genome.fa.s12.2.7.7.80.10.50.1000.135.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: A12
Parameters: 2 7 7 80 10 50 1000
Length:  103038859

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   

This is table  135  of  320  ( 38372 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)
44194800--44194901	37	2.8	37	92	1	170	23	18	32	25	1.97
44196187--44196495	40	7.8	40	93	1	460	21	21	30	26	1.98
44196501--44196633	29	4.7	29	80	8	121	21	16	30	32	1.95
44196502--44196633	57	2.3	57	83	5	151	21	16	30	31	1.95
44200150--44200319	48	3.5	48	90	0	268	32	10	29	28	1.89
44200484--44200591	37	2.9	37	94	1	180	25	19	29	25	1.98
44205534--44205743	40	5.3	39	87	5	233	24	21	28	25	1.99
44205481--44205743	120	2.2	120	81	4	300	25	21	27	25	1.99
44205534--44205778	80	3.1	80	81	3	228	25	21	28	24	1.99
44211948--44212157	40	5.3	39	87	5	233	24	21	28	25	1.99
44211895--44212157	120	2.2	120	81	4	300	25	21	27	25	1.99
44211948--44212192	80	3.1	80	81	3	228	25	21	28	24	1.99
44215259--44215298	20	2.0	20	95	0	71	20	32	20	27	1.97
44217791--44217828	14	2.6	15	84	16	53	2	39	0	57	1.12
44219874--44220043	46	3.7	46	77	13	188	20	19	30	30	1.97
44219864--44220035	93	1.8	93	92	2	292	20	20	30	28	1.97
44228384--44228424	21	2.0	21	85	9	57	2	31	2	63	1.20
44241419--44241567	64	2.3	64	81	11	176	26	29	15	28	1.96
44258818--44258995	27	6.6	27	77	6	137	30	28	15	25	1.96
44258818--44258995	54	3.3	54	78	7	164	30	28	15	25	1.96
44266634--44266686	27	2.0	27	88	7	81	32	16	18	32	1.94
44268141--44268167	14	1.9	14	100	0	54	59	11	7	22	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44270872--44270999	45	2.8	46	89	4	188	30	29	19	20	1.97
44276257--44276427	93	1.8	93	92	2	290	28	30	19	21	1.97
44276248--44276423	46	3.8	46	76	16	193	29	29	19	21	1.98
44284237--44284428	49	3.9	49	79	6	215	29	26	17	26	1.98
44284237--44284425	50	3.8	49	84	2	234	30	26	17	25	1.97
44284250--44284433	101	1.8	99	86	4	262	29	27	17	25	1.97
44288424--44288539	49	2.3	50	86	4	155	29	25	17	27	1.97
44288526--44288550	11	2.3	11	100	0	50	20	32	20	28	1.97
44290886--44291025	40	3.5	41	91	4	225	22	22	27	27	1.99
44298715--44298739	13	1.9	13	100	0	50	24	8	16	52	1.70
44307413--44307468	20	2.8	20	70	5	51	42	19	25	12	1.86
44308876--44308929	27	2.0	27	92	0	90	38	24	14	22	1.91
44309836--44309894	31	1.9	31	85	0	82	44	6	25	23	1.78
44310310--44310708	50	7.9	50	79	2	377	26	18	25	30	1.98
44310314--44310708	101	3.9	99	77	3	360	26	18	25	30	1.98
44310264--44310705	151	2.9	151	85	1	589	26	17	24	31	1.97
44311267--44311625	180	2.0	180	87	2	524	38	8	19	33	1.82
44317055--44317096	15	2.8	15	80	20	52	26	2	9	61	1.39
44318477--44318924	50	8.9	50	79	2	398	26	18	24	30	1.98
44318477--44318924	101	4.4	100	76	3	405	26	18	24	30	1.98
44318476--44318865	151	2.6	152	84	0	485	26	18	24	31	1.97
44318478--44318924	202	2.2	201	86	1	599	26	18	24	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44319486--44319836	180	2.0	180	90	0	558	38	10	17	33	1.84
44322688--44322763	27	2.7	29	83	4	102	27	31	15	25	1.96
44322986--44323031	8	5.8	8	80	10	58	6	21	23	47	1.74
44322986--44323036	16	3.2	16	88	0	75	7	19	23	49	1.74
44325917--44326061	40	3.6	40	85	4	184	26	24	26	23	2.00
44348749--44348964	119	1.8	120	91	1	362	23	23	28	25	1.99
44348707--44348969	40	6.6	39	88	3	316	23	23	27	25	2.00
44366640--44366749	57	1.9	57	98	0	211	31	9	7	51	1.61
44373637--44373661	13	1.9	13	100	0	50	16	24	40	20	1.91
44379585--44379658	38	2.0	37	94	2	130	32	16	20	31	1.94
44382117--44382195	31	2.5	31	93	0	140	26	24	18	30	1.98
44382413--44382587	26	6.8	26	90	0	264	27	22	23	26	1.99
44382413--44382587	52	3.4	52	96	1	318	27	22	23	26	1.99
44383369--44383452	27	3.1	27	86	6	109	22	26	20	30	1.98
44383391--44383452	27	2.3	27	97	0	115	19	29	20	30	1.97
44383514--44383621	27	3.9	27	73	13	76	32	8	18	40	1.80
44383604--44383836	27	8.7	27	77	5	195	30	9	19	40	1.82
44383493--44383836	54	6.4	53	73	5	213	31	9	19	39	1.82
44383607--44383805	81	2.5	79	83	2	236	31	9	19	39	1.83
44383793--44383850	27	2.1	27	90	0	89	29	5	20	44	1.73
44383828--44383955	27	4.7	27	86	0	157	40	7	20	31	1.81
44400529--44400678	55	2.8	54	80	4	149	26	15	29	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44400501--44400678	27	6.6	27	77	6	146	25	15	28	30	1.96
44400502--44400657	82	1.9	81	81	6	190	25	16	28	30	1.96
44408537--44408686	55	2.8	54	80	4	149	26	15	29	28	1.96
44408509--44408686	27	6.6	27	77	6	146	25	15	28	30	1.96
44408510--44408665	82	1.9	81	81	6	190	25	16	28	30	1.96
44425653--44425681	10	2.9	10	100	0	58	20	27	20	31	1.98
44428880--44429102	80	2.8	79	80	3	223	24	21	28	25	1.99
44428933--44429102	40	4.3	40	87	0	216	23	21	29	25	1.99
44428955--44429137	79	2.3	80	81	1	217	25	21	28	24	1.99
44432501--44432712	46	4.5	46	77	10	189	29	19	29	21	1.98
44432455--44432712	47	5.5	46	75	10	195	29	18	29	22	1.98
44448201--44448256	28	2.0	28	82	0	67	30	25	25	19	1.98
44448375--44448429	23	2.4	23	87	0	83	41	18	18	21	1.90
44451922--44452124	47	4.3	47	93	0	343	33	11	28	26	1.92
44453685--44453758	29	2.6	29	86	4	96	27	16	31	25	1.96
44461692--44461764	28	2.6	29	82	8	87	27	16	30	26	1.97
44463589--44463725	37	3.7	37	89	3	204	26	18	30	24	1.98
44464994--44465425	40	10.8	40	93	1	722	26	21	26	24	2.00
44469096--44469375	47	6.0	47	90	0	416	32	12	28	26	1.93
44469538--44469756	37	5.9	37	93	0	357	25	19	31	24	1.98
44480517--44480599	31	2.7	31	96	3	152	27	26	16	28	1.97
44481679--44481752	27	2.7	27	82	12	89	18	17	22	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44481839--44481962	27	4.7	26	82	9	135	29	6	21	42	1.78
44481838--44481962	54	2.3	54	83	6	157	29	6	21	42	1.78
44481982--44482085	27	3.9	27	84	3	140	40	8	21	29	1.83
44481850--44482107	27	9.6	27	75	8	125	33	8	20	36	1.84
44485321--44485377	20	2.8	20	97	2	105	17	36	26	19	1.94
44490597--44490731	41	3.3	41	90	1	200	31	22	25	20	1.98
44491347--44491395	24	2.0	24	100	0	98	53	0	4	42	1.20
44491928--44491979	14	3.8	13	77	12	52	59	3	1	34	1.27
44495620--44495666	19	2.5	19	76	10	51	21	2	4	72	1.12
44495753--44495782	13	2.4	12	89	10	51	10	0	0	90	0.47
44495789--44495939	43	3.5	43	90	1	205	23	19	31	25	1.98
44495883--44495993	56	2.0	56	90	0	177	24	18	29	27	1.98
44497290--44497349	30	2.0	30	87	6	86	40	6	25	28	1.80
44504855--44504967	27	4.2	26	83	8	127	38	23	22	16	1.93
44504855--44504967	55	2.1	54	85	5	147	38	23	22	16	1.93
44505069--44505116	25	1.9	25	83	8	62	25	16	25	33	1.96
44506383--44506453	24	3.0	24	95	0	124	25	38	1	35	1.65
44522816--44522857	20	2.2	20	86	4	59	71	0	4	23	1.05
44527732--44527784	27	2.0	27	100	0	106	20	33	37	7	1.81
44528523--44529645	285	3.9	288	86	8	1530	58	8	5	28	1.50
44529337--44529643	149	2.1	151	86	8	457	58	6	6	28	1.49
44534266--44534443	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)
44534267--44534422	82	1.9	81	88	3	233	26	15	28	29	1.96
44534263--44534443	82	2.2	81	83	2	229	27	15	27	29	1.96
44542354--44542531	27	6.6	27	83	3	205	26	15	28	29	1.96
44542355--44542510	82	1.9	81	88	3	233	26	15	28	29	1.96
44542351--44542531	82	2.2	81	83	2	229	27	15	27	29	1.96
44545054--44545199	41	3.4	43	76	18	146	32	5	27	34	1.80
44564676--44564857	40	4.6	40	91	4	280	26	27	22	23	2.00
44564676--44564857	79	2.3	80	89	5	280	26	27	22	23	2.00
44566796--44566902	54	2.0	54	96	0	196	23	10	16	49	1.76
44567651--44567813	34	4.7	34	89	0	218	33	22	16	28	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   317   318   319   320