genome.fa.s12.2.7.7.80.10.50.1000.117.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  117  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)
38192033--38192176	40	3.6	40	84	5	175	26	25	25	23	2.00
38204643--38204690	14	3.4	14	85	0	60	43	6	31	18	1.75
38205275--38205319	14	3.3	14	78	6	56	35	0	15	48	1.45
38206294--38206353	29	2.1	29	93	0	102	41	30	0	28	1.56
38206300--38206347	15	3.3	15	73	5	53	43	27	0	29	1.55
38206595--38206632	14	2.7	14	76	15	51	71	7	5	15	1.28
38210126--38210170	14	3.3	14	78	6	56	35	0	15	48	1.45
38211144--38211203	29	2.1	29	93	0	102	41	30	0	28	1.56
38211150--38211197	15	3.3	15	73	5	53	43	27	0	29	1.55
38214316--38214352	18	2.0	19	89	5	58	78	5	2	13	1.03
38218967--38219010	21	2.0	22	86	4	63	25	6	34	34	1.82
38226561--38226738	27	6.6	27	79	3	160	28	29	16	25	1.97
38226582--38226737	82	1.9	81	82	3	197	27	29	17	25	1.97
38232494--38232527	14	2.4	14	95	0	59	2	17	0	79	0.86
38233884--38234027	46	3.1	44	69	21	107	30	27	19	22	1.98
38241833--38241885	23	2.4	22	76	20	56	9	18	1	69	1.25
38250864--38250915	23	2.3	22	75	21	54	9	23	1	65	1.32
38257142--38257226	30	2.8	30	78	7	100	14	21	1	63	1.36
38257229--38257259	12	2.6	12	100	0	62	25	16	12	45	1.83
38257305--38257363	5	11.4	5	76	20	59	1	16	1	79	0.89
38257305--38257370	16	4.4	14	78	16	69	1	16	3	78	0.95
38257305--38257374	21	3.3	21	79	15	74	1	17	2	78	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38258278--38258329	11	4.6	11	80	4	59	19	3	5	71	1.22
38258277--38258331	22	2.4	23	84	9	76	20	3	5	70	1.22
38263823--38263901	40	2.0	40	80	14	92	36	16	27	18	1.93
38265960--38265996	12	3.0	13	80	11	51	13	21	0	64	1.27
38272689--38272860	40	4.3	40	87	2	213	25	27	21	25	1.99
38272689--38272913	80	2.8	78	78	8	220	25	27	21	25	1.99
38272845--38272922	40	1.9	41	82	10	97	26	28	20	24	1.99
38274848--38275019	93	1.8	93	93	2	301	29	29	20	20	1.98
38274841--38275013	46	3.7	47	79	13	205	30	30	19	20	1.97
38282420--38282591	93	1.8	93	91	2	283	29	29	19	21	1.98
38282413--38282593	46	3.9	46	73	11	172	29	29	19	21	1.97
38288698--38288753	9	6.2	9	87	0	85	55	25	1	17	1.52
38288698--38288749	18	2.9	18	94	0	95	55	26	1	15	1.50
38288833--38288904	34	2.1	34	81	0	81	44	12	6	36	1.69
38294460--38294519	32	1.9	32	82	3	77	33	11	8	46	1.70
38295961--38296054	44	2.1	44	96	0	170	50	31	6	11	1.64
38298575--38298659	35	2.4	35	82	0	107	42	15	12	29	1.84
38302074--38302181	43	2.5	43	83	3	146	38	22	13	25	1.91
38306277--38306332	26	2.2	25	78	12	69	44	14	19	21	1.86
38306313--38306358	24	2.0	24	91	4	76	39	26	19	15	1.91
38307471--38307535	22	3.0	21	77	20	62	16	15	0	67	1.23
38311230--38311285	27	2.0	28	82	3	69	44	1	7	46	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38312263--38312311	19	2.7	18	81	12	55	40	4	10	44	1.57
38318925--38319006	42	2.0	42	83	9	105	34	26	14	24	1.94
38328339--38328467	46	2.8	46	81	10	156	24	20	27	28	1.99
38332788--38332945	42	3.7	42	77	6	140	29	26	18	25	1.98
38340888--38340973	43	2.0	43	88	0	127	26	30	19	23	1.98
38340903--38341003	43	2.4	43	81	1	123	30	31	17	19	1.95
38345739--38345824	43	2.0	43	90	0	136	30	30	19	19	1.97
38348165--38348261	47	2.1	47	92	0	158	31	6	15	46	1.70
38353954--38354129	46	3.8	45	77	11	178	21	19	28	30	1.97
38353950--38354121	93	1.8	93	90	2	274	21	19	29	29	1.98
38355990--38356174	79	2.3	82	82	7	220	25	27	22	24	2.00
38355990--38356174	40	4.7	40	82	6	216	25	27	22	24	2.00
38364506--38364578	24	2.9	25	78	13	87	21	23	20	34	1.97
38364506--38364632	23	5.2	25	78	16	110	22	24	19	33	1.97
38374168--38374393	48	4.7	48	81	5	212	23	27	18	30	1.98
38374168--38374438	96	2.8	95	81	8	284	24	26	18	30	1.98
38374214--38374435	48	4.6	48	85	4	263	24	26	17	31	1.97
38374166--38374435	144	1.9	140	82	11	332	24	26	18	31	1.97
38377886--38378048	47	3.5	48	80	6	183	21	28	20	29	1.98
38377886--38378070	47	4.0	46	78	8	146	20	29	20	30	1.97
38383902--38383954	23	2.4	22	76	20	56	9	18	1	69	1.25
38401838--38401891	27	2.0	27	85	0	72	48	12	0	38	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38407177--38407446	48	5.8	48	78	6	231	27	23	21	27	1.99
38407296--38407412	43	2.7	43	93	0	189	28	24	20	26	1.99
38414978--38415127	48	3.1	48	83	1	185	26	24	22	26	2.00
38421229--38421271	22	2.0	22	90	0	68	20	11	9	58	1.61
38421446--38421486	18	2.2	20	86	8	59	24	0	9	65	1.22
38421487--38421519	11	2.9	12	86	13	52	66	0	0	33	0.92
38427198--38427247	25	2.0	25	96	0	91	34	16	2	48	1.57
38435103--38435171	25	2.7	25	82	8	77	26	21	27	24	1.99
38437228--38437328	45	2.2	45	85	0	130	24	15	16	42	1.88
38440536--38440876	26	13.5	26	69	14	160	59	3	6	30	1.38
38440536--38440653	54	2.2	52	82	4	139	60	3	5	30	1.37
38443424--38443536	54	2.1	54	96	0	208	30	16	13	39	1.87
38445391--38445447	21	2.6	21	86	5	69	68	1	0	29	1.00
38445578--38445655	39	2.0	39	97	0	147	7	62	2	26	1.35
38463048--38463126	38	2.1	37	86	6	106	26	30	17	25	1.97
38463245--38463777	47	11.2	47	89	2	778	30	30	7	31	1.85
38463245--38463777	96	5.6	96	92	1	804	30	30	7	31	1.85
38474865--38474992	36	3.4	37	79	9	127	27	28	20	23	1.99
38476264--38476320	25	2.5	23	81	15	66	8	19	1	70	1.23
38482843--38483025	39	4.7	40	82	8	207	26	27	22	24	2.00
38482843--38483025	79	2.3	79	80	8	194	26	27	22	24	2.00
38490861--38491043	79	2.3	79	81	7	192	26	26	22	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38490840--38491043	40	5.1	40	79	8	211	25	26	22	25	2.00
38492280--38492337	25	2.5	24	81	13	68	8	18	1	70	1.21
38498879--38499061	79	2.3	81	83	7	223	25	27	22	24	2.00
38498858--38499061	40	5.1	40	81	8	229	25	27	22	24	2.00
38500301--38500357	25	2.5	23	81	15	66	8	19	1	70	1.23
38502384--38502497	35	3.3	35	81	4	140	28	10	21	40	1.86
38512942--38513149	55	3.8	53	81	7	258	35	16	25	23	1.95
38512949--38513149	108	1.8	110	89	4	318	34	17	24	23	1.96
38518142--38518256	62	1.9	59	87	5	167	52	2	2	42	1.29
38518228--38518304	17	4.7	17	70	15	72	57	1	2	38	1.21
38524799--38524873	37	2.0	37	100	0	150	49	5	32	13	1.64
38529114--38529276	40	4.1	40	92	2	258	23	22	28	26	1.99
38541564--38541602	3	13.0	3	100	0	78	66	0	0	33	0.92
38544273--38544407	40	3.4	40	93	0	234	22	18	29	29	1.97
38579551--38580004	96	4.8	95	90	3	625	33	8	29	29	1.86
38579551--38580004	47	9.6	47	89	4	669	33	8	29	29	1.86
38582137--38582209	38	1.9	38	86	5	103	34	19	21	24	1.96
38582265--38582520	40	6.6	40	88	5	382	23	21	29	26	1.99
38582265--38582520	79	3.3	78	88	6	383	23	21	29	26	1.99
38582268--38582498	75	3.0	77	91	4	367	22	21	29	25	1.99
38582521--38582701	40	4.6	40	87	0	247	24	19	27	28	1.99
38582438--38582616	96	1.9	96	92	0	304	24	20	26	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38582521--38582714	80	2.4	80	89	0	282	24	19	27	28	1.99
38586298--38586752	47	9.6	47	89	3	678	32	8	29	29	1.87
38586286--38586752	96	4.9	97	87	5	488	32	8	29	29	1.87
38586298--38586752	145	3.2	143	92	2	727	32	8	29	29	1.87
38588636--38588699	26	2.4	27	89	2	94	37	25	10	26	1.89
38588807--38588915	27	4.0	27	89	3	150	20	23	22	33	1.97
38588801--38588915	55	2.1	54	85	7	162	20	23	21	34	1.96
38596650--38596762	27	4.2	27	87	3	149	20	24	20	34	1.96
38596648--38596762	55	2.1	54	85	7	162	20	24	20	34	1.96
38606691--38606721	10	3.1	10	95	0	53	12	19	25	41	1.87

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