genome.fa.s3.2.7.7.80.10.50.1000.162.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  162  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)
53295279--53295303	13	1.9	13	100	0	50	44	16	0	40	1.47
53296788--53296858	25	2.8	24	87	4	88	25	22	22	29	1.99
53297505--53297652	75	2.0	75	93	0	251	22	14	24	37	1.92
53301489--53301713	54	4.2	54	75	6	168	43	19	8	29	1.80
53301596--53301792	81	2.4	81	79	5	220	44	17	7	30	1.75
53301429--53301764	27	12.5	27	72	11	138	41	18	8	31	1.81
53302059--53302164	41	2.6	41	92	0	176	22	19	30	27	1.98
53302323--53302385	22	2.9	21	79	13	65	19	25	23	31	1.98
53305468--53305537	27	2.6	28	84	8	85	42	21	7	28	1.79
53305477--53305672	27	7.3	26	78	4	124	40	21	8	29	1.83
53305972--53306049	41	1.9	41	86	0	111	21	23	29	25	1.99
53306192--53306245	22	2.5	22	82	11	74	20	24	22	33	1.97
53306192--53306256	22	3.0	21	80	13	69	20	23	23	33	1.97
53309287--53309343	27	2.1	27	90	0	87	31	17	19	31	1.95
53309333--53309420	27	3.3	27	83	1	106	39	20	9	30	1.83
53309376--53309582	27	7.7	27	78	4	159	38	23	10	28	1.87
53310047--53310110	22	2.9	22	67	17	60	20	23	21	34	1.97
53310315--53310366	22	2.4	22	86	0	68	13	19	23	44	1.86
53310313--53310382	22	3.2	22	78	8	63	11	17	24	47	1.80
53312378--53312417	17	2.4	17	86	0	53	25	7	2	65	1.32
53314001--53314053	22	2.4	22	83	0	61	41	20	20	16	1.90
53321341--53321401	30	2.0	30	83	0	77	31	22	6	39	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53330396--53330439	21	2.1	21	84	12	56	31	2	20	45	1.64
53334324--53334354	16	1.9	16	93	0	53	35	22	0	41	1.54
53334321--53334360	20	2.0	20	85	0	53	37	22	0	40	1.54
53334591--53334800	55	3.9	55	81	8	243	22	25	18	33	1.96
53341921--53342112	51	3.8	51	80	0	170	25	15	27	32	1.96
53342016--53342157	51	2.8	51	83	2	169	27	16	28	27	1.97
53349725--53349890	50	3.3	50	79	3	163	37	17	14	30	1.90
53351237--53351270	17	2.0	17	100	0	68	41	11	29	17	1.85
53351599--53351778	46	3.8	49	77	15	193	28	27	21	22	1.99
53351606--53351778	93	1.9	93	90	2	276	28	27	21	23	1.99
53357132--53357286	46	3.3	46	73	15	147	29	28	20	21	1.98
53364034--53364154	44	2.8	42	81	8	136	30	25	17	26	1.97
53368160--53368375	50	4.3	49	84	2	234	38	19	13	27	1.90
53368160--53368375	100	2.2	100	83	3	265	38	19	13	27	1.90
53374008--53374126	27	4.4	27	81	0	103	36	16	20	26	1.93
53374818--53374894	27	2.9	27	80	5	93	22	23	20	33	1.97
53384779--53385042	40	6.7	40	86	5	324	26	21	26	26	1.99
53384779--53385075	119	2.5	118	80	9	311	26	20	26	25	1.99
53389006--53389147	27	5.3	27	84	0	176	36	19	19	24	1.95
53389287--53389374	27	3.3	26	76	6	86	19	20	21	38	1.93
53393362--53393603	50	4.9	48	77	8	225	25	19	25	29	1.99
53393362--53393604	101	2.4	99	80	4	274	25	19	25	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53400727--53400751	13	1.9	13	100	0	50	8	40	28	24	1.83
53401781--53402000	93	2.3	91	82	6	242	24	28	20	25	1.99
53401781--53402120	49	7.2	47	71	13	195	24	28	20	27	1.99
53404249--53404324	40	1.9	40	88	0	116	25	18	26	30	1.98
53410360--53410579	48	4.6	47	77	7	178	29	19	26	25	1.98
53410350--53410531	48	3.9	46	81	5	197	28	17	26	27	1.98
53410350--53410531	94	1.9	94	86	4	260	28	17	26	27	1.98
53418267--53418432	40	4.1	40	82	1	188	25	16	23	34	1.95
53418338--53418455	40	2.9	41	79	5	141	26	15	25	33	1.95
53418264--53418455	81	2.4	81	80	4	208	25	16	24	33	1.95
53420596--53420802	40	5.2	40	85	2	272	29	28	19	22	1.98
53423600--53423820	48	4.6	48	90	0	334	24	19	29	26	1.98
53428249--53428427	85	2.1	85	100	0	358	37	8	27	26	1.85
53429584--53429768	40	4.7	40	80	7	200	24	22	27	24	2.00
53436231--53436409	85	2.1	85	98	0	349	37	8	27	26	1.86
53437570--53437753	40	4.6	39	80	9	185	25	22	27	24	2.00
53437622--53437786	79	2.1	79	83	6	201	26	21	27	24	1.99
53439461--53439713	68	3.9	64	77	10	219	30	16	28	24	1.97
53444913--53444945	17	1.9	17	93	0	57	66	0	0	33	0.92
53448678--53448982	154	2.0	153	92	2	504	35	17	17	30	1.93
53456954--53457098	76	1.9	76	85	0	200	24	14	18	42	1.88
53458051--53458103	22	2.3	23	80	12	63	54	30	3	11	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53468720--53468944	40	5.6	40	88	6	321	24	28	23	23	1.99
53468720--53468944	83	2.8	82	88	6	336	24	28	23	23	1.99
53479370--53479476	55	1.9	55	92	0	178	19	23	34	22	1.96
53479384--53479489	55	1.9	55	88	0	158	18	24	33	22	1.97
53486429--53486458	16	1.9	15	93	6	51	33	23	0	43	1.54
53486661--53486947	50	5.7	50	81	3	299	30	25	18	25	1.98
53486719--53486900	101	1.8	101	93	0	319	28	24	20	26	1.99
53486662--53486947	151	1.9	151	89	2	448	30	25	18	25	1.98
53492940--53493148	46	4.5	46	79	8	212	24	29	19	27	1.98
53492940--53493148	94	2.3	90	83	8	253	24	29	19	27	1.98
53502558--53502769	40	5.3	40	87	4	243	25	21	28	25	1.99
53502505--53502769	80	3.3	80	81	6	272	25	21	27	25	1.99
53502558--53502802	80	3.1	80	80	4	203	26	22	28	23	1.99
53505928--53505987	26	2.3	26	85	2	77	38	21	20	20	1.94
53510429--53510473	20	2.3	19	81	11	54	46	4	13	35	1.63
53510688--53510761	37	2.0	37	97	0	139	41	10	22	24	1.86
53526079--53526166	25	3.3	25	71	17	86	64	9	4	21	1.40
53526083--53526172	24	3.4	24	68	21	72	65	8	4	21	1.38
53526083--53526175	31	3.2	31	65	27	85	66	8	4	20	1.36
53526067--53526178	56	2.0	56	98	0	215	63	8	5	22	1.44
53533981--53534065	44	1.9	44	83	4	109	24	18	25	30	1.98
53536701--53536914	27	7.9	27	84	2	268	34	18	21	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53536893--53536958	27	2.4	27	73	9	71	18	21	25	34	1.96
53537429--53537492	22	2.9	22	80	13	78	18	23	23	34	1.96
53537749--53537854	6	17.2	6	70	16	65	21	19	13	45	1.84
53537752--53537820	25	2.8	25	88	0	102	20	21	13	44	1.85
53537786--53537853	19	3.6	19	72	18	70	22	20	11	45	1.83
53537790--53537870	37	2.2	36	86	8	110	22	19	9	48	1.78
53542633--53542677	19	2.4	19	84	0	54	26	35	26	11	1.90
53544654--53544796	49	3.0	49	91	2	227	26	30	8	34	1.86
53547842--53547950	57	1.9	57	88	0	164	28	28	20	22	1.99
53547958--53548149	40	4.8	40	91	3	291	27	31	22	19	1.98
53549747--53549889	49	3.0	49	90	2	218	26	28	9	35	1.87
53557254--53557354	43	2.3	43	96	0	184	24	22	27	24	2.00
53557933--53557965	16	1.9	18	88	11	52	18	12	18	51	1.76
53564798--53564968	93	1.8	93	89	2	272	28	26	21	23	1.99
53564793--53564970	46	3.8	46	75	11	166	28	26	20	24	1.99
53567603--53568058	47	9.6	47	91	2	723	28	29	8	33	1.86
53567603--53568058	96	4.8	96	94	1	794	28	29	8	33	1.86
53567603--53568058	143	3.2	141	91	3	723	28	29	8	33	1.86
53576582--53576755	46	3.8	45	73	13	147	31	27	19	21	1.98
53576589--53576759	93	1.8	93	84	0	234	30	27	19	21	1.98
53578823--53578938	43	2.7	43	90	1	180	28	22	25	24	1.99
53583107--53583181	24	3.1	24	88	0	114	30	4	41	24	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53584592--53584698	27	4.0	26	83	8	126	18	23	21	36	1.95
53584592--53584698	54	2.0	53	90	1	169	18	23	21	36	1.95
53587903--53588088	40	4.7	40	88	5	234	26	26	22	24	2.00
53591365--53591505	43	3.3	41	77	12	124	26	19	24	29	1.98
53594898--53594961	29	2.2	29	78	8	69	32	10	3	53	1.52
53597794--53597880	43	2.0	43	100	0	174	40	16	9	34	1.80
53597876--53598089	107	2.0	107	100	0	428	25	18	14	42	1.88
53603898--53603947	20	2.5	20	86	3	73	50	12	12	26	1.74
53607265--53607300	18	2.0	18	88	0	54	66	0	0	33	0.92
53612034--53612172	69	2.0	69	91	2	226	23	20	18	38	1.94

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