genome.fa.s3.2.7.7.80.10.50.1000.160.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: A03
Parameters: 2 7 7 80 10 50 1000
Length:  108673976

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   

This is table  160  of  333  ( 39894 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)
52560240--52560480	100	2.4	100	95	0	428	26	19	25	28	1.98
52563816--52563874	29	2.0	29	100	0	118	27	23	10	38	1.87
52565368--52565454	43	2.0	43	86	0	120	31	26	18	24	1.98
52567200--52567257	29	2.0	29	93	0	98	31	15	22	31	1.95
52570745--52570926	40	4.6	40	90	2	260	24	25	22	28	2.00
52578767--52579028	40	6.6	40	91	1	384	26	26	22	24	2.00
52580934--52581158	40	5.6	39	85	9	292	25	28	23	23	2.00
52580934--52581158	83	2.8	80	88	7	346	25	28	23	23	2.00
52588454--52588520	33	2.0	33	100	0	134	17	28	17	35	1.93
52589862--52589977	37	3.1	37	93	0	187	26	32	18	22	1.97
52590096--52590414	47	6.7	47	91	2	478	27	30	9	31	1.89
52593946--52594128	40	4.6	40	86	2	208	26	28	21	22	1.99
52594434--52594512	29	2.7	29	82	5	97	27	31	15	25	1.95
52594494--52594596	43	2.4	43	100	0	206	26	35	15	22	1.94
52596461--52596576	37	3.1	36	90	4	169	26	31	18	23	1.97
52596695--52596966	47	5.7	47	89	2	375	27	29	9	32	1.89
52596695--52596966	143	1.9	141	86	3	384	27	29	9	32	1.89
52602986--52603046	31	2.0	32	90	6	99	31	13	13	42	1.82
52603288--52603354	31	2.2	31	86	5	91	35	8	8	46	1.67
52607294--52607318	13	1.9	13	100	0	50	60	0	0	40	0.97
52608701--52608748	16	3.0	16	75	0	51	39	20	20	18	1.92
52613990--52614061	36	2.0	36	94	0	126	50	8	29	12	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52615663--52615812	57	2.6	57	78	7	160	34	21	14	30	1.92
52622147--52622218	24	3.0	24	76	13	78	37	13	20	27	1.91
52622147--52622240	24	3.9	24	76	9	66	37	15	19	27	1.92
52626107--52626339	50	4.6	50	75	5	227	28	18	23	29	1.98
52626108--52626289	101	1.8	101	87	0	274	28	18	24	29	1.98
52631494--52631537	20	2.2	20	91	0	70	25	43	25	6	1.79
52633762--52633810	23	2.1	24	85	11	66	26	0	16	57	1.40
52658513--52658561	20	2.5	20	80	12	57	38	30	18	12	1.87
52664820--52665085	46	5.7	46	69	15	179	30	27	18	22	1.97
52664827--52665092	93	2.9	93	89	0	406	30	27	19	22	1.98
52664874--52665044	47	3.7	47	72	10	170	31	27	18	22	1.97
52667818--52667874	30	1.9	29	92	3	96	56	15	15	12	1.68
52670468--52670732	92	2.9	92	88	1	377	29	26	20	23	1.99
52670515--52670684	47	3.7	47	77	9	186	31	26	19	22	1.98
52674290--52674380	40	2.4	37	77	18	98	36	1	60	2	1.16
52674292--52674381	6	14.5	6	71	15	51	35	1	61	2	1.16
52674309--52674394	20	4.4	19	73	15	61	33	0	63	2	1.07
52677954--52678062	37	2.9	37	95	0	191	26	31	19	22	1.98
52678269--52678415	47	3.1	47	93	0	240	26	29	11	32	1.91
52678315--52678389	23	3.3	22	64	29	57	25	32	13	29	1.93
52685575--52685745	93	1.8	93	85	0	243	31	26	19	22	1.97
52685569--52685750	46	4.0	45	68	16	122	31	26	18	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52687928--52687963	17	2.1	17	90	10	56	58	2	36	2	1.27
52698622--52698951	166	2.0	162	92	2	552	32	22	12	32	1.91
52704904--52704929	12	2.2	12	100	0	52	38	19	26	15	1.91
52712563--52714204	630	2.6	626	92	1	2729	38	10	17	33	1.84
52717070--52717307	49	4.8	49	81	3	269	26	17	26	29	1.97
52717062--52717345	150	1.9	150	86	2	401	27	16	26	29	1.97
52720839--52720974	59	2.4	57	82	7	175	27	16	21	34	1.94
52722634--52722790	43	3.7	43	77	7	185	29	26	19	24	1.99
52722630--52722793	85	1.9	85	90	6	260	29	26	19	24	1.98
52730616--52730722	52	2.1	52	96	0	196	22	22	14	40	1.91
52734168--52734239	35	2.1	35	97	0	135	37	27	6	27	1.82
52735154--52735195	20	2.1	20	86	0	57	35	11	0	52	1.38
52737767--52737801	17	2.0	18	94	5	63	17	37	34	11	1.85
52760561--52760631	36	2.0	36	100	0	142	29	16	14	39	1.88
52764313--52764352	21	1.9	21	89	0	62	20	25	40	15	1.90
52767168--52767375	46	4.5	46	74	15	151	23	27	18	30	1.98
52779788--52779887	43	2.3	43	85	0	146	28	16	25	31	1.96
52786877--52787127	40	6.3	40	84	5	278	23	17	27	30	1.97
52803211--52803285	12	6.4	11	70	23	55	18	5	1	74	1.08
52803211--52803265	6	9.5	6	78	4	51	16	5	1	76	1.06
52803212--52803285	5	13.8	5	71	23	53	18	5	1	74	1.08
52806152--52806184	13	2.6	13	90	4	50	39	0	12	48	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52810184--52810273	28	3.2	28	87	3	110	27	35	12	24	1.91
52810489--52810522	16	2.1	16	88	0	50	8	23	29	38	1.85
52812026--52812210	79	2.3	81	80	8	209	25	28	21	23	1.99
52812026--52812210	40	4.7	40	80	7	216	25	28	21	23	1.99
52820135--52820317	79	2.3	81	85	7	241	25	27	22	24	2.00
52820133--52820317	40	4.7	40	85	6	234	25	28	22	24	1.99
52830272--52830296	12	2.1	12	100	0	50	36	16	8	40	1.77
52830580--52830619	18	2.2	18	86	8	55	25	10	27	37	1.88
52838133--52838233	52	1.9	52	87	0	148	31	28	15	23	1.96
52839188--52839262	20	3.8	19	71	13	62	20	25	9	45	1.80
52839189--52839267	21	4.0	20	72	9	72	17	27	8	45	1.78
52842818--52842867	25	2.1	24	82	10	59	22	32	28	18	1.97
52848205--52848381	49	3.6	49	81	6	207	27	24	18	29	1.98
52851876--52852008	50	2.6	50	86	2	176	34	28	15	21	1.94
52860628--52860930	40	7.6	40	90	2	396	24	20	28	27	1.99
52872975--52873012	16	2.4	16	78	4	51	42	23	5	28	1.76
52873461--52873625	80	2.0	82	90	2	262	39	10	9	40	1.72
52875669--52875725	28	2.0	28	100	0	114	24	3	21	50	1.64
52887866--52887965	48	2.1	48	96	0	182	18	18	22	42	1.90
52896877--52897058	40	4.6	40	81	6	210	24	28	22	25	2.00
52896877--52897058	79	2.3	81	82	7	212	24	28	22	25	2.00
52906520--52906697	27	6.6	27	83	3	205	26	15	28	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52906521--52906676	82	1.9	81	88	3	233	26	15	28	29	1.96
52906517--52906697	82	2.2	81	83	2	229	27	15	27	29	1.96
52911834--52911900	20	3.3	20	83	6	73	11	26	16	44	1.82
52914066--52914151	27	3.2	26	88	4	109	37	20	23	18	1.94
52914068--52914173	27	4.0	27	85	6	92	38	19	22	18	1.93
52914066--52914173	54	2.0	53	83	1	135	37	21	22	18	1.94
52914516--52914578	27	2.3	26	89	5	90	34	26	22	15	1.94
52914802--52914917	27	4.3	27	83	4	128	25	18	17	37	1.93
52917106--52917209	27	3.9	26	82	6	118	38	20	22	19	1.94
52917102--52917209	54	2.0	53	83	5	137	37	21	22	18	1.94
52917367--52917425	22	2.7	22	81	0	64	32	22	25	20	1.98
52917536--52917615	27	3.0	26	87	3	97	36	21	23	18	1.95
52917841--52917945	27	3.9	27	81	2	104	27	20	16	35	1.94
52917868--52917953	27	3.2	27	86	0	118	27	17	16	38	1.91
52918246--52918270	9	2.8	9	100	0	50	20	36	20	24	1.95
52918416--52918450	16	2.2	16	100	0	70	37	14	11	37	1.82
52920174--52920307	27	5.0	26	84	7	110	38	19	21	20	1.93
52920197--52920307	54	2.1	54	83	6	136	37	20	20	20	1.94
52920197--52920292	27	3.5	27	92	4	149	38	19	19	21	1.93
52920321--52920396	32	2.4	32	82	4	82	35	25	18	21	1.95
52920465--52920523	22	2.7	22	81	0	64	32	22	25	20	1.98
52920631--52920713	27	3.1	26	87	5	112	37	21	21	19	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52920937--52921043	27	4.0	27	86	0	142	24	21	19	34	1.96
52920941--52921043	54	1.9	53	90	2	161	24	22	18	34	1.96
52922026--52922071	23	2.0	23	100	0	92	43	4	8	43	1.55
52924753--52925266	94	5.5	94	90	0	722	33	11	28	26	1.91
52924824--52924898	24	3.2	24	63	24	59	30	12	32	25	1.92
52925013--52925088	22	3.3	22	66	16	64	32	11	28	26	1.92
52925154--52925229	22	3.3	22	66	28	59	35	13	27	23	1.92
52924784--52925232	47	9.6	47	93	0	700	34	12	28	25	1.91
52925246--52925336	46	2.0	46	84	0	119	32	6	31	28	1.83
52942637--52942681	21	2.1	21	100	0	90	42	13	4	40	1.64

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