genome.fa.s5.2.7.7.80.10.50.1000.166.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  166  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)
52383951--52384025	29	2.5	30	85	8	109	22	21	9	46	1.79
52389590--52389619	15	2.0	15	93	0	51	30	0	20	50	1.49
52389919--52390099	43	4.2	43	89	0	254	27	15	25	31	1.96
52390060--52390346	56	5.2	56	82	3	319	28	13	24	33	1.93
52390072--52390332	110	2.4	111	82	2	310	27	13	24	34	1.93
52393786--52393963	27	6.6	27	85	3	214	30	28	14	26	1.95
52393807--52393962	82	1.9	81	89	3	242	30	28	14	26	1.95
52398558--52398584	12	2.2	12	100	0	54	25	0	7	66	1.17
52398746--52398905	47	3.4	47	81	9	148	36	19	23	20	1.95
52398883--52399001	47	2.5	47	91	0	202	36	13	25	25	1.92
52398974--52399197	54	4.1	54	82	6	247	38	16	24	20	1.92
52398988--52399201	108	2.0	108	86	3	297	37	17	24	20	1.94
52399445--52399508	31	2.1	31	93	0	110	23	23	15	37	1.93
52399702--52399844	23	6.0	24	86	8	179	28	21	20	28	1.98
52399723--52399844	47	2.6	46	87	6	165	29	20	20	29	1.98
52399893--52399959	20	3.3	20	93	0	116	32	20	11	34	1.90
52399893--52399948	11	5.5	11	71	16	57	32	19	12	35	1.89
52404361--52404403	21	2.0	21	100	0	86	18	18	9	53	1.70
52404725--52404888	43	3.8	43	76	7	136	28	18	24	28	1.98
52404739--52404888	42	3.5	43	78	6	126	28	18	24	28	1.98
52407024--52407062	10	3.8	10	86	6	60	28	17	20	33	1.96
52407107--52407178	25	2.9	25	87	0	99	29	23	20	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52408892--52409065	46	3.8	45	77	7	170	21	18	29	30	1.97
52411654--52411678	12	2.1	12	100	0	50	44	16	8	32	1.76
52417678--52417724	23	2.0	23	95	0	85	29	12	23	34	1.92
52422012--52422133	47	2.6	47	90	0	181	35	16	24	23	1.95
52422111--52422328	54	4.0	54	80	4	206	38	15	23	22	1.92
52422111--52422319	53	3.9	53	80	5	204	37	16	23	22	1.93
52422119--52422332	108	2.0	108	85	1	286	38	15	23	21	1.93
52429561--52429599	11	3.7	11	80	13	55	35	10	20	33	1.86
52429542--52429604	20	3.2	20	91	8	96	36	7	19	36	1.81
52429666--52429800	52	2.7	51	88	6	197	28	20	22	28	1.99
52429666--52429782	26	4.6	26	86	1	157	26	23	23	27	2.00
52431171--52431325	43	3.6	43	86	1	222	26	17	27	28	1.98
52431171--52431352	43	4.3	43	83	1	213	26	15	26	30	1.96
52431299--52431517	56	3.9	56	88	4	300	26	13	25	34	1.93
52431466--52431551	43	2.0	43	86	0	118	27	15	24	32	1.95
52431409--52431587	99	1.8	98	85	3	252	27	13	24	33	1.94
52444350--52444383	18	1.9	17	88	5	50	41	20	8	29	1.82
52446561--52446673	43	2.7	42	83	2	145	28	26	15	29	1.96
52454068--52454108	14	2.8	15	75	20	50	0	14	7	78	0.96
52455721--52455914	50	3.9	49	79	6	203	27	27	18	25	1.98
52455732--52455918	101	1.9	99	85	4	259	28	28	17	25	1.98
52461893--52461933	14	2.9	14	88	0	55	34	21	12	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52462071--52462248	92	1.9	92	86	4	252	24	24	20	30	1.99
52465914--52465956	12	3.6	12	93	0	68	13	23	0	62	1.31
52473402--52473586	40	4.7	40	82	6	216	25	28	22	24	1.99
52473402--52473586	79	2.3	81	80	8	209	25	28	22	24	1.99
52475516--52475605	29	3.1	28	84	7	119	28	12	28	30	1.93
52477964--52478052	6	14.3	6	71	19	67	49	15	15	19	1.80
52477984--52478041	19	3.4	19	65	30	58	46	17	17	18	1.84
52477973--52478052	31	2.5	31	95	2	142	50	15	16	18	1.79
52478189--52478290	27	3.8	26	85	5	114	36	20	24	18	1.95
52478449--52478513	22	3.0	22	76	13	62	35	21	23	20	1.96
52478940--52479323	27	14.3	27	87	1	538	23	20	22	33	1.98
52479318--52479378	27	2.3	27	85	0	77	34	8	18	39	1.80
52483660--52483884	40	5.6	40	84	6	285	25	28	23	23	2.00
52483660--52483884	83	2.8	80	88	4	335	25	28	23	23	2.00
52491818--52492041	40	5.6	40	82	10	287	25	28	23	22	1.99
52491818--52492041	83	2.8	80	88	6	337	25	28	23	22	1.99
52494142--52494231	29	3.1	28	85	7	128	27	12	30	30	1.93
52501080--52501143	28	2.3	28	86	5	85	34	23	10	31	1.89
52522709--52522926	40	5.5	40	88	2	289	22	23	27	25	2.00
52524468--52524548	10	7.9	10	74	15	76	65	3	9	20	1.38
52524511--52524553	22	2.0	22	95	0	77	60	4	13	20	1.51
52532517--52532560	20	2.3	19	88	4	61	40	9	0	50	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52532517--52532560	19	2.2	20	88	4	63	40	9	0	50	1.34
52548715--52548758	15	2.9	15	86	0	61	18	13	13	54	1.71
52549407--52549435	15	2.0	15	93	6	51	10	13	20	55	1.68
52553016--52553175	28	5.8	28	72	12	100	24	26	18	31	1.97
52553016--52553175	54	2.9	55	76	7	171	24	26	18	31	1.97
52557966--52558089	43	2.9	43	74	9	101	31	24	15	29	1.95
52563112--52563140	14	2.1	14	100	0	58	34	6	13	44	1.71
52566934--52567121	57	3.3	57	82	2	207	29	17	22	30	1.96
52566998--52567139	57	2.5	57	85	7	200	28	17	23	30	1.97
52573197--52573244	15	3.3	15	73	5	53	29	0	27	43	1.55
52573191--52573234	14	3.1	14	74	6	52	27	0	34	38	1.57
52573191--52573250	29	2.1	29	93	0	102	28	0	30	41	1.56
52576483--52576538	30	1.9	28	85	7	76	12	30	3	53	1.55
52577230--52577277	15	3.3	15	73	5	53	29	0	27	43	1.55
52577228--52577283	29	1.9	29	92	0	94	26	0	30	42	1.56
52581888--52581918	9	3.4	9	90	0	53	48	19	6	25	1.72
52584648--52584912	55	4.8	57	78	6	244	44	15	10	30	1.79
52584648--52584912	56	4.8	56	79	5	238	44	15	10	30	1.79
52584675--52584912	113	2.1	109	83	4	289	44	15	9	31	1.77
52585875--52586020	76	1.9	76	91	0	238	45	20	12	21	1.83
52590625--52590885	40	6.6	40	87	3	321	24	20	27	26	1.99
52590664--52590922	80	3.3	80	84	4	249	25	20	27	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52609590--52609618	14	2.1	14	100	0	58	13	0	6	79	0.93
52618657--52618731	21	3.7	21	67	24	61	61	0	1	37	1.05
52618945--52619070	62	2.0	62	98	0	243	46	3	24	24	1.69
52619253--52619304	3	17.0	3	96	4	95	0	32	0	67	0.91
52624670--52624715	24	1.9	24	82	8	58	30	13	8	47	1.72
52627809--52627882	37	2.0	37	82	15	91	36	5	2	55	1.37
52629192--52629236	18	2.3	20	81	7	58	71	6	0	22	1.09
52630417--52630481	31	2.1	31	88	5	96	33	16	7	41	1.77
52643257--52643431	46	3.8	47	88	8	238	26	20	31	21	1.98
52657013--52657050	13	3.2	12	85	10	51	13	2	7	76	1.11
52657023--52657050	13	2.2	13	100	0	56	14	0	7	78	0.95
52664928--52664986	28	2.1	28	84	12	77	38	0	3	57	1.15
52666041--52666081	21	2.0	21	85	9	57	63	0	2	34	1.08
52666330--52666457	63	2.0	63	98	0	247	47	3	24	24	1.68
52666642--52666689	3	16.0	3	100	0	96	0	33	0	66	0.92
52675397--52675520	48	2.6	48	80	6	117	37	4	2	56	1.31
52675440--52675515	37	2.1	37	83	14	95	36	5	2	55	1.37
52678214--52678276	33	1.9	33	96	0	117	34	15	4	44	1.68
52691064--52691238	46	3.8	47	88	8	238	26	20	31	21	1.98
52709986--52710109	48	2.6	48	80	6	117	37	4	2	56	1.31
52710029--52710104	37	2.1	37	83	14	95	36	5	2	55	1.37
52711457--52711495	18	2.2	18	86	9	53	79	0	0	20	0.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52712724--52712786	33	1.9	33	96	0	117	34	15	4	44	1.68
52725534--52725708	46	3.8	47	88	8	238	26	20	31	21	1.98
52726808--52726848	22	1.9	22	90	5	66	12	43	26	17	1.84
52728473--52728517	20	2.2	20	88	0	63	35	13	0	51	1.41
52736670--52736725	25	2.2	26	83	3	69	51	12	5	30	1.61
52738275--52738401	10	13.7	9	66	21	50	63	2	4	29	1.27
52738328--52738401	20	3.8	20	75	7	71	62	2	6	28	1.35
52738626--52738711	9	9.4	9	74	13	61	32	2	3	61	1.25
52738627--52738720	27	3.5	27	82	10	111	31	3	3	61	1.27
52738627--52738712	18	4.8	18	75	13	72	33	2	3	60	1.26

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