genome.fa.s5.2.7.7.80.10.50.1000.158.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: A05
Parameters: 2 7 7 80 10 50 1000
Length:  100714657

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   

This is table  158  of  318  ( 38109 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)
49835617--49835661	23	2.0	23	90	0	72	42	26	17	13	1.86
49836239--49836284	21	2.2	21	84	7	58	43	17	0	39	1.49
49841314--49841466	48	3.2	47	79	5	155	29	16	26	26	1.97
49842811--49842878	30	2.3	30	97	0	127	42	10	2	44	1.53
49853677--49853848	93	1.8	93	91	2	283	28	28	20	22	1.99
49853670--49853845	46	3.8	46	76	14	182	29	28	20	21	1.98
49853721--49853864	46	3.1	46	71	21	131	28	27	20	23	1.99
49856232--49856319	30	3.0	30	83	8	108	55	15	18	10	1.68
49856231--49856310	15	5.4	15	77	7	83	57	13	18	10	1.64
49856242--49856319	15	5.2	15	75	9	70	55	15	17	11	1.69
49859265--49859436	93	1.8	93	94	0	308	27	29	21	22	1.99
49859258--49859433	46	3.8	46	79	12	207	28	28	21	21	1.98
49859266--49859452	46	4.0	46	70	21	140	27	28	20	22	1.99
49861816--49861903	30	3.0	30	83	8	108	55	15	18	10	1.68
49861815--49861894	15	5.4	15	77	7	83	57	13	18	10	1.64
49861826--49861903	15	5.2	15	75	9	70	55	15	17	11	1.69
49864849--49865020	93	1.8	93	94	0	308	27	29	21	22	1.99
49864842--49865017	46	3.8	46	79	12	207	28	28	21	21	1.98
49864850--49865036	46	4.0	46	70	21	140	27	28	20	22	1.99
49872329--49872495	46	3.6	48	78	6	157	32	17	25	23	1.97
49872834--49872867	10	3.3	10	88	8	50	58	17	20	2	1.51
49874720--49874890	94	1.8	92	88	2	261	30	18	27	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49874717--49874977	46	5.7	45	76	9	233	27	19	27	24	1.98
49874714--49875014	136	2.2	140	79	7	321	26	19	28	25	1.99
49879799--49879836	16	2.3	16	95	4	67	18	5	18	57	1.58
49889898--49890344	47	9.5	47	93	0	714	33	8	29	29	1.87
49889898--49890344	190	2.4	188	92	0	732	33	8	29	29	1.87
49890463--49890541	37	2.1	37	90	0	122	24	18	31	25	1.98
49895631--49895964	48	6.9	48	78	1	310	26	28	19	26	1.99
49895631--49895961	96	3.4	95	86	3	412	25	28	19	26	1.99
49904959--49904984	2	13.0	2	100	0	52	50	0	0	50	1.00
49905347--49905399	19	2.8	18	94	2	79	20	37	22	18	1.94
49905355--49905399	19	2.4	19	100	0	90	22	37	22	17	1.94
49920553--49920663	28	3.9	29	81	6	113	26	14	31	27	1.95
49923345--49923400	26	2.1	27	90	3	87	30	14	26	28	1.95
49924324--49924348	12	2.1	12	100	0	50	16	24	32	28	1.96
49925480--49925617	48	2.9	45	71	15	116	34	26	18	19	1.95
49930501--49930550	25	2.0	25	96	0	91	42	18	20	20	1.90
49932754--49932883	64	2.0	64	96	0	242	33	10	13	42	1.79
49935209--49935398	40	4.8	40	94	1	319	23	22	28	25	1.99
49935209--49935424	40	5.4	39	91	4	303	24	22	27	25	2.00
49938860--49938911	27	1.9	27	88	7	79	17	23	26	32	1.96
49940685--49940787	44	2.4	43	77	4	109	33	19	20	26	1.96
49944533--49944675	40	3.5	40	85	4	189	23	25	24	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49945864--49945939	38	2.0	38	100	0	152	31	23	13	31	1.93
49956711--49956754	21	2.1	21	95	0	79	27	15	22	34	1.95
49966575--49967016	47	9.4	47	92	1	681	33	8	29	28	1.87
49967135--49967213	37	2.1	37	86	4	106	26	17	30	25	1.97
49971408--49971449	22	1.9	22	90	0	66	30	21	23	23	1.99
49971801--49971862	27	2.3	27	86	5	81	30	14	14	40	1.86
49971843--49971917	27	2.8	26	87	4	105	32	10	17	40	1.84
49971815--49972038	27	8.3	27	74	3	101	30	10	19	39	1.85
49971815--49972112	54	5.5	54	76	8	232	30	10	20	38	1.86
49971814--49971971	81	2.0	81	81	5	185	30	9	18	41	1.83
49971924--49972106	27	6.8	27	75	6	149	31	9	21	38	1.85
49972004--49972091	26	3.3	26	87	6	115	29	11	22	36	1.89
49975445--49975756	40	7.9	39	89	3	446	23	27	22	26	1.99
49994771--49994921	42	3.6	41	81	7	169	34	17	20	27	1.95
49994810--49994921	43	2.6	42	82	10	138	33	16	21	29	1.95
49996825--49997046	40	5.6	40	94	1	374	22	28	21	27	1.99
49996825--49997046	79	2.8	80	93	0	374	22	28	21	27	1.99
49996825--49997046	119	1.9	120	94	0	392	22	28	21	27	1.99
50005221--50005443	40	5.6	40	93	0	374	22	28	21	27	1.99
50009594--50009683	29	3.1	28	84	4	117	31	13	25	30	1.94
50011970--50012003	18	1.9	17	94	5	59	44	17	20	17	1.87
50012345--50012492	27	5.8	27	76	12	159	42	20	14	22	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50012423--50012461	19	2.1	19	90	0	60	43	12	17	25	1.85
50012396--50012488	46	2.0	46	89	0	141	44	17	13	24	1.85
50013136--50013168	15	2.2	15	89	10	50	63	3	27	6	1.32
50019763--50019830	28	2.4	29	85	7	97	30	30	11	26	1.92
50019829--50019872	2	22.0	2	100	0	88	50	50	0	0	1.00
50025070--50025148	37	2.1	37	88	4	115	25	30	18	25	1.98
50025267--50025708	47	9.4	47	93	0	713	28	30	9	31	1.88
50029244--50029357	40	2.8	40	87	0	156	22	27	22	27	1.99
50029335--50029436	40	2.5	39	78	10	98	25	28	19	26	1.99
50029747--50029825	29	2.7	29	86	5	106	27	32	15	24	1.95
50029807--50029909	43	2.4	43	96	0	197	26	36	15	21	1.93
50031775--50031853	37	2.1	37	88	4	115	25	30	18	25	1.98
50031972--50032328	47	7.4	47	73	14	282	29	29	8	32	1.88
50032061--50032255	110	1.8	106	92	4	327	29	27	9	32	1.89
50032171--50032322	43	3.4	44	84	12	202	30	28	9	30	1.88
50034997--50035107	42	2.6	43	78	2	118	32	29	13	24	1.93
50035168--50035306	37	3.8	37	82	6	160	25	29	17	27	1.97
50037854--50037923	28	2.5	29	86	6	101	30	31	12	25	1.93
50043464--50043617	42	3.6	43	75	9	136	32	26	16	24	1.96
50045139--50045203	31	2.1	32	91	5	107	29	26	15	29	1.96
50045450--50045519	25	2.8	25	95	0	131	25	24	25	24	2.00
50051542--50051603	27	2.3	27	82	0	70	32	9	20	37	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50054841--50054883	20	2.2	19	83	8	50	13	16	16	53	1.73
50056457--50056516	27	2.3	26	85	2	75	35	20	23	21	1.96
50056555--50056606	27	2.0	26	84	3	68	34	21	26	17	1.95
50064165--50064212	23	2.0	23	92	4	78	20	18	10	50	1.76
50064280--50064481	55	3.8	53	83	6	214	21	23	17	37	1.94
50064631--50064707	39	2.0	39	100	0	154	41	19	7	31	1.80
50066759--50066914	42	3.7	42	71	13	140	30	25	19	24	1.98
50075650--50075790	28	5.0	28	78	0	138	27	29	12	31	1.92
50075651--50075790	56	2.5	56	82	0	154	27	28	12	31	1.92
50075923--50075959	18	2.1	18	100	0	74	45	10	16	27	1.80
50077491--50077633	27	5.3	27	88	3	198	24	21	18	35	1.95
50077470--50077633	54	3.0	54	84	3	204	25	23	18	33	1.97
50081112--50081321	39	5.3	39	92	2	325	25	22	27	24	2.00
50081061--50081321	39	6.6	39	87	8	245	25	22	27	24	2.00
50089080--50089302	39	5.7	40	85	8	266	25	22	27	24	2.00
50089080--50089302	79	2.8	81	84	9	282	25	22	27	24	2.00
50089080--50089335	79	3.3	79	81	10	217	26	21	27	24	1.99
50095844--50096220	48	7.9	48	96	0	682	35	6	27	30	1.82
50096365--50096463	37	2.7	37	90	0	162	25	20	31	23	1.98
50107809--50107849	10	4.1	10	84	9	57	80	0	19	0	0.71
50109106--50109323	40	5.5	40	90	2	307	22	22	28	26	1.99
50112884--50112998	31	3.7	31	95	1	196	27	26	16	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50113022--50113113	42	2.2	42	96	0	166	32	20	16	30	1.95
50113261--50113330	25	2.8	25	91	4	106	24	24	27	24	2.00
50113362--50113394	16	2.1	16	94	0	57	33	21	18	27	1.96
50114141--50114241	27	3.7	26	72	12	78	23	20	17	37	1.94
50114235--50114442	27	7.7	27	75	6	116	30	9	20	39	1.83
50114320--50114472	81	1.9	81	83	2	200	27	9	20	41	1.84
50114344--50114482	27	5.1	27	73	9	95	28	10	23	38	1.88
50114462--50114671	81	2.6	81	83	6	266	39	9	23	28	1.85
50114474--50114659	27	6.9	27	86	4	232	38	8	24	28	1.84
50116517--50116582	32	2.1	32	97	0	123	16	3	22	57	1.53

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