genome.fa.s12.2.7.7.80.10.50.1000.37.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  37  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)
10573772--10573813	17	2.5	17	80	3	50	28	0	40	30	1.57
10574712--10574754	20	2.2	19	83	4	50	37	11	9	41	1.74
10575539--10575582	23	2.0	22	86	4	61	47	9	15	27	1.76
10575669--10575725	28	2.1	27	80	9	62	61	3	3	31	1.30
10575905--10575946	20	2.2	19	83	12	50	61	2	9	26	1.39
10576415--10576449	17	2.1	17	88	0	52	45	20	20	14	1.85
10577338--10577384	22	2.2	22	84	3	60	14	8	23	53	1.69
10578534--10578589	21	2.6	22	80	5	69	17	33	32	16	1.92
10581237--10581274	15	2.5	15	95	0	67	31	18	2	47	1.62
10600657--10600701	19	2.3	20	82	17	60	33	4	0	62	1.15
10601516--10601554	21	1.9	20	89	5	60	61	7	2	28	1.37
10603030--10603068	19	2.0	19	90	5	60	12	2	10	74	1.17
10603030--10603071	20	2.1	20	86	8	59	11	2	11	73	1.18
10610581--10610611	12	2.6	12	100	0	62	25	48	19	6	1.72
10614870--10614949	19	4.2	19	79	4	81	41	22	7	28	1.81
10614891--10614928	20	1.9	20	88	0	58	39	23	7	28	1.83
10615095--10615209	24	4.7	24	82	12	112	31	20	22	25	1.98
10616044--10616081	19	2.0	19	100	0	76	21	31	5	42	1.75
10619859--10619909	20	2.5	20	77	0	57	58	1	3	35	1.28
10620022--10620092	15	4.6	15	69	19	56	60	1	4	33	1.25
10620038--10620116	35	2.4	34	81	10	92	58	0	7	34	1.27
10628879--10628917	15	2.5	16	87	8	62	53	0	5	41	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10634358--10634412	27	2.0	27	100	0	110	20	29	7	43	1.78
10636597--10636693	30	3.2	30	75	2	106	28	15	26	28	1.96
10638873--10638904	12	2.7	12	100	0	64	25	15	12	46	1.81
10638965--10639014	6	8.2	6	81	16	50	2	20	2	76	0.99
10638954--10639024	37	1.9	37	86	11	101	2	18	2	76	1.04
10638950--10639010	16	3.8	16	77	14	63	3	19	1	75	1.03
10639928--10639972	14	3.5	14	71	22	53	13	13	4	68	1.35
10639928--10639973	24	2.0	23	100	0	83	13	13	4	69	1.33
10639917--10639970	24	2.2	24	90	3	81	11	14	3	70	1.29
10639930--10639982	24	2.2	24	86	0	70	15	11	5	67	1.38
10639929--10639983	25	2.2	24	87	3	74	14	10	5	69	1.35
10639966--10639994	13	2.1	14	93	6	51	13	3	6	75	1.13
10640074--10640120	11	3.9	11	80	20	58	8	6	6	78	1.08
10641724--10641820	30	3.2	30	75	2	106	28	15	26	28	1.96
10642418--10642515	33	2.9	35	73	19	91	45	4	0	50	1.20
10642466--10642522	30	1.9	30	82	13	73	45	5	0	49	1.24
10652324--10652356	2	16.5	2	93	0	57	48	0	3	48	1.17
10655460--10655506	22	2.1	22	92	0	76	38	6	14	40	1.72
10659105--10659241	21	6.6	21	76	1	132	16	20	17	45	1.85
10659104--10659241	42	3.3	41	79	4	152	15	20	17	46	1.84
10665721--10665765	19	2.3	19	84	3	54	44	0	4	51	1.21
10665774--10665821	20	2.4	21	82	6	64	70	4	0	25	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10675257--10675324	30	2.2	30	82	7	84	45	16	4	33	1.67
10679813--10679854	22	1.9	22	90	0	66	42	14	2	40	1.58
10688363--10688431	34	2.0	34	100	0	138	37	17	14	30	1.90
10693823--10693857	16	2.1	17	89	5	54	42	2	14	40	1.60
10694850--10694904	6	9.2	6	95	0	74	16	23	0	60	1.36
10694850--10694904	18	3.1	18	89	0	83	16	23	0	60	1.36
10710680--10710785	53	2.0	53	87	3	151	42	14	11	32	1.81
10712252--10712455	53	3.8	53	76	3	183	36	18	23	22	1.95
10716703--10716883	91	2.0	90	95	1	326	30	19	8	40	1.81
10720626--10720660	16	2.1	17	89	5	54	42	8	0	48	1.33
10723730--10723770	22	1.9	21	85	14	57	24	2	19	53	1.57
10729093--10729135	22	2.0	22	85	0	59	55	6	13	23	1.62
10729986--10730033	18	2.7	18	80	0	60	58	0	0	41	0.98
10729994--10730053	20	3.1	18	84	13	75	66	0	0	33	0.92
10730009--10730071	29	2.1	31	77	11	53	65	0	0	34	0.93
10737076--10737339	94	2.8	94	93	1	440	45	4	20	29	1.72
10741714--10741760	24	2.0	24	86	0	67	59	31	2	6	1.34
10748013--10748184	93	1.8	93	96	0	317	28	29	20	21	1.98
10748006--10748181	46	3.8	46	79	12	216	29	28	20	21	1.98
10763307--10763332	2	13.0	2	100	0	52	50	0	50	0	1.00
10767829--10767871	22	2.0	22	81	9	52	32	2	18	46	1.62
10775740--10775862	38	3.3	38	91	1	194	22	28	22	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10776925--10776951	4	6.8	4	100	0	54	77	0	0	22	0.76
10776992--10777033	22	1.9	22	85	9	59	23	52	9	14	1.71
10777108--10777157	23	2.2	23	85	0	64	12	2	28	58	1.45
10777099--10777177	25	3.2	25	78	7	81	8	1	26	63	1.32
10777138--10777178	22	1.9	21	90	5	64	4	0	24	70	1.06
10777288--10777335	20	2.4	20	93	6	80	14	14	2	68	1.30
10777529--10777608	3	26.3	3	72	20	53	30	3	1	65	1.18
10777532--10777610	12	6.5	12	74	12	72	30	3	1	64	1.19
10777683--10777733	3	16.0	3	84	11	50	31	0	5	62	1.19
10780426--10780472	19	2.5	19	86	6	60	27	19	8	44	1.79
10783264--10783290	6	4.5	6	100	0	54	55	14	29	0	1.40
10783292--10783320	8	3.6	8	100	0	58	79	20	0	0	0.74
10783291--10783330	8	4.7	9	90	6	57	82	17	0	0	0.67
10784474--10784600	66	1.9	66	95	0	227	33	20	11	35	1.88
10784664--10785301	87	7.3	85	73	11	418	35	21	23	19	1.96
10784664--10785603	43	21.5	43	73	9	509	35	21	22	20	1.96
10784653--10785522	132	6.6	132	84	5	1093	35	22	22	19	1.96
10784653--10785522	261	3.3	261	90	2	1286	35	22	22	19	1.96
10784653--10785625	132	7.4	131	81	8	746	35	21	22	20	1.96
10784834--10785622	87	9.0	86	71	10	334	35	21	22	20	1.96
10785635--10785825	68	2.8	68	91	1	294	29	22	22	25	1.99
10785937--10786400	44	10.6	44	80	6	451	29	18	24	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10785968--10786400	176	2.5	176	97	0	803	30	18	24	26	1.98
10785878--10786459	44	13.2	44	78	7	330	30	19	24	25	1.98
10785885--10786459	176	3.3	177	87	2	750	30	19	24	25	1.98
10785878--10786457	132	4.4	132	80	6	552	30	19	24	25	1.98
10786795--10786836	22	1.9	22	85	9	59	23	52	9	14	1.71
10786930--10786981	24	2.2	24	86	6	70	5	0	26	67	1.13
10787311--10787393	3	27.3	3	73	20	59	30	3	1	65	1.17
10787311--10787393	18	4.4	18	79	13	87	30	3	1	65	1.17
10787310--10787397	27	3.3	26	73	12	81	30	3	1	64	1.17
10793954--10793997	21	2.1	21	100	0	88	22	11	9	56	1.62
10795890--10795919	14	2.2	13	94	5	51	40	20	6	33	1.78
10800000--10800073	28	2.6	28	87	4	105	31	32	13	22	1.93
10800058--10800272	40	5.4	40	89	0	313	34	26	16	23	1.95
10800058--10800272	80	2.7	80	92	0	358	34	26	16	23	1.95
10801714--10801750	7	5.4	7	90	3	58	27	24	0	48	1.51
10810069--10810124	28	2.0	27	93	3	94	41	3	25	30	1.72
10818628--10818802	46	3.8	46	76	13	178	29	29	20	20	1.97
10818636--10818806	93	1.8	93	89	0	270	29	29	20	20	1.98
10819117--10819167	26	2.0	26	100	0	102	15	27	7	49	1.72
10823243--10823281	6	6.3	6	84	3	51	76	2	5	15	1.06
10834563--10834705	62	2.3	62	86	1	207	23	27	25	24	2.00
10842858--10842913	27	2.1	26	93	3	94	58	3	23	14	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10844354--10844412	31	1.9	31	100	0	118	30	18	23	27	1.98
10853414--10853469	19	3.1	18	72	23	55	39	1	3	55	1.28
10853581--10853633	21	2.5	21	87	0	70	32	37	7	22	1.82
10853693--10853736	21	2.1	21	100	0	88	18	15	18	47	1.83
10855497--10855587	33	2.8	33	98	0	173	28	41	10	18	1.84
10857551--10857592	21	2.0	21	100	0	84	19	14	19	47	1.82
10860772--10860828	12	4.8	12	72	12	55	19	17	14	49	1.80
10861083--10861127	23	2.0	23	82	8	56	40	11	15	33	1.83
10862185--10862218	8	4.1	8	92	7	59	85	0	0	14	0.60
10862186--10862217	9	3.7	9	95	4	57	90	0	0	9	0.45

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