genome.fa.s3.2.7.7.80.10.50.1000.16.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_A03
Parameters: 2 7 7 80 10 50 1000
Length:  105315579

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  16  of  325  ( 38900 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)
5014841--5014924	14	5.9	14	75	10	64	57	3	3	35	1.34
5015350--5015404	21	2.6	21	75	11	58	63	0	5	30	1.17
5019895--5020002	44	2.4	44	82	3	126	29	21	13	35	1.92
5021175--5021219	19	2.4	19	100	0	90	15	42	15	26	1.87
5027149--5027256	44	2.4	44	87	3	144	29	24	13	32	1.94
5035426--5035472	24	2.0	24	83	8	60	23	4	42	29	1.73
5035587--5035840	72	3.5	72	84	11	363	23	5	35	35	1.78
5035962--5035988	6	4.5	6	100	0	54	14	0	66	18	1.25
5041839--5041874	17	2.1	18	89	5	56	38	0	0	61	0.96
5047717--5047759	3	14.7	3	95	4	79	30	0	0	69	0.88
5060738--5060919	62	2.9	60	87	9	249	58	18	7	15	1.61
5061363--5061398	16	2.1	18	90	10	58	47	22	8	22	1.77
5061366--5061405	16	2.4	16	83	4	53	42	27	7	22	1.80
5063704--5064985	287	4.5	287	97	2	2365	36	13	12	37	1.82
5065190--5065244	15	3.8	15	79	18	71	45	1	0	52	1.11
5065357--5065438	18	4.4	18	80	6	83	50	17	1	31	1.54
5065395--5065438	9	4.9	9	100	0	88	45	20	0	34	1.51
5071152--5071230	31	2.5	32	79	4	88	15	3	18	62	1.47
5071306--5071469	43	3.8	43	93	0	274	22	31	18	27	1.97
5083735--5084054	46	7.0	46	94	0	525	22	23	15	38	1.92
5086471--5086538	30	2.3	30	87	5	93	29	19	4	47	1.69
5088831--5088873	20	2.2	20	87	8	61	20	41	0	37	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5088996--5089035	20	2.0	20	85	9	55	22	30	0	47	1.52
5089294--5089331	18	2.1	18	85	9	51	36	2	0	60	1.11
5098523--5098587	8	8.1	8	74	8	53	35	0	0	64	0.94
5098526--5098593	23	2.8	24	82	13	86	38	0	0	61	0.96
5098523--5098582	31	1.9	31	86	6	86	36	0	0	63	0.95
5098780--5098838	32	1.9	29	86	10	82	35	6	0	57	1.25
5099465--5099521	27	2.2	26	84	6	71	31	1	1	64	1.13
5100407--5100456	17	3.0	17	82	8	50	70	2	0	28	0.99
5100390--5100463	27	2.6	29	75	12	73	63	2	2	31	1.22
5105982--5106040	21	2.8	22	85	12	63	45	0	0	54	0.99
5105990--5106042	20	2.6	21	82	11	65	50	0	0	49	1.00
5106669--5106707	17	2.3	17	83	12	53	12	7	5	74	1.20
5107490--5107650	60	2.7	59	91	1	241	40	11	5	42	1.64
5112144--5112237	47	2.0	47	100	0	188	34	14	23	27	1.94
5119181--5119229	22	2.1	22	82	14	55	63	0	2	34	1.06
5120313--5120355	19	2.3	18	84	4	59	58	4	2	34	1.32
5122135--5122170	14	2.6	14	86	0	54	66	13	2	16	1.36
5126180--5126386	63	3.3	62	82	7	231	26	24	26	22	2.00
5130282--5130666	132	2.9	131	81	6	438	34	17	18	29	1.94
5135688--5135712	13	1.9	13	100	0	50	80	0	0	20	0.72
5138387--5138598	90	2.4	90	78	4	216	23	25	21	30	1.99
5138491--5138782	133	2.2	133	81	0	359	27	22	19	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5150038--5150422	132	2.9	132	82	6	442	35	17	18	28	1.93
5162342--5162387	23	2.0	23	100	0	92	34	8	17	39	1.80
5164104--5164832	363	2.0	363	96	0	1332	27	12	17	42	1.84
5166307--5166394	43	2.0	43	97	0	167	27	13	13	45	1.81
5174050--5174079	14	2.1	14	100	0	60	16	30	6	46	1.73
5175946--5175974	15	2.0	15	93	6	51	41	6	0	51	1.28
5177240--5177292	24	2.1	26	82	6	65	20	11	1	66	1.33
5181666--5181710	21	2.1	21	91	0	72	37	22	24	15	1.93
5185693--5185744	25	2.1	25	100	0	104	28	23	13	34	1.92
5189468--5189671	45	4.6	45	69	13	136	28	20	24	25	1.99
5189459--5189819	135	2.7	133	83	3	395	30	20	22	26	1.98
5194562--5194830	46	5.6	46	84	10	358	34	14	22	28	1.93
5194622--5194830	52	4.1	51	85	9	293	35	13	22	28	1.92
5194708--5194741	7	4.7	7	88	3	50	44	2	26	26	1.69
5194794--5194939	37	4.0	37	92	1	233	36	16	21	25	1.94
5196194--5196386	49	3.9	49	95	0	323	23	15	30	31	1.95
5199509--5199775	46	5.6	46	85	9	356	34	14	22	28	1.94
5199509--5199812	97	3.3	91	81	14	347	35	14	22	27	1.93
5199739--5199884	37	4.0	37	92	1	233	36	16	21	25	1.94
5199516--5199780	149	1.8	142	87	8	340	34	14	22	27	1.94
5204498--5204566	34	2.0	34	94	0	120	30	10	7	52	1.62
5210242--5210279	19	2.1	19	85	9	53	44	2	5	47	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5215535--5215581	21	2.2	22	92	3	78	21	38	19	21	1.94
5226400--5226495	34	2.9	33	78	3	111	40	15	15	28	1.88
5229646--5229686	3	13.7	3	100	0	82	68	0	0	31	0.90
5230372--5230415	22	2.0	20	87	12	61	63	0	0	36	0.95
5231121--5231157	17	2.1	18	90	5	58	43	0	0	56	0.99
5232300--5232339	7	5.7	7	87	0	62	27	0	30	42	1.56
5232288--5232334	21	2.2	21	84	0	58	25	2	29	42	1.67
5235295--5235336	19	2.1	21	86	8	61	14	14	0	71	1.15
5237699--5237733	17	2.0	18	88	5	54	57	0	0	42	0.99
5240191--5240240	22	2.5	20	78	15	57	18	42	22	18	1.90
5240329--5240353	11	2.3	11	100	0	50	64	0	36	0	0.94
5240345--5240375	3	10.7	3	93	6	55	64	0	35	0	0.94
5240406--5240445	20	2.0	20	90	0	62	65	0	35	0	0.93
5240850--5240879	14	2.1	14	100	0	60	56	0	0	43	0.99
5240881--5242194	147	9.1	147	88	5	1835	59	7	5	27	1.48
5241405--5241461	30	1.9	29	85	3	78	70	7	1	21	1.20
5240881--5242194	288	4.5	288	87	5	1806	59	7	5	27	1.48
5242127--5242162	13	2.8	13	87	4	56	75	2	0	22	0.94
5242127--5242194	30	2.5	25	72	20	64	70	4	1	23	1.13
5246886--5246927	18	2.3	18	100	0	84	21	28	4	45	1.72
5248600--5248641	22	1.9	22	90	9	68	2	28	0	69	1.01
5248733--5248790	27	2.1	27	90	0	89	10	39	29	20	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5249245--5249310	31	2.2	31	89	8	100	27	1	12	59	1.42
5249793--5249832	21	2.0	20	85	14	55	37	7	2	52	1.43
5250744--5250796	17	3.1	16	84	10	61	35	1	1	60	1.19
5250744--5250796	18	3.0	17	86	8	70	35	1	1	60	1.19
5267631--5267687	26	2.2	26	83	3	69	21	10	3	64	1.39
5268006--5268048	19	2.2	21	88	12	65	34	9	0	55	1.32
5268163--5268222	28	2.1	29	84	12	79	36	8	3	51	1.49
5273218--5273304	31	2.8	32	82	3	104	39	9	13	37	1.77
5280570--5280612	15	3.0	15	83	10	54	48	0	0	51	1.00
5280745--5280854	45	2.6	43	79	11	120	32	29	5	32	1.80
5280835--5280902	16	4.2	16	92	0	109	35	35	0	29	1.58
5280835--5280902	32	2.1	32	97	0	127	35	35	0	29	1.58
5282322--5282348	13	2.1	13	100	0	54	40	14	0	44	1.46
5284321--5284350	14	2.1	14	93	0	51	0	20	0	80	0.72
5285100--5285136	18	2.1	18	100	0	74	40	0	5	54	1.24
5291046--5291080	15	2.2	16	90	5	54	60	17	0	22	1.37
5294249--5294416	81	2.1	81	96	0	318	37	16	13	32	1.87
5301370--5301501	65	2.0	65	92	2	221	41	14	12	31	1.83
5307532--5307561	14	2.1	14	93	0	51	30	6	23	40	1.80
5312927--5312971	16	2.8	16	82	0	63	60	13	0	26	1.34
5313735--5313801	34	1.9	35	84	3	91	34	8	11	44	1.73
5314881--5314914	15	2.2	16	89	5	52	41	0	2	55	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5317178--5317292	44	2.6	44	85	2	149	35	13	22	27	1.92
5317178--5317311	46	3.0	45	82	4	153	35	14	23	26	1.93
5324559--5324673	44	2.6	44	85	2	149	35	13	22	27	1.92
5324559--5324692	46	3.0	45	82	4	153	35	14	23	26	1.93
5330770--5330851	43	1.9	43	82	9	105	32	3	10	52	1.54
5333796--5333824	10	2.9	10	100	0	58	10	27	0	62	1.28
5340057--5340642	195	3.0	195	99	0	1154	30	9	18	41	1.82
5345582--5345623	17	2.4	17	81	14	50	26	2	0	71	0.98
5354881--5354928	21	2.3	22	78	10	55	56	0	0	43	0.99
5354882--5354939	13	4.9	12	75	16	59	55	1	0	43	1.10

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