genome.fa.s8.2.7.7.80.10.50.1000.123.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: A08
Parameters: 2 7 7 80 10 50 1000
Length:  123748673

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   334   335   336   
          337   338   339   340   341   342   343   344   345   346   347   348   349   350   351   352   
          353   354   355   356   357   358   359   360   361   362   363   364   365   366   367   368   
          369   370   371   372   373   

This is table  123  of  373  ( 44737 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)
40253764--40253948	79	2.3	81	83	7	227	25	22	27	24	2.00
40253764--40253948	40	4.7	40	80	6	207	25	22	27	24	2.00
40253817--40253981	79	2.1	79	83	6	201	27	20	27	24	1.99
40261941--40262125	40	4.7	40	76	6	180	26	21	26	25	2.00
40261997--40262158	79	2.1	79	81	6	186	27	19	27	25	1.99
40265165--40265232	29	2.3	29	85	5	93	27	30	13	27	1.94
40265341--40265406	29	2.3	29	89	5	98	30	30	10	28	1.90
40265508--40265586	29	2.7	30	82	13	110	30	30	13	25	1.94
40265054--40265555	174	2.9	174	97	0	932	31	24	14	29	1.95
40272440--40272567	42	3.0	43	80	10	120	28	24	17	29	1.98
40277316--40277353	19	2.0	19	89	0	58	34	18	31	15	1.92
40277431--40277547	29	4.2	28	75	13	107	29	11	30	28	1.92
40277435--40277541	57	1.9	56	83	9	137	28	12	32	27	1.92
40281501--40281724	54	4.2	54	76	5	193	39	16	24	19	1.92
40284448--40284730	35	7.7	35	69	12	118	23	24	19	32	1.98
40284483--40284759	40	7.3	39	67	14	159	23	23	19	33	1.97
40284442--40284776	75	4.5	75	86	0	447	22	23	20	33	1.97
40286644--40286672	15	1.9	15	100	0	58	41	0	0	58	0.98
40290253--40290385	40	3.4	40	85	4	173	27	23	27	21	1.99
40294655--40294711	29	2.0	29	96	0	105	19	29	19	31	1.96
40296018--40296118	27	3.8	26	83	9	123	31	11	26	29	1.92
40307409--40307586	27	6.6	27	84	3	205	29	28	15	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40307430--40307585	82	1.9	81	88	3	233	29	28	15	26	1.96
40312890--40313081	40	4.8	40	92	1	226	27	27	21	23	1.99
40320438--40320629	40	4.8	40	92	1	226	27	27	21	23	1.99
40324022--40324132	48	2.3	48	85	0	150	27	22	26	24	2.00
40326479--40326601	60	2.0	60	98	0	237	30	1	25	42	1.65
40335889--40335921	15	2.2	15	94	0	57	57	12	12	18	1.64
40352951--40352977	13	2.1	13	100	0	54	14	29	33	22	1.94
40362245--40362274	15	2.0	15	93	0	51	13	50	16	20	1.78
40364467--40364654	96	2.0	96	85	0	259	14	34	16	35	1.89
40367263--40367323	25	2.6	23	80	12	70	19	4	0	75	0.98
40378219--40378403	79	2.3	81	84	7	236	25	22	27	24	2.00
40378219--40378403	40	4.7	40	82	6	216	25	22	27	24	2.00
40378272--40378436	79	2.1	79	84	6	210	27	21	27	24	1.99
40380360--40380427	29	2.3	29	82	5	84	27	29	13	29	1.94
40380249--40380576	174	1.9	174	96	0	611	30	24	14	30	1.95
40380529--40380607	29	2.7	30	78	13	101	29	29	15	26	1.96
40388523--40388590	29	2.3	29	82	5	84	27	29	13	29	1.94
40388412--40388739	174	1.9	174	98	0	629	30	24	14	30	1.95
40388692--40388770	29	2.7	30	82	13	110	29	30	15	25	1.96
40391854--40391883	5	6.0	5	100	0	60	80	0	0	20	0.72
40394821--40395064	50	4.9	50	77	3	256	27	17	25	29	1.97
40394822--40395003	101	1.8	101	85	0	256	28	15	24	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40410540--40410639	50	2.0	50	100	0	200	24	18	16	42	1.89
40410547--40410627	27	3.1	27	58	13	62	20	17	18	43	1.88
40413931--40413984	27	2.0	27	85	0	72	38	14	7	38	1.75
40423759--40423796	18	2.1	19	85	14	53	42	23	0	34	1.55
40424019--40424185	46	3.6	46	76	15	173	28	27	20	22	1.99
40424020--40424189	92	1.8	93	91	1	279	28	27	21	22	1.99
40444399--40444498	50	2.0	50	100	0	200	24	18	16	42	1.89
40444406--40444486	27	3.1	27	58	13	62	20	17	18	43	1.88
40447791--40447844	27	2.0	27	85	0	72	38	14	7	38	1.75
40457741--40457778	19	2.0	20	85	15	53	39	23	0	36	1.55
40458007--40458177	93	1.8	93	93	0	297	28	28	21	22	1.99
40457999--40458174	46	3.8	46	80	10	214	28	27	21	22	1.99
40458599--40458658	30	2.0	30	86	0	84	31	25	6	36	1.82
40461117--40461162	25	1.9	24	82	8	58	30	13	15	41	1.85
40466153--40466209	30	1.9	30	88	0	87	29	24	8	36	1.86
40469075--40469327	40	6.3	40	88	0	335	28	31	20	20	1.97
40470592--40470693	37	2.8	37	93	1	170	24	31	19	24	1.98
40470833--40471137	48	6.6	48	93	5	470	31	25	6	36	1.81
40470831--40471137	141	2.2	138	89	7	478	31	26	6	36	1.81
40474222--40474392	46	3.7	45	78	12	195	28	28	21	22	1.99
40474227--40474396	92	1.8	93	92	1	288	27	29	21	21	1.99
40474815--40474873	29	2.0	29	90	3	91	30	25	8	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40477712--40477933	39	5.8	40	85	6	289	27	31	19	20	1.97
40479196--40479297	36	2.8	37	93	1	170	24	30	20	24	1.99
40479437--40479699	47	5.6	48	88	10	373	31	25	6	36	1.81
40479435--40479699	93	2.8	93	84	12	371	31	26	6	36	1.81
40479672--40479727	28	2.0	28	96	0	103	33	19	3	42	1.69
40482797--40482969	46	3.7	46	77	13	201	28	28	21	21	1.98
40482802--40482972	93	1.8	93	93	0	297	28	29	21	21	1.98
40483392--40483451	30	2.0	30	86	0	84	31	25	6	36	1.82
40486345--40486574	40	5.8	40	88	2	318	27	31	20	20	1.97
40487883--40487968	37	2.3	37	93	0	145	25	31	18	24	1.98
40488109--40488533	48	8.9	48	98	0	796	31	27	6	35	1.81
40493849--40494020	46	3.7	45	79	11	197	21	19	29	29	1.98
40493842--40494012	93	1.8	93	92	2	290	21	21	29	28	1.98
40497128--40497212	44	1.9	44	95	0	152	32	28	15	23	1.95
40497323--40497442	60	2.0	60	93	0	204	25	26	11	35	1.91
40499686--40499766	27	3.0	27	82	8	85	35	19	23	20	1.96
40499816--40499853	20	1.9	20	94	0	67	42	34	15	7	1.76
40499788--40499993	98	2.1	98	93	0	358	33	28	20	17	1.96
40500000--40500079	27	3.0	26	79	15	74	38	18	21	21	1.93
40500313--40500661	27	13.0	27	87	3	445	27	19	16	36	1.93
40500618--40500877	27	9.7	27	79	7	253	28	10	22	39	1.86
40500349--40500823	81	5.9	80	81	6	293	27	15	18	37	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40500618--40500877	80	3.2	80	91	1	378	28	10	22	39	1.86
40500618--40500877	53	4.9	52	80	7	247	28	10	22	39	1.86
40501933--40501996	22	2.8	22	75	13	67	18	20	15	45	1.86
40501950--40502062	22	5.0	22	68	14	79	20	23	16	39	1.92
40502219--40502272	16	3.4	16	81	0	63	38	9	12	38	1.76
40504099--40504131	16	2.1	16	94	0	57	45	15	18	21	1.85
40504775--40504845	35	2.0	35	97	0	133	30	9	21	38	1.86
40514853--40514982	28	4.6	28	87	0	170	23	13	36	26	1.92
40537770--40537921	40	3.8	40	87	2	198	26	28	21	24	1.99
40549135--40549177	18	2.4	18	92	0	68	20	27	9	41	1.83
40549686--40549715	9	3.4	9	90	9	53	36	0	0	63	0.95
40560051--40560407	46	7.8	47	91	3	462	21	24	13	41	1.88
40567602--40567806	53	3.8	54	81	4	225	22	23	18	35	1.96
40567613--40567801	55	3.5	53	81	5	200	21	23	19	35	1.96
40567788--40567909	47	2.6	47	96	0	217	27	22	13	36	1.91
40571147--40571210	32	2.0	32	96	0	119	15	25	23	35	1.94
40580245--40580345	50	2.0	50	96	0	184	21	15	19	42	1.89
40581715--40581747	6	5.5	6	96	0	57	15	3	0	81	0.80
40581715--40581754	18	2.2	18	86	0	53	17	5	0	77	0.94
40586221--40586321	40	2.5	40	86	1	130	38	23	17	19	1.93
40586221--40586351	41	3.2	40	82	2	136	38	24	17	19	1.92
40586361--40586477	38	3.1	38	83	3	148	33	26	22	17	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40588053--40588098	21	2.2	21	84	7	58	39	0	17	43	1.49
40588534--40588608	26	2.9	25	78	7	69	21	25	20	33	1.97
40588685--40588743	25	2.3	25	80	8	66	23	22	22	32	1.98
40589418--40589462	22	2.0	22	83	8	56	37	4	2	55	1.32
40591598--40591874	39	7.1	39	93	0	455	20	25	29	23	1.99
40597711--40597777	32	2.1	32	100	0	134	40	11	14	32	1.83
40600606--40600919	39	8.1	39	93	0	529	21	25	29	23	1.99
40604904--40604942	19	2.1	19	95	0	69	41	12	10	35	1.77
40611308--40611412	53	2.0	53	80	0	120	19	23	17	40	1.91
40615661--40615707	18	2.7	18	93	3	78	8	12	27	51	1.69

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   334   335   336   
          337   338   339   340   341   342   343   344   345   346   347   348   349   350   351   352   
          353   354   355   356   357   358   359   360   361   362   363   364   365   366   367   368   
          369   370   371   372   373