genome.fa.s12.2.7.7.80.10.50.1000.169.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  169  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)
55850912--55851878	325	3.0	325	93	1	1674	30	14	17	37	1.90
55865757--55865803	24	2.0	24	83	8	60	36	0	8	55	1.31
55866757--55866805	18	2.7	19	72	15	50	38	12	0	48	1.41
55867109--55867163	19	2.8	20	84	10	62	40	0	9	50	1.34
55871722--55871899	27	6.6	27	79	3	160	28	29	16	25	1.97
55871743--55871898	82	1.9	81	82	3	197	27	29	17	25	1.97
55879709--55879886	27	6.6	27	79	3	160	28	29	16	25	1.97
55879730--55879885	82	1.9	81	82	3	197	27	29	17	25	1.97
55883805--55883916	41	2.8	40	81	13	135	25	27	18	27	1.98
55900883--55901089	27	7.6	27	94	3	216	30	28	14	26	1.94
55900883--55901089	55	3.8	55	96	0	369	30	28	14	26	1.94
55908772--55908923	27	5.6	27	92	3	232	31	28	13	26	1.93
55908772--55908923	55	2.8	55	93	0	250	31	28	13	26	1.93
55917807--55917966	52	3.1	52	80	9	191	25	15	27	31	1.95
55917810--55918010	52	4.0	52	77	13	154	23	15	28	31	1.96
55918721--55918778	20	2.9	20	86	0	89	20	32	31	15	1.94
55919641--55919699	30	1.9	31	86	10	86	47	5	20	27	1.71
55919937--55919971	13	2.7	13	95	0	61	48	0	2	48	1.16
55923303--55923499	27	7.3	27	87	3	254	28	25	7	38	1.83
55923315--55923499	80	2.3	80	87	2	264	29	25	7	37	1.82
55923303--55923499	107	1.8	107	87	2	297	28	25	7	38	1.83
55923289--55923519	107	2.2	106	79	6	286	30	24	8	36	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55923498--55923629	27	4.9	26	77	6	122	37	20	12	29	1.89
55923498--55923629	54	2.4	54	82	5	151	37	20	12	29	1.89
55923531--55923708	81	2.2	81	82	0	203	41	20	8	30	1.82
55923531--55923653	27	4.6	27	84	0	138	43	20	7	29	1.79
55923632--55923688	27	2.1	27	90	6	89	42	14	7	36	1.72
55923706--55923805	27	3.7	27	71	14	80	40	19	18	23	1.92
55924615--55924684	25	2.8	25	91	0	104	27	24	22	25	2.00
55924640--55924711	25	3.0	24	78	13	67	29	19	22	29	1.98
55924904--55924986	31	2.7	31	87	3	116	28	13	26	31	1.94
55927133--55927325	27	7.2	27	86	2	228	29	24	6	39	1.80
55927133--55927325	80	2.4	80	89	3	280	29	24	6	39	1.80
55927133--55927325	107	1.8	107	91	0	323	29	24	6	39	1.80
55927119--55927349	107	2.2	107	82	4	313	32	22	7	37	1.82
55927361--55927460	27	3.7	27	83	0	128	40	21	9	30	1.84
55927328--55927459	54	2.4	54	81	5	142	37	19	12	30	1.88
55927361--55927473	27	4.2	27	83	0	127	41	19	7	30	1.80
55927361--55927538	54	3.3	54	80	3	169	41	17	8	31	1.81
55927414--55927484	27	2.6	27	84	4	81	46	19	4	29	1.69
55927462--55927547	27	3.1	27	79	14	86	38	12	10	38	1.78
55927600--55927665	27	2.4	27	85	5	80	40	18	19	21	1.91
55927600--55927677	27	2.9	27	80	3	68	38	19	19	23	1.93
55928414--55928444	16	1.9	16	93	0	53	29	19	16	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55928475--55928544	25	2.8	25	93	0	113	27	25	22	24	2.00
55928474--55928569	25	3.9	24	81	9	95	28	23	22	25	2.00
55928475--55928569	50	1.9	50	80	8	113	28	24	23	24	2.00
55929441--55929560	26	4.8	25	72	14	97	19	20	18	42	1.89
55929462--55929530	23	2.8	24	76	6	68	21	20	18	39	1.93
55933900--55933950	23	2.2	23	96	0	93	33	11	19	35	1.88
55936635--55936740	23	4.5	24	73	16	69	32	20	24	22	1.98
55936706--55936775	24	2.8	26	72	14	74	34	20	18	27	1.96
55940189--55940364	46	3.8	46	77	12	198	30	29	19	20	1.97
55940196--55940367	93	1.8	93	93	0	299	29	29	20	20	1.98
55951768--55951846	22	3.4	23	78	16	83	37	16	21	24	1.93
55965492--55965597	27	4.0	27	81	6	117	37	18	24	18	1.94
55967189--55967314	28	4.5	28	91	1	191	26	12	27	33	1.93
55986542--55986732	56	3.4	56	88	0	238	33	21	13	30	1.92
55992621--55992858	27	8.8	27	90	0	323	30	21	7	40	1.81
55992810--55992948	27	5.2	27	75	6	95	36	21	7	33	1.83
55992709--55992887	54	3.3	54	82	3	137	32	20	7	39	1.81
55992852--55992977	53	2.4	54	77	9	132	38	19	10	31	1.85
55992940--55993246	27	11.4	27	81	5	343	36	18	19	25	1.94
55992933--55993246	54	5.8	54	85	3	380	37	18	19	25	1.94
55992940--55993245	81	3.8	81	84	3	393	36	18	19	24	1.94
55993463--55993532	25	2.8	25	95	0	122	27	27	22	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55995989--55996226	27	8.8	27	85	0	296	29	21	7	41	1.81
55995989--55996226	81	2.9	81	85	0	332	29	21	7	41	1.81
55996205--55996278	27	2.8	27	80	12	82	43	20	4	32	1.70
55995964--55996237	81	3.4	80	82	2	305	31	21	7	39	1.81
55996214--55996278	27	2.4	27	87	5	87	46	16	3	33	1.63
55996308--55996629	27	12.0	27	87	0	439	36	19	20	24	1.95
55996832--55996901	25	2.8	25	93	0	113	27	25	22	24	2.00
55996831--55996926	25	3.9	24	81	9	95	28	23	22	25	2.00
55996832--55996926	50	1.9	50	80	8	113	28	24	23	24	2.00
56005320--56005523	40	5.1	40	91	2	313	23	21	28	26	1.99
56006960--56007182	122	1.8	120	93	1	383	39	11	19	29	1.87
56009695--56009750	28	2.0	28	100	0	112	32	3	7	57	1.43
56009704--56009766	28	2.2	28	83	5	74	31	7	4	55	1.50
56010264--56010298	3	11.7	3	93	0	61	34	2	0	62	1.10
56013498--56013647	55	2.8	54	80	4	149	26	15	29	28	1.96
56013470--56013647	27	6.6	27	77	6	146	25	15	28	30	1.96
56013471--56013626	82	1.9	81	81	6	190	25	16	28	30	1.96
56018048--56018079	9	3.7	9	95	4	57	21	21	12	43	1.86
56034944--56035121	27	6.6	27	83	3	205	26	15	28	29	1.96
56034945--56035100	82	1.9	81	88	3	233	26	15	28	29	1.96
56034941--56035121	82	2.2	81	83	2	229	27	15	27	29	1.96
56035026--56035132	27	3.9	27	85	1	70	26	14	28	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56042932--56043107	27	6.6	27	83	5	187	27	15	28	28	1.96
56042933--56043086	82	1.9	79	85	6	211	27	15	28	28	1.96
56042929--56043107	82	2.2	80	81	4	209	27	15	27	29	1.96
56043012--56043118	27	3.9	27	85	1	70	26	14	28	30	1.95
56050895--56051071	27	6.5	27	79	3	158	25	16	29	28	1.97
56050895--56051050	82	1.9	81	82	3	197	25	17	29	27	1.97
56050891--56051071	82	2.2	81	79	2	193	25	17	28	28	1.97
56053762--56053909	57	2.6	58	73	7	140	31	18	18	31	1.95
56066169--56066212	20	2.2	20	87	0	61	36	31	4	27	1.77
56066298--56066418	43	2.9	42	83	8	149	28	25	16	29	1.97
56069724--56069856	70	1.9	70	87	0	194	27	13	24	35	1.93
56075998--56076168	92	1.8	94	83	5	231	22	30	19	26	1.98
56080485--56080634	41	3.6	41	75	10	144	22	21	27	28	1.99
56085654--56085758	53	2.0	53	86	3	149	20	26	14	38	1.91
56091946--56092268	163	2.0	163	92	1	540	32	28	13	26	1.93
56096857--56096966	31	3.5	31	92	2	177	30	25	17	27	1.97
56097185--56097254	25	2.8	25	95	0	122	22	22	27	27	1.99
56098062--56098165	27	3.9	26	74	9	84	22	20	20	37	1.94
56098062--56098138	27	2.9	27	78	7	86	20	20	22	36	1.95
56098180--56098264	27	3.1	27	80	11	100	35	9	15	40	1.79
56098241--56098365	27	4.6	27	80	6	121	30	6	20	42	1.77
56098183--56098312	56	2.4	54	80	7	129	31	7	18	42	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56098241--56098365	54	2.3	54	83	5	146	30	6	20	42	1.77
56098385--56098487	27	3.9	27	83	6	115	40	11	20	27	1.87
56100484--56100528	20	2.2	20	84	0	54	46	2	13	37	1.55
56104540--56104570	16	1.9	16	93	0	53	35	22	0	41	1.54
56104537--56104576	20	2.0	20	85	0	53	37	22	0	40	1.54
56104757--56105011	55	4.8	54	78	9	215	21	24	16	37	1.94
56104804--56105004	108	1.8	110	86	4	291	22	24	17	35	1.95
56111526--56111638	43	2.7	42	76	4	102	29	25	15	29	1.96
56117439--56117476	19	2.0	20	89	5	60	21	23	36	18	1.95
56118463--56118583	42	2.9	42	76	7	120	31	23	15	29	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