genome.fa.s1.2.7.7.80.10.50.1000.112.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: A01
Parameters: 2 7 7 80 10 50 1000
Length:  104050246

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   

This is table  112  of  316  ( 37835 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)
35273510--35273534	12	2.1	12	100	0	50	16	8	20	56	1.65
35293585--35293729	40	3.6	39	84	6	173	25	24	26	24	2.00
35301417--35301468	25	2.1	25	100	0	104	48	5	11	34	1.63
35302551--35302683	66	2.0	66	100	0	266	28	13	13	44	1.82
35308583--35308632	15	3.4	15	86	2	66	10	18	12	60	1.59
35320284--35320326	22	2.0	22	90	0	68	23	11	18	46	1.82
35325040--35325131	42	2.2	42	84	7	116	22	31	18	27	1.97
35339090--35339124	11	3.1	11	91	4	52	82	0	14	2	0.77
35339088--35339116	6	4.8	6	100	0	58	82	0	17	0	0.66
35339771--35339801	5	6.0	5	96	3	53	77	0	0	22	0.77
35340462--35340513	19	2.7	20	96	3	97	23	11	15	50	1.76
35340902--35341020	46	2.6	46	90	0	184	42	22	9	25	1.83
35341974--35342034	32	1.9	32	86	6	88	50	16	4	27	1.65
35345759--35345828	28	2.5	28	88	9	99	27	14	27	31	1.95
35349919--35350062	51	2.9	51	81	4	168	27	20	24	27	1.99
35353053--35353106	15	3.7	15	75	20	51	7	12	18	61	1.54
35355573--35355760	49	3.8	49	82	2	241	26	18	26	29	1.98
35355568--35355755	100	1.9	100	95	0	340	25	19	26	29	1.98
35359652--35359695	19	2.4	19	85	7	56	50	0	9	40	1.34
35362052--35362099	20	2.5	20	78	18	57	29	16	25	29	1.97
35364302--35364352	14	3.8	13	77	15	50	39	9	1	49	1.47
35366788--35366904	48	2.5	46	79	10	112	35	23	17	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35369449--35369539	44	2.1	44	97	0	173	19	21	28	29	1.98
35370726--35370834	20	5.4	20	80	4	80	39	17	7	35	1.78
35371021--35371175	23	6.9	23	70	18	78	34	16	21	26	1.95
35371008--35371094	23	3.6	25	76	16	87	29	17	24	28	1.97
35371034--35371127	22	4.4	21	76	18	88	32	19	21	26	1.97
35371073--35371109	18	2.1	18	94	0	65	35	24	13	27	1.93
35371036--35371139	22	4.9	22	77	16	78	33	19	21	25	1.97
35371120--35371203	24	3.5	23	70	14	71	34	16	22	26	1.95
35374483--35374646	42	3.8	42	77	3	166	28	17	23	31	1.97
35378662--35378699	19	2.0	19	85	10	51	42	0	15	42	1.47
35378857--35378913	29	2.0	29	89	6	89	43	0	3	52	1.18
35378972--35379043	33	2.2	32	88	11	103	40	0	6	52	1.28
35379096--35379140	23	2.0	22	82	4	54	33	0	11	55	1.35
35379346--35379380	18	1.9	18	88	0	52	82	5	2	8	0.91
35380027--35380057	15	2.1	15	100	0	62	25	0	12	61	1.32
35382667--35382731	32	2.0	32	100	0	130	38	24	6	30	1.80
35383056--35383118	28	2.2	29	81	13	69	39	1	20	38	1.62
35386112--35386171	31	1.9	31	82	0	75	43	5	21	30	1.74
35388983--35389023	20	2.0	20	85	0	55	41	4	2	51	1.36
35393189--35393229	19	2.2	19	86	8	57	29	21	7	41	1.80
35396573--35396611	20	2.1	19	90	9	62	58	5	5	30	1.41
35396842--35396928	27	3.1	28	75	11	72	74	3	3	18	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35396834--35396934	36	2.8	35	76	18	102	73	2	3	19	1.13
35396834--35396920	18	4.9	18	75	17	67	72	3	3	20	1.14
35396842--35396936	17	5.7	16	68	24	54	74	3	4	17	1.11
35397024--35397070	20	2.3	20	86	13	62	70	0	6	23	1.10
35397122--35397148	14	1.9	14	100	0	54	55	0	0	44	0.99
35397127--35397266	37	3.9	37	76	10	114	55	2	1	40	1.23
35397232--35397320	21	4.0	21	70	22	67	56	3	1	39	1.23
35397227--35397320	22	4.2	22	70	17	70	57	3	1	38	1.22
35397316--35397381	17	3.7	17	76	11	62	78	4	4	12	1.05
35397418--35397474	25	2.3	25	96	0	105	75	0	14	10	1.05
35401198--35401304	56	1.9	55	94	1	187	42	11	8	38	1.71
35403714--35403890	46	3.8	46	73	13	130	28	19	28	23	1.99
35411378--35411552	47	3.7	47	83	10	200	26	16	31	25	1.96
35416523--35416604	28	2.9	28	87	0	110	34	10	25	29	1.90
35421645--35421670	13	2.0	13	100	0	52	30	30	0	38	1.58
35421629--35421663	17	2.1	17	88	0	52	25	28	0	45	1.54
35424815--35424841	14	1.9	14	100	0	54	29	14	18	37	1.91
35425032--35425095	31	2.1	31	100	0	128	40	0	21	37	1.54
35426646--35426728	40	2.1	40	83	0	103	24	16	28	30	1.97
35426722--35426810	28	3.2	27	73	7	81	34	8	23	32	1.86
35429608--35429643	16	2.3	16	85	4	56	27	0	8	63	1.23
35446794--35446982	50	3.7	50	80	3	173	25	16	25	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35446856--35447075	51	4.3	51	81	1	183	26	16	27	29	1.97
35452383--35452597	40	5.4	40	79	8	190	23	22	28	26	1.99
35452381--35452571	80	2.4	79	83	6	226	21	22	28	26	1.99
35452381--35452597	79	2.7	80	78	10	223	23	22	28	26	1.99
35459042--35459080	1	39.0	1	100	0	78	100	0	0	0	0.00
35469509--35469695	39	4.8	40	81	7	195	22	21	29	26	1.99
35469509--35469707	79	2.5	78	80	8	201	22	22	29	26	1.99
35477577--35477793	40	5.5	41	83	6	227	23	23	28	24	2.00
35477577--35477793	79	2.7	80	80	10	241	23	23	28	24	2.00
35477577--35477793	119	1.8	119	82	7	280	23	23	28	24	2.00
35488788--35488828	11	4.0	10	87	12	57	78	0	0	21	0.76
35488788--35488841	14	3.9	14	79	18	51	77	1	0	20	0.86
35488788--35488841	24	2.2	24	84	12	67	77	1	0	20	0.86
35494993--35495053	30	2.0	30	100	0	122	37	19	13	29	1.90
35496562--35496607	18	2.6	18	82	6	58	13	26	34	26	1.92
35498857--35498884	12	2.3	12	100	0	56	75	0	0	25	0.81
35505314--35505531	49	4.6	49	69	10	130	23	27	19	29	1.98
35509620--35509645	13	2.0	13	100	0	52	0	38	23	38	1.55
35510631--35510934	46	6.6	44	79	10	274	22	29	20	27	1.98
35510582--35510935	92	3.8	89	79	10	311	23	29	20	27	1.98
35510582--35510932	138	2.5	138	88	3	510	23	29	19	27	1.98
35511651--35511675	12	2.1	12	100	0	50	60	16	8	16	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35514159--35514219	26	2.3	27	83	13	83	39	27	8	24	1.84
35514330--35514430	27	3.7	28	89	2	145	21	25	18	33	1.97
35529242--35529419	27	6.6	27	84	3	205	29	28	15	26	1.96
35529263--35529418	82	1.9	81	88	3	233	29	28	15	26	1.96
35539011--35539065	27	2.0	27	82	0	65	14	27	34	23	1.94
35543988--35544019	5	6.4	5	100	0	64	21	0	0	78	0.76
35545122--35545276	57	2.7	58	78	5	161	30	16	21	30	1.96
35549019--35549243	49	4.5	49	84	3	315	29	27	18	25	1.98
35552195--35552238	21	2.1	21	95	0	79	15	34	9	40	1.79
35557658--35557701	21	2.1	21	95	0	79	15	34	9	40	1.79
35557807--35557982	46	3.8	46	78	4	192	30	29	19	21	1.97
35557815--35557986	93	1.8	93	91	0	281	29	30	19	20	1.97
35562482--35562509	14	2.0	14	100	0	56	64	7	7	21	1.43
35562735--35562761	9	3.0	9	100	0	54	55	22	0	22	1.44
35566731--35566771	20	2.0	20	100	0	82	9	31	34	24	1.88
35568805--35568899	47	2.0	47	97	0	181	34	4	15	45	1.66
35568898--35569000	51	2.0	51	94	0	179	33	8	20	37	1.83
35573309--35573438	47	2.8	47	84	0	170	33	16	25	24	1.96
35575826--35575890	30	2.1	30	81	13	71	49	6	4	40	1.48
35578522--35578576	24	2.3	24	84	6	67	32	12	23	30	1.92
35578717--35578800	13	6.5	13	83	0	78	33	26	14	26	1.94
35578719--35578794	39	1.9	39	89	0	116	31	23	15	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35578719--35578800	26	3.2	26	85	0	101	32	25	14	26	1.95
35583809--35584011	47	4.3	47	91	0	316	32	8	30	28	1.88
35586146--35586220	38	2.0	38	86	5	107	30	18	26	24	1.98
35586278--35586674	40	9.9	40	92	1	589	25	22	26	25	2.00
35586873--35586981	57	1.9	57	88	1	164	23	19	28	28	1.98
35590590--35590792	47	4.3	47	91	0	316	32	8	30	28	1.88
35593346--35593633	48	6.0	48	79	2	317	26	28	18	27	1.98
35593350--35593633	96	2.9	96	88	1	408	26	28	17	27	1.98
35593354--35593633	144	1.9	145	84	5	370	26	28	17	27	1.98
35601873--35602014	40	3.5	40	90	1	196	24	21	28	25	1.99

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