genome.fa.s10.2.7.7.80.10.50.1000.161.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: A10
Parameters: 2 7 7 80 10 50 1000
Length:  111961792

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   334   335   336   
          337   338   339   340   341   342   343   344   

This is table  161  of  344  ( 41197 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)
53736610--53736717	26	4.2	26	93	0	189	32	7	24	36	1.83
53741391--53741426	19	1.9	19	88	5	56	47	11	0	41	1.39
53741724--53741784	30	2.0	30	83	0	77	31	22	8	37	1.84
53745155--53745262	26	4.2	26	92	0	180	31	8	24	36	1.85
53757831--53757890	19	3.0	21	67	20	56	25	5	25	45	1.73
53757823--53757960	39	3.5	39	90	0	213	27	3	22	46	1.68
53759521--53759598	39	2.0	39	87	5	113	28	5	23	43	1.75
53763235--53763352	42	2.8	42	84	8	134	31	26	14	27	1.95
53772645--53772709	30	2.3	27	80	12	85	60	10	0	29	1.31
53772645--53772713	29	2.4	30	81	15	92	57	10	0	31	1.32
53774754--53775103	43	8.1	43	94	0	610	31	33	24	10	1.90
53790465--53790493	15	1.9	15	100	0	58	72	0	0	27	0.85
53792260--53792309	18	2.7	18	84	6	55	30	2	12	56	1.47
53794485--53794510	13	2.0	13	100	0	52	23	23	30	23	1.99
53794633--53794673	20	2.0	22	90	9	68	53	19	7	19	1.68
53795332--53795357	13	2.0	13	100	0	52	38	15	7	38	1.76
53802245--53802457	42	5.1	41	83	3	257	27	24	21	27	1.99
53802244--53802457	84	2.5	83	85	4	304	27	24	21	27	1.99
53807276--53807445	46	3.7	46	80	10	202	22	21	27	27	1.99
53807275--53807446	93	1.8	93	91	0	281	22	21	28	27	1.99
53810567--53810742	68	2.6	67	77	15	159	21	27	16	34	1.95
53815412--53815561	75	2.0	75	93	0	255	31	11	29	28	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53821498--53821760	136	1.9	138	87	1	386	46	6	7	40	1.56
53821669--53821848	88	2.1	86	88	2	261	46	6	6	41	1.53
53822275--53822310	9	4.0	9	92	0	63	63	11	13	11	1.51
53822719--53822826	37	2.9	37	91	0	162	25	30	20	24	1.98
53822945--53823431	47	10.3	47	94	0	821	29	29	8	32	1.87
53823435--53823737	48	6.3	48	90	0	453	33	27	5	34	1.79
53823436--53823739	145	2.1	146	89	0	466	33	26	5	34	1.79
53829400--53829650	39	6.4	39	83	0	268	32	17	30	19	1.95
53829433--53829496	19	3.3	19	71	4	65	32	18	34	14	1.91
53829452--53829516	20	3.3	20	73	4	69	29	18	35	16	1.93
53829444--53829505	19	3.2	19	69	13	54	35	17	30	16	1.92
53829400--53829642	78	3.1	78	84	1	308	32	17	30	20	1.95
53829400--53829635	117	2.0	117	88	0	346	32	17	30	20	1.95
53833550--53833628	29	2.7	29	86	5	106	27	32	15	24	1.95
53841536--53841610	29	2.6	29	87	4	98	26	32	16	25	1.96
53856105--53856168	30	2.2	29	91	2	101	35	21	15	26	1.94
53862183--53862222	20	2.0	20	85	9	55	47	25	0	27	1.52
53870075--53870336	48	5.5	48	83	4	250	25	29	17	26	1.98
53870121--53870336	96	2.3	93	86	4	281	25	30	17	26	1.97
53878789--53878934	48	3.0	48	88	0	211	28	23	19	27	1.99
53881690--53881907	40	5.5	40	86	4	282	25	26	22	25	2.00
53889897--53890114	40	5.5	40	89	4	318	24	27	23	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53892066--53892230	43	3.9	41	73	7	123	23	16	27	31	1.96
53892927--53892972	23	2.0	22	87	4	65	13	0	23	63	1.30
53893556--53893608	27	2.0	27	92	7	90	32	20	13	33	1.91
53899803--53899908	27	3.9	27	79	4	124	26	20	11	41	1.86
53912093--53912198	42	2.5	44	78	6	110	26	17	22	33	1.96
53916259--53917545	641	2.0	641	97	0	2421	30	13	22	32	1.93
53920367--53920529	43	3.8	42	78	11	170	22	19	26	31	1.97
53924829--53924996	43	3.9	43	92	1	266	13	23	32	30	1.92
53924808--53924983	86	2.1	84	89	4	264	13	22	32	31	1.92
53925313--53925439	45	2.9	44	81	12	138	25	23	28	22	1.99
53930251--53930330	38	2.1	38	85	0	106	21	22	26	30	1.99
53930352--53930410	27	2.2	27	96	0	109	8	23	35	32	1.85
53930323--53930453	70	1.9	70	95	0	235	11	25	32	30	1.91
53930375--53930458	43	2.0	43	97	0	159	11	26	30	30	1.92
53930380--53930474	43	2.2	43	90	0	145	13	24	33	28	1.93
53930791--53930898	45	2.5	42	83	8	119	23	23	26	26	2.00
53938025--53938096	33	2.2	32	82	7	83	19	25	18	37	1.94
53946546--53946588	21	2.0	21	100	0	86	41	23	9	25	1.84
53954210--53954418	38	5.0	38	73	18	166	29	24	15	29	1.96
53954250--53954383	48	2.8	48	87	1	189	31	22	15	30	1.95
53961468--53961498	16	1.9	16	93	0	53	35	0	32	32	1.58
53975098--53975195	18	5.4	18	86	2	117	75	5	5	14	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53975098--53975195	12	8.2	12	83	0	106	75	5	5	14	1.15
53975098--53975183	36	2.4	36	94	3	147	76	4	4	13	1.10
53976822--53976884	21	2.9	21	81	9	65	73	1	12	12	1.18
53999057--53999154	18	5.4	18	86	2	117	75	5	5	14	1.15
53999057--53999154	12	8.2	12	83	0	106	75	5	5	14	1.15
53999057--53999142	36	2.4	36	94	3	147	76	4	4	13	1.10
54000774--54000836	21	2.9	21	81	9	65	73	1	12	12	1.18
54017767--54018228	47	9.7	47	92	2	664	27	30	9	33	1.88
54019662--54019846	79	2.3	81	78	8	200	25	28	21	24	1.99
54019643--54019846	40	5.1	40	78	8	211	25	27	21	25	1.99
54027668--54027852	40	4.7	40	82	6	198	25	28	21	24	1.99
54027668--54027852	79	2.3	80	78	8	189	25	28	21	24	1.99
54037856--54037894	21	1.9	20	85	15	53	15	35	25	23	1.94
54038136--54038191	26	2.2	26	100	0	112	33	25	10	30	1.90
54039800--54039860	9	6.9	9	80	14	65	9	11	3	75	1.16
54039800--54039848	17	2.8	17	87	6	62	8	12	4	75	1.16
54039844--54039873	14	2.1	14	93	0	51	20	6	3	70	1.25
54046462--54046551	44	2.0	44	85	8	121	33	25	20	21	1.97
54047413--54047476	19	3.4	19	82	6	85	7	12	7	71	1.29
54047414--54047476	10	6.6	10	76	10	60	7	12	6	73	1.25
54047464--54047493	14	2.1	14	93	0	51	20	6	3	70	1.25
54048354--54048394	3	14.0	3	94	5	75	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54054801--54054834	17	2.0	17	100	0	68	70	17	11	0	1.16
54057877--54057953	22	3.2	22	65	25	57	49	9	2	38	1.48
54057881--54057981	50	2.0	50	100	0	202	49	7	3	38	1.51
54057896--54057984	28	3.4	28	66	23	84	49	5	4	40	1.47
54059460--54059517	30	1.9	30	82	6	73	24	32	27	15	1.95
54068672--54068703	14	2.3	14	94	0	55	31	43	15	9	1.78
54073797--54073828	14	2.3	14	94	0	55	31	43	15	9	1.78
54074616--54074654	17	2.3	17	86	0	60	17	7	0	74	1.05
54074624--54074688	24	2.8	24	75	11	62	13	10	3	72	1.23
54093102--54093200	50	2.0	50	95	0	180	32	13	24	30	1.93
54093329--54093393	34	1.9	34	100	0	130	44	30	15	9	1.78
54094109--54094232	49	2.5	50	83	5	137	25	20	17	36	1.94
54096104--54096136	16	2.1	16	94	0	57	45	0	6	48	1.27
54104347--54104768	86	4.9	85	78	7	349	22	13	22	41	1.89
54104347--54104768	43	9.9	43	74	4	316	22	13	22	41	1.89
54104346--54104768	170	2.5	170	81	4	456	22	13	22	41	1.89
54106931--54107146	46	5.0	46	81	14	260	22	24	14	37	1.92
54107054--54107124	34	2.1	34	100	0	142	23	26	14	35	1.93
54109570--54109637	30	2.3	30	84	5	84	27	17	5	48	1.70
54111478--54111545	28	2.5	25	77	17	66	63	2	1	32	1.18
54111477--54111537	28	2.2	26	85	11	77	63	3	1	31	1.20
54113360--54113435	27	2.8	27	85	0	89	26	15	19	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54113370--54113448	27	2.9	27	86	0	95	27	11	20	40	1.87
54113429--54113823	27	14.7	27	83	4	293	29	9	21	38	1.85
54113402--54113823	54	7.8	56	80	7	342	29	9	21	39	1.85
54113402--54113823	81	5.2	80	78	4	342	29	9	21	39	1.85
54116975--54117018	19	2.4	19	85	7	56	54	4	6	34	1.47
54117789--54117839	13	3.7	13	80	14	57	7	5	15	70	1.30
54118062--54118167	30	3.6	29	71	12	81	45	1	24	28	1.64
54118061--54118148	30	3.0	30	75	8	90	45	2	22	29	1.65
54118174--54118219	24	1.9	24	95	0	83	26	0	2	71	0.97
54118456--54118615	10	16.5	10	66	19	63	65	2	2	30	1.19

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   334   335   336   
          337   338   339   340   341   342   343   344