.9	47	95	0	419	48	14	10	27	1.76
30920204--30920229	13	2.0	13	100	0	52	46	15	0	38	1.46
30923578--30923736	84	1.9	85	86	3	232	44	14	13	28	1.83
30923944--30924101	78	2.0	77	86	1	217	36	13	12	37	1.82
30934064--30934097	15	2.3	15	89	0	50	55	11	14	17	1.68
30943907--30943942	4	9.2	4	87	6	56	22	0	2	75	0.94
30944808--30944863	27	2.1	27	96	0	103	37	7	14	41	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30945265--30945297	17	1.9	18	88	11	52	21	0	27	51	1.48
30948885--30948926	22	1.9	22	90	0	66	33	4	23	38	1.76
30951554--30951600	20	2.3	21	78	10	53	34	4	12	48	1.61
30952890--30952922	17	1.9	18	88	11	52	21	0	27	51	1.48
30958689--30958771	28	3.0	28	92	0	139	19	37	20	22	1.94
30958686--30958779	28	3.4	28	89	0	134	18	38	20	23	1.93
30959769--30959890	47	2.6	47	88	5	165	25	30	19	24	1.98
30959765--30960130	48	7.7	47	72	13	164	23	29	18	27	1.98
30960054--30960175	47	2.6	46	81	14	144	21	30	19	28	1.98
30960341--30960831	241	2.0	241	92	0	820	32	20	11	36	1.88
30965216--30965484	39	6.8	39	92	2	346	18	22	28	30	1.97
30971612--30971807	39	5.0	39	92	1	279	17	22	30	30	1.97
30974406--30974449	12	3.5	12	82	11	52	79	0	0	20	0.73
30974418--30974449	14	2.4	13	90	10	55	84	0	0	15	0.63
30974514--30974543	11	2.8	11	95	5	53	73	0	0	26	0.84
30974792--30974844	26	2.0	26	85	0	70	43	5	7	43	1.56
30984933--30984979	16	3.0	16	71	3	51	42	2	0	55	1.12
30986609--30986651	23	1.9	22	86	13	61	32	2	13	51	1.54
30987253--30987329	29	2.7	29	87	0	109	29	9	11	49	1.70
30992500--30992929	213	2.0	214	96	0	799	43	15	13	26	1.84
31001497--31001527	15	2.1	15	93	0	53	25	3	19	51	1.62
31009873--31009902	15	1.9	16	93	6	53	6	23	0	70	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31014524--31014583	6	10.2	6	83	3	77	78	1	5	15	1.00
31014504--31014583	12	6.7	11	81	7	79	76	1	5	17	1.03
31014504--31014593	17	5.2	17	78	15	87	77	1	4	16	0.98
31014524--31014583	23	2.6	23	89	2	84	78	1	5	15	1.00
31015291--31015336	24	1.9	24	100	0	92	17	10	54	17	1.70
31016535--31016574	21	2.0	20	85	5	53	15	20	27	37	1.92
31026904--31027076	46	3.7	46	78	10	165	28	19	28	22	1.98
31028258--31028282	13	1.9	13	100	0	50	0	24	0	76	0.80
31029394--31029441	25	1.9	25	86	0	69	33	20	14	31	1.93
31029478--31029525	20	2.3	21	89	3	71	35	12	18	33	1.89
31029572--31029642	26	2.8	25	89	4	106	25	23	22	28	2.00
31029571--31029669	25	4.0	24	80	13	78	27	23	22	27	1.99
31029862--31029945	31	2.7	31	96	1	152	32	17	26	23	1.97
31037431--31037478	25	1.9	25	91	0	78	33	22	14	29	1.94
31037609--31037679	26	2.8	25	93	4	124	26	25	21	26	1.99
31037897--31038013	31	3.8	31	94	1	200	34	17	23	24	1.96
31043433--31043464	5	6.6	5	92	7	57	18	0	0	81	0.70
31043433--31043463	9	3.3	9	91	8	53	19	0	0	80	0.71
31047886--31047917	5	6.6	5	92	7	57	18	0	0	81	0.70
31047886--31047916	9	3.3	9	91	8	53	19	0	0	80	0.71
31053744--31053799	21	2.7	21	91	2	96	8	33	33	23	1.86
31068583--31068754	94	1.8	94	83	2	229	29	19	27	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31068540--31068803	46	5.7	45	75	12	173	27	20	27	23	1.99
31069407--31069436	15	2.0	15	93	0	51	30	6	13	50	1.67
31073068--31073249	50	3.6	50	84	1	220	26	16	24	32	1.96
31073460--31073491	16	2.0	16	93	0	55	53	0	12	34	1.39
31073822--31074174	180	2.0	179	90	0	553	38	9	18	32	1.84
31085361--31085407	23	2.0	23	100	0	94	38	12	19	29	1.89
31085364--31085415	23	2.3	23	93	0	86	40	13	19	26	1.88
31088214--31088512	79	3.7	78	81	6	301	38	12	16	32	1.86
31088349--31088607	88	3.0	86	79	6	281	39	11	14	33	1.82
31088898--31088938	15	2.8	15	88	3	66	60	12	4	21	1.50

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   326   327   328   329   330   331   332   333   334   335   336   
          337   338   339   340   341   342   343   344   345   346   347   348   349