genome.fa.s12.2.7.7.80.10.50.1000.134.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  134  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)
43827677--43827704	3	9.3	3	100	0	56	32	35	0	32	1.58
43829077--43829182	33	3.2	33	79	1	115	30	24	14	31	1.94
43829100--43829273	33	5.3	32	79	3	159	31	21	12	33	1.91
43829100--43829273	65	2.7	65	77	0	168	31	21	12	33	1.91
43829959--43830000	21	2.0	22	85	4	59	35	14	0	50	1.43
43836292--43836439	46	3.2	46	88	0	215	32	15	27	25	1.95
43836838--43837122	89	3.2	89	74	4	295	30	19	22	27	1.98
43836789--43837190	178	2.3	178	89	0	608	31	18	22	26	1.97
43837106--43837312	96	2.2	96	83	1	245	31	17	21	28	1.96
43838951--43838977	4	6.8	4	100	0	54	48	0	0	51	1.00
43839082--43839107	10	2.6	10	100	0	52	19	0	7	73	1.07
43839181--43839238	28	2.1	28	83	0	71	31	5	1	62	1.27
43840842--43840874	3	11.0	3	100	0	66	66	0	0	33	0.92
43842108--43842148	14	2.9	14	77	0	55	36	31	9	21	1.86
43849042--43849067	12	2.2	12	100	0	52	23	0	23	53	1.46
43852880--43853033	42	3.6	43	82	6	206	29	27	18	24	1.98
43860029--43860160	40	3.3	40	85	3	160	28	28	20	23	1.99
43860057--43860157	39	2.5	40	87	1	141	29	27	17	24	1.98
43862292--43862370	37	2.1	37	90	0	122	25	31	18	24	1.98
43862489--43863295	47	17.2	47	90	4	1195	28	30	8	31	1.88
43863032--43863105	22	3.3	22	65	10	60	27	31	12	29	1.92
43866623--43866738	40	2.9	40	84	0	124	25	30	20	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43866649--43866900	80	3.2	80	79	9	223	25	27	20	26	1.99
43866728--43866900	40	4.3	41	86	5	214	23	27	21	28	1.99
43867194--43867267	29	2.6	29	89	4	105	25	32	16	25	1.96
43867249--43867394	43	3.4	43	97	0	274	26	34	15	23	1.95
43869258--43869336	37	2.1	37	90	0	122	25	31	18	24	1.98
43869455--43870126	47	14.2	47	87	4	956	29	29	8	31	1.87
43869455--43870126	96	7.1	94	89	3	965	29	29	8	31	1.87
43872927--43872972	11	3.7	13	77	19	53	4	26	0	69	1.07
43872919--43872972	23	2.3	23	84	6	65	3	22	0	74	0.98
43879524--43879706	79	2.3	81	84	7	232	25	27	22	24	2.00
43879503--43879706	40	5.1	40	81	8	229	25	27	22	24	1.99
43887577--43887669	34	2.5	37	81	8	102	23	23	22	30	1.99
43891565--43891602	19	2.0	20	85	15	53	39	23	0	36	1.55
43897551--43897588	19	2.0	20	85	15	53	39	23	0	36	1.55
43897817--43897988	93	1.8	93	86	2	247	28	25	20	25	1.99
43902095--43902173	37	2.1	37	88	4	115	25	30	18	25	1.98
43902292--43903350	47	22.4	47	94	0	1785	29	29	8	33	1.87
43908674--43908882	39	5.3	39	91	3	307	24	27	21	25	1.99
43908674--43908932	78	3.3	78	82	11	291	24	27	21	26	1.99
43921055--43921125	30	2.3	30	80	7	81	19	4	5	70	1.24
43921561--43921590	15	2.0	15	93	0	51	36	0	6	56	1.26
43928095--43928126	11	2.9	11	95	0	55	34	9	9	46	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43929161--43929495	48	6.9	48	80	2	321	28	19	27	24	1.98
43929161--43929439	144	1.9	144	91	0	450	27	17	28	25	1.98
43938748--43938873	46	2.7	46	91	0	198	22	20	26	30	1.98
43945826--43945995	46	3.7	46	80	10	202	22	18	28	30	1.98
43945820--43945990	93	1.8	93	91	0	279	21	19	29	29	1.98
43951148--43951177	11	2.7	11	89	0	51	56	6	6	30	1.51
43952631--43953105	177	2.7	177	87	0	689	30	17	19	32	1.95
43953782--43954021	46	5.2	46	82	4	225	24	26	16	33	1.96
43953782--43954021	92	2.6	92	81	3	279	24	26	16	33	1.96
43957066--43957290	80	2.8	79	82	3	254	26	27	20	24	1.99
43957068--43957290	40	5.6	40	85	3	227	26	27	21	25	1.99
43957222--43957299	40	1.9	41	82	10	97	26	28	21	23	1.99
43963915--43963944	11	2.7	11	89	0	51	56	6	6	30	1.51
43967973--43968159	40	4.7	40	89	2	268	34	27	19	18	1.95
43974307--43974606	108	2.8	108	79	2	307	44	16	22	17	1.87
43977581--43977645	29	2.2	29	81	5	69	53	10	3	32	1.51
43986393--43986577	40	4.6	40	94	2	302	27	28	22	22	1.99
43991330--43991536	53	3.8	53	74	6	193	37	18	24	19	1.94
43999596--43999817	39	5.6	39	84	6	238	24	27	22	25	2.00
43999596--43999817	79	2.8	79	84	9	267	24	27	22	25	2.00
43999596--43999817	118	1.9	118	82	10	285	24	27	22	25	2.00
44004043--44004306	40	6.7	40	87	5	342	26	26	21	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44006179--44006218	20	1.9	22	90	10	66	22	10	10	57	1.61
44006341--44006473	67	2.0	67	89	0	203	30	31	16	21	1.95
44006445--44006580	58	2.4	54	83	7	157	31	25	17	25	1.97
44010057--44010161	53	2.0	53	88	0	156	38	19	21	20	1.94
44011906--44012029	47	2.6	48	82	7	146	23	28	18	29	1.98
44019729--44019932	40	5.1	40	90	1	295	25	27	24	22	2.00
44027802--44027953	40	3.8	40	92	1	234	26	28	22	22	1.99
44030027--44030053	12	2.2	12	100	0	54	14	18	33	33	1.92
44044357--44044405	26	1.9	26	91	4	82	20	0	8	71	1.11
44051100--44051159	25	2.4	25	88	2	95	38	5	10	46	1.59
44051403--44051446	23	1.9	23	85	0	61	45	18	11	25	1.82
44052088--44052117	3	10.0	3	92	0	51	33	3	0	63	1.11
44054048--44054120	31	2.4	31	90	2	112	46	6	19	27	1.75
44056537--44056585	23	2.1	23	88	0	71	20	24	24	30	1.98
44060209--44060475	48	5.6	48	78	4	252	26	18	30	24	1.98
44064146--44064191	19	2.4	19	100	0	92	34	17	15	32	1.91
44066798--44067014	120	1.8	120	84	4	303	23	20	26	29	1.99
44066793--44067082	80	3.7	81	80	3	288	24	21	26	28	1.99
44066793--44067046	40	6.3	41	84	1	268	24	21	25	28	1.99
44066793--44067046	120	2.1	120	81	4	298	24	21	25	28	1.99
44074212--44074288	37	2.1	37	100	0	154	32	2	29	35	1.71
44075134--44075387	40	6.3	41	86	1	277	25	20	25	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44075148--44075386	120	2.0	120	84	4	313	24	20	25	28	1.99
44098624--44098813	48	4.0	48	82	2	220	24	19	30	25	1.98
44098637--44098814	96	1.9	96	85	4	252	25	19	30	24	1.98
44104702--44104731	13	2.4	13	94	5	53	86	13	0	0	0.57
44107053--44107127	25	3.0	24	88	3	105	32	16	20	32	1.94
44107421--44107454	17	2.0	17	88	0	50	29	2	8	58	1.43
44110044--44110218	90	1.9	90	82	0	215	26	26	22	23	2.00
44114394--44114443	27	1.9	26	84	8	66	50	10	6	34	1.60
44132625--44132683	25	2.3	25	82	5	64	35	23	20	20	1.96
44138382--44138684	40	7.6	40	87	4	344	25	27	21	25	1.99
44138616--44138693	40	1.9	41	82	10	97	25	28	21	24	1.99
44153656--44153760	39	2.7	39	86	2	140	23	23	27	24	2.00
44168658--44168744	28	3.1	28	88	6	122	26	29	14	28	1.95
44168963--44168998	16	2.2	16	90	0	54	8	16	19	55	1.66
44168971--44169014	16	2.8	16	85	0	52	9	22	20	47	1.78
44170172--44170201	15	2.0	15	100	0	60	13	6	26	53	1.64
44170580--44170621	21	1.9	22	85	9	59	45	4	9	40	1.58
44173656--44173776	39	3.1	39	79	2	127	45	22	4	27	1.73
44175507--44175682	46	3.8	46	79	7	203	28	30	19	21	1.97
44175515--44175686	93	1.8	93	92	0	290	27	30	19	21	1.98
44178072--44178160	30	3.0	30	80	8	101	57	15	16	10	1.65
44178072--44178151	15	5.4	15	80	7	92	58	13	17	10	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44178083--44178160	15	5.2	15	78	9	79	56	15	16	11	1.67
44183539--44184187	326	2.0	326	95	0	1156	31	21	20	25	1.98
44185153--44185351	27	7.4	27	85	0	245	36	18	19	26	1.94
44185153--44185351	81	2.5	81	87	0	272	36	18	19	26	1.94
44186999--44187110	27	4.1	27	78	6	93	31	13	15	40	1.85
44187013--44187204	54	3.6	54	78	5	149	31	11	19	38	1.87
44187013--44187139	27	4.7	26	80	5	110	31	12	17	38	1.87
44187049--44187204	27	5.8	28	75	11	157	32	10	20	37	1.86
44193273--44193334	31	2.0	31	100	0	124	38	6	22	32	1.80
44194461--44194630	48	3.5	48	92	0	277	31	8	30	29	1.87

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