genome.fa.s12.2.7.7.80.10.50.1000.125.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: A12
Parameters: 2 7 7 80 10 50 1000
Length:  103038859

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   

This is table  125  of  320  ( 38372 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)
40651242--40651351	55	2.0	55	96	0	202	34	7	20	37	1.81
40655586--40655669	31	2.7	31	92	1	134	21	23	17	36	1.94
40656005--40656042	10	3.7	10	86	6	58	34	21	15	28	1.94
40656084--40656134	25	2.0	25	92	0	84	25	19	23	31	1.98
40662789--40662848	30	2.0	30	90	0	93	30	25	8	36	1.85
40665138--40665361	40	5.7	40	85	6	271	24	22	27	25	2.00
40665138--40665361	79	2.8	79	82	9	269	24	22	27	25	2.00
40665191--40665394	79	2.6	79	82	5	209	25	21	27	25	1.99
40667707--40667834	27	4.8	27	82	1	150	28	22	9	39	1.85
40667708--40667833	53	2.4	54	84	8	159	29	21	9	39	1.85
40667826--40668163	27	12.6	27	89	2	495	35	20	20	24	1.96
40667826--40668163	80	4.2	81	88	3	495	35	20	20	24	1.96
40668600--40668664	22	3.0	22	80	8	78	20	23	23	33	1.97
40668823--40668924	27	3.8	27	85	5	116	18	22	21	37	1.94
40668823--40668924	54	1.9	53	83	2	132	18	22	21	37	1.94
40669104--40669138	12	2.9	12	86	0	52	25	17	8	48	1.75
40670457--40670579	50	2.6	49	83	5	144	26	21	15	35	1.94
40674297--40674367	31	2.3	31	82	4	90	50	12	15	21	1.77
40674583--40674634	27	2.0	26	84	3	68	34	21	26	17	1.95
40674870--40675038	27	6.2	27	88	0	221	39	6	23	31	1.80
40675060--40675184	27	4.7	27	77	12	105	31	8	20	40	1.82
40675033--40675194	54	3.0	54	81	4	193	32	8	20	38	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40677372--40677455	31	2.7	30	87	1	114	23	22	19	34	1.96
40677668--40677745	25	3.2	24	87	5	104	25	21	24	28	1.99
40677790--40677829	10	3.9	10	87	6	62	30	20	20	30	1.97
40684199--40684375	27	6.5	27	81	5	160	28	29	15	25	1.96
40684220--40684379	82	2.0	81	86	3	223	28	30	16	25	1.97
40698221--40698406	40	4.7	40	86	5	225	26	26	22	24	2.00
40703055--40703079	13	1.9	13	100	0	50	4	40	24	32	1.73
40715588--40715628	17	2.4	17	91	0	64	17	4	0	78	0.93
40723461--40723589	43	3.0	43	79	9	156	28	27	18	24	1.98
40742879--40743029	43	3.5	42	79	8	162	26	21	25	26	1.99
40742878--40743036	85	1.9	85	85	2	221	25	20	25	27	1.99
40744400--40744486	24	3.6	24	96	0	156	34	4	37	22	1.75
40746112--40746192	33	2.4	34	77	8	94	28	18	23	29	1.98
40752275--40752349	24	3.1	24	90	1	123	36	5	38	20	1.75
40766566--40766611	24	1.9	24	82	8	58	71	2	17	8	1.21
40767852--40768035	40	4.6	39	82	9	203	23	22	28	26	1.99
40767904--40768068	79	2.1	79	83	6	201	25	20	27	26	1.99
40774793--40774835	16	2.6	16	75	17	52	46	18	18	16	1.84
40775048--40775138	28	3.2	28	90	3	139	25	14	32	27	1.94
40779897--40779984	46	1.9	46	88	0	122	27	30	22	19	1.98
40784629--40785331	47	15.1	47	93	2	1179	31	9	29	28	1.89
40784629--40785280	229	2.8	231	96	2	1166	32	9	29	29	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40784629--40785331	280	2.5	276	94	1	1183	31	9	29	28	1.89
40785450--40785528	37	2.1	37	88	4	115	25	18	30	25	1.98
40787384--40787486	43	2.4	43	100	0	206	22	15	35	26	1.94
40787933--40788208	40	6.9	40	94	0	473	25	22	26	25	2.00
40791611--40792184	47	12.1	47	92	2	889	32	9	29	28	1.88
40791911--40791994	25	3.3	25	64	23	66	32	4	29	33	1.78
40792303--40792381	37	2.1	37	88	4	115	25	18	30	25	1.98
40804659--40804710	25	2.1	25	89	3	79	28	17	21	32	1.96
40804666--40804736	25	2.8	25	84	2	88	29	19	23	26	1.98
40812252--40812334	30	2.7	31	90	3	134	21	26	20	31	1.98
40812530--40812625	25	3.8	24	80	12	88	30	21	20	27	1.98
40812555--40812625	25	2.8	26	85	6	92	29	22	22	25	1.99
40814809--40814842	17	2.1	16	88	5	50	44	11	0	44	1.40
40820105--40820271	43	3.9	43	73	9	144	30	14	23	30	1.95
40823531--40823620	28	3.2	27	81	7	101	33	24	23	18	1.97
40823726--40823790	28	2.3	28	94	0	112	30	9	27	32	1.88
40849449--40849658	39	5.3	39	92	2	316	24	27	22	25	2.00
40849449--40849710	78	3.3	78	86	7	302	24	27	22	26	2.00
40849449--40849710	118	2.2	119	82	9	324	24	27	22	26	2.00
40851303--40851388	28	3.1	28	89	3	120	32	26	12	27	1.93
40854820--40854871	27	2.0	26	84	3	68	17	26	21	34	1.95
40854910--40854969	27	2.3	27	85	2	77	21	23	20	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40863321--40863591	40	6.8	40	87	1	366	24	28	22	24	1.99
40868397--40868454	25	2.3	25	100	0	116	44	20	13	20	1.85
40871479--40871748	40	6.8	40	88	2	375	24	29	22	24	1.99
40874260--40874290	14	2.2	14	100	0	62	41	6	22	29	1.78
40881883--40881991	22	5.0	22	82	0	119	14	29	22	33	1.94
40881883--40881991	44	2.5	44	86	0	137	14	29	22	33	1.94
40887150--40887327	27	6.6	27	77	6	137	30	28	15	25	1.96
40887150--40887327	54	3.3	54	78	7	164	30	28	15	25	1.96
40900697--40900758	31	2.0	31	90	0	97	35	8	17	38	1.80
40904525--40904549	13	1.9	13	100	0	50	12	32	40	16	1.84
40907687--40907770	31	2.7	31	92	1	143	27	26	17	28	1.98
40907980--40908246	26	10.3	26	84	2	333	30	23	18	27	1.98
40909154--40909388	27	8.7	26	78	8	184	30	8	19	41	1.80
40909265--40909421	54	2.9	54	83	3	183	28	10	20	40	1.85
40909265--40909415	27	5.6	27	85	6	128	27	9	21	41	1.83
40909265--40909421	81	1.9	81	81	7	185	28	10	20	40	1.85
40909420--40909617	27	7.3	27	87	2	236	40	7	23	29	1.81
40909420--40909617	54	3.7	53	89	2	270	40	7	23	29	1.81
40915527--40915565	12	3.2	12	88	0	51	25	23	43	7	1.80
40916616--40916714	48	2.1	48	100	0	198	50	8	14	27	1.70
40923905--40923979	38	2.0	38	100	0	150	33	8	26	32	1.85
40927182--40927346	43	3.9	42	76	12	167	24	16	27	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40927190--40927354	42	3.9	43	77	10	160	24	15	28	31	1.96
40930595--40930846	125	2.0	124	96	0	468	35	10	15	37	1.83
40932540--40932715	46	3.8	46	76	10	178	21	19	28	30	1.98
40932536--40932708	93	1.9	93	88	0	265	21	20	28	29	1.98
40935638--40935693	15	3.7	15	88	7	87	12	16	10	60	1.58
40938090--40938265	46	3.8	46	75	10	169	20	22	27	30	1.98
40938086--40938256	93	1.8	93	88	0	261	21	22	27	28	1.99
40959040--40959087	13	3.6	13	75	13	53	22	14	10	52	1.72
40979635--40979796	39	4.2	39	91	4	249	19	23	27	29	1.98
40979634--40979828	39	5.0	39	86	5	134	19	22	28	29	1.98
40981540--40981585	17	2.7	17	93	0	83	19	26	39	15	1.91
40981540--40981635	40	2.6	36	77	15	106	22	23	35	17	1.95
40981539--40981594	17	3.3	17	87	0	76	21	25	37	16	1.93
40984426--40984477	25	2.0	25	85	3	68	21	9	9	59	1.57
40984434--40984483	26	1.9	26	84	8	66	18	10	16	56	1.67
40989255--40989475	46	4.8	46	79	8	225	23	28	20	28	1.99
40989255--40989475	94	2.4	95	79	8	240	23	28	20	28	1.99
41001177--41001360	67	2.8	64	77	8	194	29	17	29	22	1.97
41012998--41013075	39	2.0	39	97	0	147	30	24	12	32	1.93
41015920--41015946	11	2.5	11	100	0	54	55	14	0	29	1.40
41024574--41024723	55	2.8	54	80	4	149	26	15	29	28	1.96
41024546--41024723	27	6.6	27	77	6	146	25	15	28	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41024547--41024702	82	1.9	81	81	6	190	25	16	28	30	1.96
41039674--41039748	34	2.2	35	83	9	111	28	25	20	26	1.99
41043319--41043356	19	2.0	19	85	10	51	68	0	10	21	1.19
41050859--41050978	39	3.1	39	87	2	168	27	25	20	26	1.99
41050857--41050985	40	3.2	40	86	2	170	27	26	20	26	1.99
41050973--41051050	40	1.9	41	82	10	97	26	28	21	23	1.99
41057717--41057848	40	3.3	40	86	2	176	26	27	21	25	1.99
41057833--41057910	40	1.9	41	82	10	97	26	28	21	23	1.99
41064166--41064219	27	2.0	27	85	7	74	53	0	7	38	1.29
41065124--41065290	56	3.0	56	86	0	226	28	13	22	35	1.92

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