genome.fa.s1.2.7.7.80.10.50.1000.147.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: A01
Parameters: 2 7 7 80 10 50 1000
Length:  104050246

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   

This is table  147  of  316  ( 37835 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)
46890504--46890592	30	3.0	30	80	8	101	57	15	16	10	1.65
46890504--46890583	15	5.4	15	80	7	92	58	13	17	10	1.62
46890515--46890592	15	5.2	15	78	9	79	56	15	16	11	1.67
46894352--46894529	27	6.6	27	80	7	164	28	28	16	26	1.97
46896652--46896824	93	1.9	93	93	2	303	27	31	21	19	1.97
46896645--46896820	46	3.8	46	80	11	207	28	30	21	19	1.97
46896689--46896839	46	3.2	46	73	15	139	29	29	19	21	1.98
46897251--46897317	28	2.5	26	79	11	80	35	23	7	32	1.83
46899444--46899606	41	4.0	41	94	0	263	25	30	20	23	1.98
46899853--46900228	27	14.0	27	80	6	248	28	10	20	40	1.85
46899833--46900218	54	7.2	53	76	7	280	29	10	20	39	1.86
46900182--46900279	27	3.7	27	82	6	112	31	15	19	33	1.93
46900417--46900483	32	2.1	32	100	0	134	26	46	14	11	1.80
46907379--46907407	15	2.0	15	93	6	51	55	20	13	10	1.68
46910755--46910790	18	2.0	18	100	0	72	27	16	16	38	1.90
46914070--46914237	47	3.6	47	75	11	141	27	17	30	25	1.97
46914070--46914240	94	1.8	94	84	2	236	27	17	30	24	1.97
46917430--46917695	47	5.7	48	76	11	198	23	31	18	26	1.97
46917430--46917704	46	5.9	46	75	11	186	23	31	18	26	1.97
46928452--46928601	27	5.5	26	80	4	120	26	16	29	28	1.96
46928452--46928601	82	1.8	81	82	4	194	26	16	29	28	1.96
46928533--46928612	27	2.9	27	79	5	63	26	15	28	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46942526--46942995	94	5.0	94	95	0	841	39	19	10	30	1.86
46954483--46954637	43	3.6	43	81	9	174	24	18	24	32	1.97
46954476--46954606	44	3.0	41	86	10	165	22	16	25	35	1.95
46955798--46955849	21	2.5	21	100	0	104	34	3	13	48	1.61
46956493--46956824	48	6.9	48	83	2	389	26	29	18	24	1.98
46956490--46956823	144	2.3	144	87	0	479	26	29	18	25	1.98
46963285--46963332	20	2.4	20	92	0	87	22	35	31	10	1.88
46966042--46966266	40	5.6	40	87	4	310	26	27	22	24	2.00
46966042--46966266	83	2.8	80	89	4	353	26	27	22	24	2.00
46969075--46969208	56	2.4	56	91	0	214	29	13	23	33	1.93
46971292--46971324	17	1.9	17	100	0	66	21	6	24	48	1.72
46974359--46974415	17	3.2	17	75	7	60	59	1	0	38	1.08
46974765--46974839	37	2.0	37	94	0	132	34	18	2	44	1.64
46974777--46974837	19	3.3	19	65	21	56	34	21	3	40	1.69
46976895--46976928	16	2.1	16	94	0	59	61	35	0	2	1.11
46977601--46977718	40	3.0	40	92	0	191	30	28	18	22	1.97
46985894--46986011	40	3.0	40	92	0	191	30	27	19	22	1.98
46990012--46990041	4	7.5	4	100	0	60	50	0	23	26	1.50
46991112--46991159	5	9.6	5	100	0	96	62	0	0	37	0.95
46991331--46991364	16	2.1	16	88	0	50	35	8	0	55	1.31
46995948--46996018	34	2.1	34	81	0	79	45	19	5	29	1.73
47001959--47001989	11	2.8	11	90	0	53	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47007395--47007439	20	2.2	20	84	7	56	40	11	2	46	1.52
47010778--47010859	41	2.0	41	95	0	146	48	13	7	30	1.69
47010896--47010936	19	2.2	19	90	0	64	46	12	4	36	1.63
47015535--47015587	25	2.2	25	87	9	76	58	0	1	39	1.09
47020173--47020221	24	2.0	24	100	0	98	61	12	8	18	1.55
47022861--47022918	22	2.6	21	81	8	53	77	3	3	15	1.04
47022980--47023011	6	5.3	6	100	0	64	68	0	0	31	0.90
47023034--47023124	26	3.7	24	74	22	75	76	0	2	20	0.88
47023057--47023123	5	14.0	5	76	17	63	79	0	0	20	0.74
47023058--47023118	7	8.3	7	79	16	70	80	0	0	19	0.72
47023063--47023124	16	3.8	16	73	14	63	80	0	0	19	0.71
47023423--47023495	33	2.2	33	87	4	103	17	31	30	20	1.96
47026224--47026344	49	2.5	49	83	2	145	22	28	22	27	1.99
47029595--47029671	29	2.6	29	85	2	100	24	15	31	28	1.96
47029624--47030125	174	2.9	174	98	0	968	29	14	24	30	1.95
47033669--47033799	46	2.8	46	88	3	174	32	25	20	21	1.98
47035135--47035211	37	2.1	37	100	0	154	31	18	27	23	1.97
47035642--47035847	27	7.6	27	80	1	207	40	20	8	30	1.82
47035632--47035848	54	4.0	53	84	4	231	39	20	8	31	1.82
47035642--47035847	81	2.5	82	83	3	229	40	20	8	30	1.82
47035695--47035892	27	7.3	27	79	7	170	39	19	9	31	1.83
47035642--47035893	54	4.7	53	82	3	222	39	20	9	30	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47035633--47035868	81	2.9	81	78	6	203	40	20	8	30	1.82
47035928--47037038	27	40.7	27	80	7	820	36	18	17	27	1.94
47037386--47037782	216	1.8	217	83	3	532	23	21	22	32	1.98
47037765--47037849	27	3.3	26	85	4	82	17	23	20	38	1.93
47037773--47037852	26	3.0	26	89	3	115	16	23	22	37	1.93
47037780--47037852	27	2.8	26	89	4	110	17	24	20	36	1.94
47037970--47038044	6	12.3	6	75	13	73	17	13	16	53	1.73
47048308--47048352	16	2.8	16	79	0	54	53	17	17	11	1.72
47048580--47048650	28	2.5	28	82	8	83	25	15	32	26	1.95
47048581--47048665	28	3.0	27	72	13	66	27	15	30	27	1.96
47055484--47055752	46	5.8	46	76	11	271	22	21	27	28	1.99
47055480--47055745	93	2.9	93	94	0	469	22	21	28	27	1.99
47055530--47055698	47	3.6	47	77	13	204	23	21	26	28	1.99
47058606--47058640	13	2.7	13	100	0	70	51	14	0	34	1.42
47067711--47067889	39	4.6	39	92	0	277	12	24	22	39	1.89
47067757--47067859	19	5.3	19	69	17	86	11	25	24	38	1.89
47068746--47069034	48	6.0	48	78	4	294	28	17	27	26	1.98
47068746--47069030	96	2.9	96	89	1	453	28	17	28	26	1.98
47072752--47072821	34	2.1	33	86	7	97	25	24	22	27	2.00
47075564--47075644	40	2.0	40	95	0	144	27	17	27	28	1.97
47079381--47079858	48	9.9	48	79	3	478	29	17	26	26	1.98
47079381--47079856	96	4.9	96	87	1	666	28	17	26	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47082644--47082692	18	2.5	20	77	12	57	42	16	10	30	1.81
47083590--47083726	38	3.6	38	81	2	121	35	27	17	19	1.94
47083637--47083737	38	2.7	38	87	3	150	32	25	19	21	1.97
47086502--47086957	47	9.6	47	92	2	698	33	8	29	28	1.86
47086502--47086957	192	2.4	190	91	2	747	33	8	29	28	1.86
47090115--47090153	19	2.1	19	90	0	60	38	23	7	30	1.83
47090239--47090319	24	3.3	24	83	8	85	32	18	24	24	1.97
47096690--47096775	19	4.5	19	73	7	75	39	22	8	30	1.83
47099014--47099073	25	2.4	25	94	0	102	51	18	11	18	1.75
47102001--47102268	49	5.6	49	74	10	198	26	20	27	25	1.99
47103276--47103392	28	4.2	28	91	4	173	17	21	41	18	1.90
47103275--47103392	56	2.1	56	91	0	191	17	21	42	18	1.89
47105569--47105612	22	2.0	22	100	0	88	31	4	40	22	1.74
47109876--47110009	49	2.8	49	82	3	173	26	22	28	22	1.99
47114165--47114418	46	6.0	40	78	18	257	37	15	24	23	1.93
47114204--47114448	46	5.5	46	83	8	283	39	14	23	22	1.91
47114158--47114368	84	2.5	84	96	0	386	35	15	24	24	1.94
47114719--47114765	25	2.0	25	83	8	62	53	4	14	27	1.60
47116342--47116403	21	3.0	21	81	4	65	45	16	17	20	1.86
47118196--47118246	20	2.6	20	76	14	52	60	1	0	37	1.08
47118822--47118972	10	15.6	9	66	22	58	58	1	3	35	1.28
47118830--47118863	17	2.1	17	89	10	54	58	0	2	38	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47118822--47118972	21	7.8	19	69	18	82	58	1	3	35	1.28
47118888--47118963	40	1.9	40	84	10	102	61	2	3	31	1.28
47118868--47118973	10	10.4	10	68	10	63	60	2	4	32	1.32
47119227--47119381	9	16.2	10	68	19	66	37	3	0	59	1.14
47119311--47119379	9	7.3	9	79	8	75	34	1	0	63	1.03
47119223--47119379	19	8.0	20	70	13	76	37	3	0	59	1.14
47119329--47119396	9	6.7	10	80	9	68	32	2	0	64	1.08
47119311--47119379	29	2.4	29	90	7	106	34	1	0	63	1.03
47122388--47122435	21	2.2	22	96	3	89	31	0	16	52	1.45
47122613--47122691	25	3.2	24	76	7	77	17	26	20	35	1.95

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