genome.fa.s5.2.7.7.80.10.50.1000.143.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: A05
Parameters: 2 7 7 80 10 50 1000
Length:  100714657

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   

This is table  143  of  318  ( 38109 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)
44424321--44424388	3	22.3	3	73	8	57	30	0	7	61	1.23
44424328--44424392	23	2.8	23	86	9	87	32	0	9	58	1.30
44424407--44424456	13	3.8	13	75	20	50	28	8	0	64	1.22
44424489--44424527	3	13.0	3	83	0	51	28	2	0	69	1.02
44424726--44424861	20	6.5	20	68	21	75	36	3	2	58	1.28
44425206--44425301	18	5.1	19	67	20	58	36	11	1	51	1.45
44425207--44425301	38	2.6	36	78	8	93	36	11	1	50	1.46
44426332--44426381	26	1.9	26	84	8	66	42	2	16	40	1.59
44427316--44427448	62	2.1	62	80	14	148	53	3	0	42	1.21
44430506--44430600	50	1.9	50	86	4	138	21	27	17	33	1.96
44430494--44430621	50	2.6	49	76	8	132	19	28	19	32	1.96
44430494--44430623	25	5.2	25	77	7	111	19	28	20	32	1.96
44430504--44430671	25	6.7	25	75	2	95	21	27	19	31	1.97
44430531--44430671	75	1.9	75	81	8	171	21	29	19	29	1.98
44433826--44433918	33	2.9	32	80	4	98	33	23	10	32	1.89
44433822--44433929	33	3.3	33	78	7	94	33	23	12	31	1.91
44437098--44437131	15	2.3	15	90	5	52	50	5	5	38	1.51
44437979--44438014	13	2.8	13	95	0	63	41	19	8	30	1.81
44439329--44439380	22	2.4	22	100	0	104	46	44	9	0	1.36
44440750--44441060	162	1.9	162	87	5	459	51	14	14	19	1.77
44441828--44442030	82	2.5	82	95	0	363	49	14	6	28	1.69
44442107--44442579	159	3.0	154	81	8	481	32	12	16	37	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44446721--44446753	12	2.6	13	85	9	50	9	45	0	45	1.35
44447821--44447885	28	2.3	28	91	0	103	32	27	9	30	1.88
44447991--44448081	28	3.2	28	90	4	139	20	24	23	31	1.98
44447991--44448106	56	2.1	55	82	9	137	19	24	21	34	1.96
44448535--44448575	18	2.3	18	86	0	55	24	2	4	68	1.22
44464636--44464668	12	2.6	13	85	9	50	9	45	0	45	1.35
44465736--44465800	28	2.3	28	91	0	103	32	27	9	30	1.88
44465906--44465996	28	3.2	28	90	1	128	18	26	25	29	1.98
44466450--44466490	18	2.3	18	86	0	55	24	2	4	68	1.22
44468190--44468233	19	2.3	19	84	4	52	29	2	4	63	1.26
44473789--44473835	19	2.5	19	86	6	60	25	19	10	44	1.82
44479262--44479931	335	2.0	335	95	0	1207	35	16	21	26	1.95
44482327--44482598	94	2.9	95	88	1	393	33	16	19	30	1.94
44482284--44482922	44	13.8	45	67	11	290	33	16	19	30	1.94
44482517--44482953	183	2.4	183	81	6	458	33	17	18	30	1.94
44482747--44482922	96	1.8	96	83	0	235	34	14	20	30	1.93
44488510--44488563	27	1.9	27	85	14	74	64	3	1	29	1.21
44488902--44488959	23	2.5	24	75	10	59	68	0	1	29	0.99
44490624--44490661	19	2.0	19	100	0	76	26	15	0	57	1.38
44490667--44490731	32	2.0	32	100	0	130	35	24	6	33	1.80
44491919--44491956	19	2.0	20	94	5	69	21	23	2	52	1.59
44503285--44503331	23	2.0	23	95	0	85	29	36	8	25	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44506677--44506704	8	3.5	8	100	0	56	28	0	10	60	1.30
44507187--44507230	21	2.2	20	83	4	52	63	4	4	27	1.33
44519272--44519455	25	7.4	25	95	0	280	27	12	11	48	1.75
44520272--44520495	45	5.0	45	94	0	385	23	21	25	29	1.99
44522846--44522889	19	2.3	20	80	7	56	40	0	2	56	1.11
44523261--44523300	20	2.0	20	85	0	53	77	0	22	0	0.77
44542826--44542927	40	2.6	40	86	10	147	24	23	26	25	2.00
44546445--44546526	25	3.3	25	86	6	114	26	21	24	26	2.00
44546658--44546746	42	2.1	42	85	0	115	32	15	15	35	1.90
44546774--44546848	31	2.4	31	95	0	132	29	17	26	26	1.97
44549035--44549142	27	4.0	27	76	9	94	41	18	7	32	1.78
44549044--44549150	54	2.0	54	80	10	121	41	19	7	31	1.79
44549128--44549187	27	2.2	27	84	0	75	33	25	8	33	1.86
44549139--44549349	27	7.8	27	83	3	162	30	22	7	40	1.80
44549147--44549349	54	3.8	54	80	3	214	31	21	6	40	1.79
44549139--44549349	81	2.6	80	80	6	221	30	22	7	40	1.80
44549247--44549361	54	2.1	54	83	0	140	34	20	3	40	1.70
44549342--44549580	27	8.8	27	74	8	171	39	17	10	32	1.83
44549598--44549675	27	2.9	27	75	11	79	35	21	19	23	1.96
44550421--44550490	33	2.1	33	100	0	140	17	11	28	42	1.83
44550511--44550646	52	2.7	51	92	5	215	27	20	23	27	1.99
44550511--44550646	26	5.3	26	85	6	181	27	20	23	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44550779--44550868	42	2.1	42	87	0	126	31	14	18	35	1.91
44550894--44550972	31	2.5	31	95	0	140	31	18	24	25	1.98
44566163--44566533	134	2.8	134	80	4	435	31	14	13	40	1.85
44566484--44566605	36	3.4	36	68	13	97	29	8	15	46	1.75
44571578--44572027	47	9.6	47	90	5	687	32	8	30	28	1.87
44571578--44572027	96	4.8	94	92	3	687	32	8	30	28	1.87
44571578--44572027	143	3.2	143	93	3	727	32	8	30	28	1.87
44571917--44572000	41	2.0	41	86	0	114	29	11	33	25	1.91
44581208--44581249	21	2.0	21	100	0	84	57	4	4	33	1.41
44585383--44585606	40	5.6	40	85	3	288	24	23	26	25	2.00
44585387--44585606	83	2.7	80	86	5	284	23	24	27	25	2.00
44587153--44587232	32	2.5	32	97	2	153	51	2	2	43	1.28
44591665--44591887	40	5.6	40	82	10	237	25	27	21	25	2.00
44591665--44591888	79	2.8	80	86	7	289	25	27	21	25	2.00
44592966--44592990	13	1.9	13	100	0	50	0	8	4	88	0.64
44599642--44599864	40	5.6	40	82	10	237	25	27	21	25	2.00
44599642--44599865	79	2.8	80	86	7	289	25	27	21	25	2.00
44605435--44605652	108	2.0	108	99	0	427	27	17	23	31	1.97
44619413--44620054	321	2.0	321	91	1	1029	29	16	24	29	1.97
44626817--44626858	21	1.9	23	85	9	61	50	19	16	14	1.79
44637125--44637216	18	5.1	18	80	6	82	34	1	1	63	1.09
44637132--44637226	17	5.4	17	75	16	70	33	2	1	63	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44637143--44637226	9	9.4	9	74	16	68	32	2	1	64	1.14
44637159--44637240	43	1.9	43	82	5	103	36	2	0	60	1.10
44639832--44639894	31	2.0	32	93	3	110	46	19	11	23	1.82
44643375--44643434	26	2.3	25	88	5	84	60	1	6	31	1.33
44643969--44644036	36	1.9	36	82	11	88	69	5	4	20	1.28
44644053--44644081	3	9.7	3	100	0	58	68	0	0	31	0.89
44646881--44647178	103	2.9	103	94	0	506	33	17	18	30	1.94
44647463--44647511	20	2.4	19	77	16	53	59	4	2	34	1.28
44647504--44647533	16	1.9	15	93	6	51	70	0	3	26	1.03
44647669--44647709	22	1.9	22	85	14	59	63	9	4	21	1.44
44655341--44655466	66	2.0	66	84	4	168	32	11	11	43	1.78
44655389--44655421	17	1.9	17	93	0	57	15	12	15	57	1.65
44655960--44655989	10	3.0	10	100	0	60	20	10	10	60	1.57
44662332--44662393	24	2.4	26	84	12	76	20	1	8	69	1.23
44662280--44662406	23	5.2	23	69	14	69	25	1	7	65	1.29
44662621--44662653	13	2.4	14	90	10	50	42	3	0	54	1.15
44662879--44662903	13	1.9	13	100	0	50	64	0	12	24	1.27
44667045--44667140	29	3.4	29	77	8	117	61	1	9	28	1.34
44667045--44667141	28	3.4	27	78	9	113	61	1	9	27	1.33
44667207--44667275	31	2.3	31	82	7	88	47	18	5	27	1.71
44668339--44668372	13	2.6	13	90	0	50	8	26	8	55	1.59
44674717--44674866	27	5.6	27	81	3	158	27	15	28	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44674718--44674866	81	1.8	81	86	2	219	26	15	28	29	1.96
44678732--44678777	23	2.0	23	84	12	60	45	10	6	36	1.65
44678739--44678788	23	2.2	22	82	10	57	40	14	8	38	1.75
44686530--44686574	23	2.0	23	82	8	56	40	13	8	37	1.76
44689576--44689719	45	3.2	44	78	6	146	43	11	19	25	1.85
44689594--44689741	45	3.3	45	77	3	120	43	12	18	25	1.84
44692977--44693003	14	1.9	14	100	0	54	37	7	3	51	1.48
44694722--44695406	343	2.0	345	85	3	934	27	25	11	34	1.91
44703517--44703543	5	5.4	5	100	0	54	44	18	18	18	1.87
44706553--44706610	29	2.0	29	89	0	89	27	3	36	32	1.74

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