genome.fa.s3.2.7.7.80.10.50.1000.129.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: A03
Parameters: 2 7 7 80 10 50 1000
Length:  108673976

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   

This is table  129  of  333  ( 39894 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)
41689984--41690050	24	3.0	24	64	18	63	35	23	13	26	1.92
41711229--41711279	25	2.0	25	96	0	93	49	9	15	25	1.75
41712490--41712530	22	1.9	22	90	5	66	12	43	26	17	1.84
41714640--41714787	73	2.0	73	90	0	233	32	16	23	27	1.96
41717368--41717407	21	2.0	21	85	5	55	22	27	35	15	1.94
41730132--41730253	60	2.0	61	95	1	219	51	10	17	20	1.74
41732644--41733006	46	7.7	49	76	10	278	28	18	29	23	1.98
41732641--41732998	94	3.8	93	77	12	272	28	18	29	24	1.98
41732828--41733006	96	1.8	98	87	3	272	26	18	30	24	1.98
41738165--41738307	49	2.9	49	82	1	178	32	18	22	27	1.97
41738173--41738299	25	5.1	24	73	9	78	32	18	23	25	1.97
41739668--41740113	3	150.3	3	68	10	184	27	9	2	60	1.38
41739857--41740031	93	1.9	93	90	0	278	27	8	2	61	1.37
41740015--41740236	18	11.6	17	68	25	83	28	9	2	60	1.39
41740214--41740310	25	3.7	26	67	29	64	29	5	5	59	1.41
41746517--41747121	49	12.6	49	93	2	955	33	8	29	28	1.87
41746517--41747121	145	4.2	145	95	1	1020	33	8	29	28	1.87
41749256--41749330	38	2.0	39	86	5	109	30	18	26	24	1.98
41751313--41751535	40	5.6	40	92	0	365	27	21	28	22	1.99
41751313--41751562	120	2.1	120	89	0	376	26	20	28	24	1.99
41751824--41751888	32	2.0	32	100	0	130	35	15	12	36	1.85
41753016--41753296	40	7.1	40	91	0	402	24	21	28	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41756727--41757235	49	10.6	49	93	2	822	33	8	29	29	1.86
41756727--41757235	194	2.7	194	93	1	877	33	8	29	29	1.86
41759920--41759954	3	11.7	3	87	0	52	68	28	2	0	1.04
41759919--41759957	9	4.3	9	86	0	51	71	25	2	0	0.98
41761527--41761647	64	1.9	64	96	0	224	29	16	16	37	1.91
41761718--41762327	44	13.8	43	68	13	278	30	17	25	25	1.97
41761730--41762012	133	2.1	133	94	1	496	31	16	28	23	1.96
41761730--41762047	133	2.4	133	90	1	442	31	17	27	24	1.97
41761863--41762338	176	2.7	175	89	1	729	31	17	26	25	1.97
41762288--41762834	130	4.2	130	88	0	774	29	20	22	27	1.98
41762294--41762845	44	12.8	44	70	6	268	29	20	22	27	1.98
41762290--41762791	86	5.8	87	69	8	249	29	20	22	28	1.98
41763125--41763457	182	1.8	182	87	5	494	33	20	19	26	1.97
41763305--41763425	44	2.8	44	83	0	152	32	20	19	28	1.97
41763162--41763417	138	1.8	139	81	5	322	32	21	19	26	1.97
41763126--41763425	88	3.3	87	67	16	207	32	20	20	27	1.97
41763126--41763442	44	7.1	43	72	13	149	33	20	19	26	1.97
41763463--41763522	28	2.1	28	90	0	93	38	18	33	10	1.84
41763673--41763719	11	4.2	11	83	2	58	57	38	0	4	1.18
41764819--41765248	3	143.7	3	68	11	170	28	9	1	60	1.38
41764996--41765171	92	1.9	92	90	0	280	29	8	1	60	1.36
41765113--41765216	38	2.7	38	81	8	129	29	5	2	61	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41764988--41765290	18	16.2	18	66	23	82	28	7	1	62	1.33
41765193--41765311	41	2.9	41	77	20	115	27	6	1	63	1.29
41765220--41765270	23	2.1	23	78	7	57	25	7	0	66	1.18
41765150--41765289	41	3.5	38	76	17	108	28	5	1	64	1.25
41765268--41765364	25	3.7	26	67	29	64	29	5	5	59	1.41
41770275--41770449	46	3.8	45	74	7	163	29	28	19	22	1.98
41770326--41770469	46	3.1	45	69	21	102	29	28	18	22	1.98
41770876--41770933	30	2.0	29	86	3	80	27	22	8	41	1.83
41775802--41775976	46	3.8	46	77	10	194	30	29	18	21	1.97
41775810--41775980	93	1.8	93	92	0	288	29	29	19	21	1.98
41780652--41780692	14	2.8	15	82	14	50	51	2	4	41	1.36
41782713--41782809	32	3.1	32	74	7	99	35	14	12	38	1.84
41789104--41789142	18	2.1	18	85	4	51	12	10	0	76	1.01
41789979--41790016	20	1.9	20	89	10	60	84	0	13	2	0.73
41789979--41790014	12	2.8	13	91	4	56	86	0	11	2	0.68
41790026--41790063	16	2.3	17	90	4	60	81	2	7	7	0.96
41790986--41791084	38	2.6	38	93	4	164	55	8	1	35	1.36
41794235--41794278	20	2.2	20	83	4	52	27	31	13	27	1.94
41797714--41797773	27	2.2	27	81	0	66	41	18	8	31	1.80
41797753--41797844	27	3.4	27	83	5	114	29	22	7	40	1.82
41797876--41797972	27	3.6	26	77	13	90	43	22	8	25	1.81
41797981--41798036	27	2.1	28	80	9	64	41	12	8	37	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41798955--41799024	25	2.8	24	93	4	113	24	25	24	25	2.00
41798954--41799037	25	3.4	24	85	8	107	27	22	23	26	2.00
41799172--41799263	42	2.2	42	94	0	157	31	14	21	32	1.93
41799287--41799369	29	2.8	29	80	10	96	30	19	24	26	1.98
41802774--41802804	9	3.3	9	95	4	53	16	0	22	61	1.34
41803583--41803766	49	3.7	50	86	2	248	29	19	25	25	1.99
41805375--41805400	13	2.0	13	100	0	52	46	15	0	38	1.46
41827476--41827501	13	2.0	13	100	0	52	46	23	7	23	1.78
41831030--41831095	30	2.2	30	94	0	114	56	3	12	28	1.51
41832068--41832151	39	2.2	38	82	6	98	22	19	27	30	1.98
41838060--41838103	20	2.1	21	84	12	56	61	4	9	25	1.45
41843429--41843558	55	2.4	55	81	3	138	16	28	25	29	1.97
41845237--41845278	22	2.0	22	85	4	59	42	11	4	40	1.63
41849791--41849835	12	3.8	12	81	0	63	37	13	11	37	1.80
41851577--41851623	23	2.0	23	100	0	94	29	14	12	42	1.83
41855506--41855573	28	2.4	28	87	4	93	35	26	10	27	1.89
41855940--41856251	101	3.0	107	88	9	475	40	15	7	36	1.76
41859981--41860048	28	2.4	28	87	4	93	33	25	11	29	1.91
41860428--41860727	101	2.9	105	89	6	473	42	14	7	36	1.73
41865313--41865486	46	3.7	46	81	14	164	28	21	28	21	1.99
41865363--41865533	46	3.7	44	76	15	141	28	21	29	20	1.98
41877075--41877112	14	2.6	15	87	8	60	50	0	2	47	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41878220--41878253	14	2.3	15	90	5	52	44	0	23	32	1.54
41878356--41878410	24	2.3	24	77	0	65	40	9	14	36	1.78
41878468--41878633	54	3.1	54	87	0	226	34	13	24	27	1.93
41878641--41879116	39	12.2	39	76	4	287	40	16	22	20	1.91
41878641--41879076	78	5.6	78	76	4	326	41	16	21	20	1.91
41878641--41879116	117	4.1	117	75	3	352	40	16	22	20	1.91
41879096--41879329	54	4.3	54	83	1	290	37	14	23	25	1.92
41879306--41879661	39	9.1	39	74	4	243	40	14	23	22	1.90
41879402--41879665	117	2.3	117	76	5	273	42	15	21	20	1.89
41885182--41885452	46	5.7	50	78	14	227	23	32	18	25	1.97
41893995--41894031	18	2.1	18	100	0	74	21	0	21	56	1.42
41894310--41894369	21	2.9	21	83	11	70	51	6	0	41	1.28
41894495--41894541	25	1.9	25	86	4	69	36	2	4	57	1.30
41904049--41904321	43	6.6	43	88	7	429	30	32	25	10	1.90
41904223--41904290	34	2.0	34	100	0	136	29	35	26	8	1.87
41904314--41904437	38	3.2	38	83	2	131	29	27	20	22	1.99
41909687--41909999	43	7.5	43	88	6	482	32	32	24	9	1.88
41909858--41909924	34	2.0	34	96	0	125	29	31	28	10	1.90
41909772--41909999	120	1.9	120	96	0	420	31	32	26	10	1.89
41909815--41909967	77	2.0	77	96	0	279	30	32	26	10	1.90
41910041--41910116	38	2.0	40	89	5	120	26	27	23	22	1.99
41914882--41914921	19	2.0	21	90	9	66	37	0	22	40	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41915788--41915959	89	1.9	89	91	2	283	33	7	13	44	1.73
41916066--41916090	13	1.9	13	100	0	50	56	0	0	44	0.99
41916281--41916334	27	2.0	26	89	3	81	44	3	3	48	1.38
41920090--41920241	67	2.3	66	81	8	161	24	30	15	29	1.96
41920966--41921026	30	2.0	30	87	0	86	29	22	6	40	1.79
41923144--41923182	20	2.0	20	84	0	51	38	17	10	33	1.84
41923242--41923332	32	2.8	31	79	9	85	63	1	1	34	1.09
41923277--41923320	22	2.0	22	82	8	54	63	0	0	36	0.95
41923300--41923339	19	2.2	18	86	4	53	60	2	0	37	1.11
41923606--41923668	29	2.3	26	81	13	72	33	1	1	63	1.13

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