genome.fa.s11.2.7.7.80.10.50.1000.120.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: A11
Parameters: 2 7 7 80 10 50 1000
Length:  114316535

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   
          321   322   323   324   325   326   327   328   329   330   331   332   333   334   335   336   
          337   338   339   340   341   342   343   344   345   346   347   348   349   350   351   352   
          353   354   355   356   

This is table  120  of  356  ( 42641 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)
38245027--38245171	37	3.9	37	93	2	247	25	31	19	23	1.98
38245312--38246143	48	17.0	48	92	3	1349	32	25	5	36	1.80
38245321--38246143	98	8.4	98	94	2	1365	32	25	5	36	1.80
38245312--38246143	146	5.7	146	93	2	1384	32	25	5	36	1.80
38254307--38254386	33	2.4	34	79	6	92	28	18	23	28	1.98
38256027--38256092	25	2.6	25	82	0	78	33	21	25	19	1.97
38256204--38256266	26	2.5	25	82	7	65	33	20	23	22	1.97
38269489--38269663	46	3.8	46	76	7	174	28	29	19	22	1.98
38269497--38269668	93	1.8	93	88	2	265	27	30	19	22	1.98
38269540--38269683	46	3.1	46	70	14	125	28	29	19	22	1.98
38274621--38274651	15	2.1	15	93	0	53	54	9	12	22	1.67
38278493--38278649	58	2.7	59	90	1	244	45	15	15	23	1.85
38281311--38281358	18	2.7	18	90	3	71	54	4	12	29	1.56
38293412--38293509	28	3.5	28	90	2	135	31	28	13	26	1.94
38295690--38295792	21	4.9	21	91	0	152	40	17	26	15	1.89
38298666--38298851	41	4.6	41	87	3	243	24	25	24	25	2.00
38298666--38298849	81	2.3	82	83	5	239	23	25	25	25	2.00
38304906--38304945	20	2.1	19	85	4	53	20	7	2	70	1.24
38305047--38305076	11	2.7	11	94	0	51	46	0	0	53	1.00
38309669--38309694	12	2.2	12	100	0	52	34	15	26	23	1.94
38313847--38313895	18	2.9	17	84	6	55	65	0	0	34	0.93
38313860--38313902	22	2.0	22	85	0	59	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38315002--38315098	33	2.9	32	74	8	97	15	17	19	47	1.83
38318236--38318307	36	2.0	36	94	0	126	36	2	20	40	1.67
38318367--38318513	70	2.1	70	88	0	213	23	23	23	29	1.99
38335241--38335467	48	4.8	48	77	9	234	29	24	18	26	1.98
38341636--38341668	15	2.1	17	88	11	52	69	15	9	6	1.34
38361853--38361888	18	2.0	18	88	0	54	41	11	22	25	1.86
38365819--38365864	13	3.5	13	78	0	56	34	8	19	36	1.83
38373423--38373486	6	10.5	6	78	9	67	46	15	17	20	1.83
38373396--38373486	37	2.5	37	83	3	112	46	14	18	20	1.84
38373405--38373496	31	3.0	31	87	9	118	46	13	19	20	1.83
38373646--38373747	27	3.8	26	84	5	123	37	20	23	18	1.94
38373906--38373970	22	3.0	21	74	17	60	35	21	23	20	1.96
38374352--38374825	27	17.6	27	84	3	517	25	20	19	35	1.96
38374781--38375012	27	8.7	27	83	2	290	31	7	20	40	1.81
38374781--38375012	54	4.4	54	90	1	344	31	7	20	40	1.81
38386752--38386922	39	4.3	39	91	2	245	25	22	27	25	2.00
38386699--38386922	40	5.7	40	85	7	255	25	22	26	25	2.00
38386752--38386922	79	2.2	78	87	6	238	25	22	27	25	2.00
38386752--38386955	79	2.6	79	83	5	218	26	21	26	25	1.99
38391467--38391518	18	2.7	20	80	20	65	46	3	0	50	1.20
38391466--38391510	18	2.5	18	92	0	81	46	4	0	48	1.22
38392808--38392859	27	1.9	27	84	0	68	30	21	19	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38392997--38393060	27	2.4	27	86	5	94	32	12	31	23	1.92
38393007--38393074	27	2.5	27	80	4	66	30	10	33	25	1.89
38407499--38407749	51	4.9	51	86	2	353	30	23	13	32	1.93
38407785--38407884	24	4.0	24	87	10	146	25	22	15	38	1.92
38407773--38407896	52	2.4	52	91	0	203	25	23	15	35	1.94
38409501--38409653	80	1.9	80	83	0	198	28	27	11	32	1.92
38409489--38409661	40	4.3	40	82	2	177	28	27	13	30	1.94
38413843--38413886	17	2.6	17	83	13	56	40	11	9	38	1.73
38420122--38420146	12	2.1	12	100	0	50	60	0	0	40	0.97
38423927--38424001	38	2.0	38	86	0	105	45	10	20	24	1.82
38430502--38430656	28	5.6	27	71	14	120	30	14	29	25	1.95
38430586--38430690	28	3.8	26	77	12	86	30	19	26	23	1.98
38430503--38430661	54	2.9	54	81	9	207	31	15	27	25	1.96
38433897--38434075	46	3.9	46	80	10	211	20	21	30	28	1.98
38433896--38434068	93	1.9	93	92	0	292	20	21	30	27	1.98
38437012--38437080	15	4.6	15	79	0	75	13	17	11	57	1.64
38437003--38437090	30	3.0	30	78	8	90	11	17	14	56	1.66
38437012--38437091	15	5.4	14	77	4	61	11	17	12	58	1.62
38437987--38438148	42	3.8	41	80	9	182	28	15	25	30	1.96
38437987--38438150	85	1.9	84	84	6	215	28	15	25	30	1.96
38446498--38446588	39	2.3	39	84	0	128	23	23	20	32	1.98
38453885--38453973	39	2.3	39	88	0	133	23	22	17	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38464939--38464972	17	1.9	17	88	5	50	47	14	5	32	1.69
38466603--38466629	3	9.0	3	100	0	54	66	0	0	33	0.92
38478077--38478131	25	2.2	25	86	0	74	30	16	12	40	1.86
38478097--38478145	25	2.0	25	83	0	62	40	12	10	36	1.77
38482689--38482748	24	2.4	24	83	10	68	5	23	0	71	1.05
38488174--38488357	40	4.6	40	83	6	205	23	21	27	27	1.99
38488174--38488354	80	2.3	81	84	9	230	23	21	27	27	1.99
38490621--38490656	18	2.0	18	100	0	72	38	11	5	44	1.63
38491034--38491258	49	4.5	49	81	5	281	29	26	17	25	1.98
38503426--38503469	18	2.3	20	84	7	56	38	6	0	54	1.27
38506251--38506294	18	2.3	20	84	7	56	38	6	0	54	1.27
38507254--38507301	15	3.3	15	82	5	55	45	0	0	54	0.99
38508414--38508517	34	3.1	34	88	2	149	40	0	15	44	1.46
38508614--38509138	127	4.2	127	85	2	666	39	16	14	29	1.88
38516668--38516700	16	2.1	16	100	0	66	75	0	0	24	0.80
38516944--38517012	29	2.4	30	76	11	72	65	2	2	28	1.22
38523282--38523353	31	2.3	31	92	4	117	40	15	2	41	1.61
38525265--38525303	18	2.1	19	86	13	55	30	0	0	69	0.89
38526875--38527147	49	5.7	49	78	8	233	27	19	29	23	1.98
38526875--38527149	98	2.9	96	81	5	288	27	19	29	23	1.98
38526875--38527147	146	1.9	143	80	6	318	27	19	29	23	1.98
38529655--38529735	32	2.6	32	84	5	94	33	8	18	39	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38529782--38529890	53	2.1	52	96	1	200	50	8	7	33	1.60
38533632--38533748	35	3.3	35	77	4	128	23	10	26	40	1.86
38533718--38533786	35	1.9	36	88	2	104	15	11	30	42	1.83
38541866--38542003	41	3.3	42	87	3	190	32	13	26	28	1.93
38541867--38542029	83	2.0	83	80	7	188	31	12	26	28	1.92
38542213--38542244	16	1.9	17	93	6	57	31	9	15	43	1.78
38543585--38543863	47	5.9	49	82	9	296	21	31	18	28	1.97
38543587--38543903	141	2.2	139	82	7	354	22	29	19	28	1.98
38557430--38557587	27	5.9	27	84	9	198	34	22	24	18	1.96
38557430--38557587	54	3.0	53	89	3	237	34	22	24	18	1.96
38559156--38559263	26	4.2	26	90	7	166	37	22	7	33	1.82
38559156--38559263	52	2.1	52	94	0	189	37	22	7	33	1.82
38562510--38562542	13	2.4	14	90	5	50	51	3	3	42	1.32
38564639--38564689	10	4.5	11	84	13	61	64	1	0	33	1.05
38564640--38564683	13	3.8	12	85	11	56	61	2	0	36	1.09
38572802--38572971	46	3.7	46	74	10	166	21	20	28	29	1.98
38578577--38578608	12	2.7	12	100	0	64	46	0	31	21	1.52
38580352--38580575	46	4.8	47	77	9	185	21	31	19	27	1.97
38585890--38585929	21	2.0	20	85	5	53	22	22	40	15	1.91
38587349--38587374	13	2.0	13	100	0	52	15	38	30	15	1.88
38589417--38589519	37	2.8	37	96	0	188	24	32	20	23	1.98
38589660--38590141	48	10.0	48	93	0	793	31	27	6	34	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38600139--38600175	13	2.8	13	87	0	56	16	32	32	18	1.93
38602610--38602779	47	3.6	47	91	4	243	21	30	21	26	1.98
38602796--38602966	46	3.7	44	80	9	164	22	29	18	29	1.97
38602613--38602969	94	3.8	94	75	14	287	22	29	19	27	1.98
38602614--38602966	47	7.6	45	80	10	240	22	29	19	28	1.98
38610487--38610669	79	2.3	80	84	7	230	25	27	22	24	2.00
38610485--38610669	40	4.7	40	79	10	209	25	28	22	23	1.99
38612593--38612801	41	5.2	40	87	3	125	25	27	23	23	2.00
38612616--38612801	41	4.6	41	89	3	261	24	26	24	24	2.00
38612616--38612799	81	2.3	82	84	5	257	23	26	25	24	2.00

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   
          321   322   323   324   325   326   327   328   329   330   331   332   333   334   335   336   
          337   338   339   340   341   342   343   344   345   346   347   348   349   350   351   352   
          353   354   355   356