genome.fa.s12.2.7.7.80.10.50.1000.171.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  171  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)
56522840--56523329	27	18.2	27	82	2	538	41	9	21	27	1.84
56525345--56525488	6	23.8	6	73	17	120	48	14	15	20	1.81
56525371--56525513	67	2.1	67	94	2	252	48	16	14	20	1.81
56525631--56525696	27	2.5	26	85	7	87	37	22	22	16	1.93
56525631--56525704	27	2.8	27	78	13	82	36	21	24	17	1.95
56525655--56525712	27	2.1	27	84	6	73	36	27	20	15	1.93
56525869--56525927	22	2.7	22	81	0	64	32	22	25	20	1.98
56526015--56526097	27	3.1	26	84	5	94	37	22	20	19	1.94
56526298--56526490	54	3.6	54	85	1	253	27	20	16	35	1.94
56526298--56526490	27	7.1	27	82	1	217	27	20	16	35	1.94
56526500--56526954	27	17.1	27	83	6	518	39	9	23	28	1.85
56526500--56526950	134	3.4	132	84	5	504	39	9	22	28	1.85
56526500--56526954	160	2.8	160	88	2	648	39	9	23	28	1.85
56527855--56528094	51	4.7	51	85	1	284	30	24	18	25	1.98
56527861--56528043	101	1.8	102	86	1	269	29	24	20	26	1.99
56527825--56528092	102	2.6	102	81	1	288	31	24	17	26	1.97
56553807--56553930	55	2.3	55	81	5	144	20	23	26	29	1.99
56558412--56558443	13	2.5	13	100	0	64	21	31	0	46	1.52
56564269--56564311	22	2.0	22	100	0	86	32	23	6	37	1.82
56565607--56565788	101	1.8	101	87	2	276	28	23	20	28	1.99
56565560--56565944	151	2.5	151	91	0	601	29	25	18	25	1.98
56565550--56565944	50	7.9	50	76	5	384	30	25	18	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56565560--56565988	151	2.8	149	87	3	581	30	25	17	25	1.97
56567309--56567333	13	1.9	13	100	0	50	44	0	8	48	1.32
56573697--56573721	13	1.9	13	100	0	50	56	20	0	24	1.43
56576155--56576241	11	7.5	11	74	14	61	16	5	2	75	1.09
56576155--56576241	6	15.0	6	75	9	56	16	5	2	75	1.09
56579153--56579177	13	1.9	13	100	0	50	44	0	8	48	1.32
56581035--56581061	13	2.1	13	100	0	54	14	37	33	14	1.88
56584531--56584662	40	3.3	40	86	2	176	26	28	21	23	1.99
56584647--56584724	40	1.9	41	82	10	97	26	28	21	23	1.99
56592261--56592392	40	3.3	40	86	2	176	26	28	21	23	1.99
56592377--56592454	40	1.9	41	82	10	97	26	28	21	23	1.99
56598935--56599112	27	6.6	27	85	3	214	26	14	28	30	1.95
56598936--56599091	82	1.9	81	89	3	242	26	14	28	30	1.95
56598932--56599112	82	2.2	81	84	2	238	27	14	27	30	1.95
56604341--56604390	1	50.0	1	100	0	100	100	0	0	0	0.00
56604394--56604444	1	51.0	1	100	0	102	0	0	0	100	0.00
56607091--56607194	27	3.9	27	78	5	122	42	9	23	25	1.84
56619710--56619807	24	4.0	24	89	1	142	36	5	36	21	1.76
56627637--56627732	12	8.0	12	65	9	52	36	4	36	22	1.74
56627639--56627739	24	4.2	23	90	6	148	37	4	37	19	1.74
56636742--56636925	47	3.9	47	94	0	305	33	11	27	27	1.92
56636790--56636915	25	5.3	25	62	24	74	32	12	26	27	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56636814--56636890	22	3.4	22	67	22	68	29	14	28	27	1.95
56636864--56636991	66	1.9	66	90	0	202	31	14	30	24	1.94
56636816--56637038	113	2.0	113	89	0	338	31	13	29	25	1.94
56636929--56637041	47	2.4	47	87	0	154	31	13	30	23	1.93
56637212--56637312	37	2.7	37	90	0	148	24	17	30	26	1.97
56638581--56638878	40	7.4	40	92	0	497	27	21	25	26	1.99
56642668--56642994	47	7.0	47	93	0	537	32	12	28	26	1.92
56643165--56643265	37	2.7	37	93	0	166	23	18	31	25	1.98
56644700--56644757	28	2.0	29	90	3	91	27	12	29	31	1.92
56645613--56645727	29	4.0	29	86	6	146	27	15	27	28	1.96
56650145--56650367	40	5.6	40	90	2	333	26	28	22	21	1.99
56658219--56658474	40	6.4	40	86	2	331	24	29	23	23	1.99
56661661--56661740	29	2.8	28	84	3	106	28	13	27	30	1.94
56662030--56662081	27	2.0	26	85	7	70	40	21	19	19	1.92
56664700--56664735	16	2.2	17	90	5	56	52	30	5	11	1.59
56666253--56666367	29	4.0	29	85	6	146	26	15	29	27	1.96
56672286--56672347	19	3.5	19	68	20	62	41	3	14	40	1.62
56672270--56672348	33	2.4	33	100	0	158	41	2	13	41	1.58
56683609--56683791	79	2.3	81	83	7	223	24	27	22	24	2.00
56683588--56683791	40	5.1	40	81	8	229	24	27	22	25	2.00
56686071--56686240	40	4.3	39	83	5	171	25	20	27	26	1.99
56694010--56694181	79	2.2	79	84	3	220	25	21	27	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56693957--56694179	40	5.6	39	81	8	209	25	21	27	25	1.99
56694037--56694214	79	2.2	80	80	3	191	25	21	28	24	1.99
56700510--56700659	43	3.5	42	82	9	137	29	23	19	28	1.98
56700551--56700660	44	2.6	43	85	9	145	30	22	20	26	1.98
56703673--56703845	46	3.7	46	75	14	176	21	19	28	30	1.98
56703667--56703838	93	1.8	93	90	2	274	22	19	28	29	1.98
56706549--56706808	86	3.0	86	99	0	511	37	20	18	23	1.94
56710681--56710785	42	2.4	43	87	7	142	35	25	16	22	1.95
56710706--56710807	44	2.4	42	85	6	125	36	25	15	22	1.94
56726317--56726494	27	6.6	27	77	6	137	30	28	15	25	1.96
56726317--56726494	54	3.3	54	78	7	164	30	28	15	25	1.96
56741689--56741756	29	2.3	29	80	5	75	29	29	11	29	1.92
56741863--56741930	29	2.3	29	85	5	93	27	30	13	27	1.94
56742032--56742110	29	2.7	30	78	13	101	30	30	15	24	1.95
56741578--56742079	174	2.9	174	96	0	914	31	24	13	29	1.94
56747120--56747177	30	1.9	30	86	6	82	22	34	25	17	1.96
56751556--56751590	12	2.9	12	100	0	70	34	0	25	40	1.56
56751623--56751932	39	8.0	39	92	0	505	21	24	29	24	1.99
56761768--56761797	15	2.0	15	93	0	51	13	23	6	56	1.60
56775306--56775344	19	2.1	19	95	0	69	41	23	5	30	1.76
56778460--56778492	5	6.6	5	100	0	66	21	0	0	78	0.75
56780952--56781280	49	6.8	49	70	12	225	26	19	30	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56780952--56781320	98	3.8	97	75	12	314	27	18	28	24	1.98
56785371--56785449	37	2.1	37	90	0	122	25	32	18	22	1.97
56785568--56786454	47	18.4	47	90	4	1225	29	28	9	33	1.88
56785620--56786454	145	5.8	145	91	4	1244	30	28	8	32	1.87
56785619--56786452	196	4.3	193	93	1	1338	30	28	8	32	1.87
56789975--56790370	40	9.9	40	89	0	576	25	27	21	25	2.00
56789975--56790370	120	3.3	120	94	0	666	25	27	21	25	2.00
56790674--56790752	29	2.7	29	86	5	106	27	32	15	24	1.95
56792644--56792722	37	2.1	37	88	0	113	26	31	18	22	1.97
56792841--56793484	47	13.4	47	90	4	894	29	28	9	33	1.88
56805061--56805188	46	2.7	48	83	4	145	28	19	26	25	1.99
56805222--56805338	49	2.4	49	79	2	137	33	23	21	22	1.97
56806717--56806777	27	2.3	27	97	0	113	19	19	26	34	1.96
56808667--56808722	24	2.3	24	96	0	103	37	14	3	44	1.62
56821444--56821597	43	3.6	42	76	10	125	27	16	25	30	1.97
56828040--56828109	28	2.5	28	81	4	70	35	11	22	30	1.90
56828277--56828340	34	1.9	33	87	3	92	20	28	34	17	1.95
56836135--56836186	26	2.0	26	100	0	104	42	11	0	46	1.40
56836136--56836201	26	2.6	26	87	2	71	39	12	1	46	1.50
56839770--56839803	11	3.2	11	87	8	52	17	26	0	55	1.42
56840205--56840286	33	2.4	34	75	4	85	39	37	8	14	1.77
56845062--56845173	27	4.2	26	83	7	116	38	21	22	17	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56845064--56845170	54	2.0	54	83	3	135	39	19	22	18	1.93
56852860--56852966	27	3.9	27	80	9	119	36	21	24	17	1.95
56852859--56852966	54	2.0	54	83	3	137	37	21	24	17	1.94
56855919--56855976	30	1.9	30	86	6	82	24	34	25	15	1.95
56856788--56856923	71	1.9	71	89	0	209	27	20	28	22	1.99
56860206--56860334	49	2.6	49	80	6	145	27	20	26	25	1.99
56866771--56866948	27	6.6	27	81	5	171	28	28	16	26	1.97
56866792--56866947	82	1.9	81	86	3	224	28	28	16	26	1.97
56874815--56874992	27	6.6	27	81	5	171	28	28	16	26	1.97
56874836--56874991	82	1.9	81	86	3	224	28	28	16	26	1.97

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