genome.fa.s11.2.7.7.80.10.50.1000.125.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  125  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)
39732923--39732983	28	2.2	28	84	0	86	32	19	21	26	1.97
39735847--39735889	20	2.2	20	86	0	59	9	23	0	67	1.19
39739756--39739858	43	2.4	43	84	9	138	27	15	23	33	1.95
39751906--39752185	40	7.0	38	89	6	321	28	26	22	23	1.99
39751926--39752184	80	3.2	80	91	2	378	28	25	22	23	1.99
39751903--39752188	120	2.4	118	86	6	371	27	26	21	23	1.99
39759093--39759143	21	2.4	21	87	6	68	41	3	31	23	1.73
39761308--39761493	41	4.6	41	88	3	252	25	24	25	24	2.00
39761310--39761463	81	1.9	82	89	4	240	24	24	25	25	2.00
39765350--39765466	41	2.9	39	75	12	103	28	27	20	23	1.99
39773660--39773836	47	3.7	46	78	12	151	25	29	18	26	1.98
39773804--39774018	46	4.7	44	80	9	182	23	30	19	26	1.98
39773661--39774023	94	3.9	96	76	11	317	25	29	18	26	1.98
39779094--39779266	46	3.8	44	77	14	172	22	19	27	30	1.98
39779091--39779261	93	1.8	93	88	5	265	22	19	28	29	1.98
39786199--39786370	46	3.7	45	77	13	179	23	19	27	30	1.98
39786195--39786366	93	1.8	93	89	0	272	23	19	27	29	1.98
39787705--39788171	234	2.0	234	96	0	871	32	22	9	36	1.86
39789950--39790005	22	2.5	22	80	8	60	32	5	5	57	1.44
39790066--39790111	24	1.9	24	100	0	92	39	0	2	58	1.10
39793334--39793416	34	2.5	34	92	5	136	36	27	6	30	1.81
39795045--39795227	51	3.7	50	79	3	156	25	17	25	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39814124--39814266	24	6.0	24	89	4	209	26	21	22	29	1.99
39814124--39814266	47	3.0	48	91	4	218	26	21	22	29	1.99
39814318--39814382	20	3.2	20	93	0	112	32	21	12	33	1.90
39814318--39814371	11	5.3	11	70	17	53	31	20	12	35	1.90
39816731--39816774	19	2.4	18	85	7	54	40	9	0	50	1.34
39818344--39818468	48	2.6	48	87	1	180	32	15	21	31	1.94
39818432--39818508	38	2.0	38	94	0	136	28	15	27	28	1.96
39822496--39822898	47	8.6	47	94	1	682	32	7	29	29	1.85
39824314--39824705	40	9.8	40	94	0	640	23	21	28	26	1.99
39828934--39829383	47	9.6	47	96	0	783	32	8	30	29	1.86
39835526--39835593	34	2.0	35	88	2	102	25	23	22	29	1.99
39835529--39835615	34	2.6	34	80	7	97	24	24	24	27	2.00
39838220--39838441	41	5.6	39	83	2	167	24	26	23	25	2.00
39838256--39838441	41	4.6	41	87	3	234	24	26	24	25	2.00
39838286--39838439	81	1.9	82	87	4	231	25	25	24	24	2.00
39840247--39840354	42	2.6	42	82	5	112	33	25	15	25	1.95
39843288--39843418	40	3.3	40	80	2	138	36	16	25	22	1.94
39848815--39848874	25	2.4	25	88	0	93	23	28	20	28	1.99
39848804--39848874	25	2.9	24	79	6	79	28	28	18	25	1.98
39848815--39848881	25	2.7	24	81	6	80	28	25	17	28	1.98
39848815--39848901	25	3.5	24	76	14	70	26	25	20	27	1.99
39849653--39849731	38	2.1	38	97	0	149	15	35	18	30	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39856743--39856812	25	2.8	25	84	0	86	28	27	18	25	1.98
39856768--39856819	25	2.1	25	85	3	70	34	21	15	28	1.94
39859251--39859549	138	2.2	138	83	6	374	26	17	30	26	1.97
39859248--39859514	46	5.7	46	75	9	202	26	17	30	25	1.97
39863672--39863779	54	2.0	54	98	0	207	31	17	24	26	1.97
39867028--39867202	46	3.8	45	77	8	183	21	20	28	30	1.98
39867022--39867194	92	1.9	93	89	3	269	20	20	29	29	1.98
39872177--39872284	20	5.4	20	69	2	83	38	18	17	25	1.92
39872125--39872300	40	4.4	40	74	4	122	35	19	21	23	1.96
39874277--39874397	44	2.7	44	83	3	145	33	33	14	19	1.91
39875199--39875476	50	5.5	50	79	2	270	31	25	17	25	1.97
39875248--39875429	101	1.8	101	91	0	301	29	24	19	26	1.98
39879872--39879957	23	3.7	23	69	20	72	34	18	25	20	1.96
39881374--39881403	15	2.0	15	93	0	51	53	0	43	3	1.17
39884152--39884244	44	2.1	44	95	0	168	54	11	4	29	1.55
39899410--39899565	39	4.1	39	80	9	164	15	30	16	37	1.90
39899410--39899584	39	4.6	38	78	8	153	16	30	16	36	1.91
39902941--39903110	93	1.8	93	97	0	322	29	28	20	21	1.98
39902932--39903107	46	3.8	46	78	15	218	30	28	19	21	1.98
39905530--39905585	26	2.2	26	96	0	103	14	37	35	12	1.84
39906295--39906325	16	1.9	16	93	0	53	54	25	3	16	1.56
39910462--39910547	43	2.0	43	100	0	172	41	13	9	34	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39915484--39915627	50	2.8	51	85	2	173	32	28	13	25	1.93
39917418--39917541	28	4.4	28	85	0	131	32	28	10	29	1.90
39919003--39919046	22	2.0	22	82	8	54	43	2	0	54	1.12
39919013--39919056	22	2.0	22	90	0	70	34	2	2	61	1.21
39924272--39924340	27	2.6	26	81	6	75	21	24	15	37	1.93
39933381--39933438	30	2.0	30	96	3	109	25	17	25	31	1.97
39941028--39941083	28	2.0	28	100	0	112	28	17	17	35	1.93
39942489--39942526	17	2.2	18	95	4	69	15	5	2	76	1.08
39945646--39945739	41	2.3	41	85	3	118	23	20	22	34	1.97
39947277--39947306	3	10.0	3	92	0	51	0	30	0	70	0.88
39949541--39949670	47	2.8	47	85	0	152	23	14	26	35	1.93
39950818--39950845	13	2.2	13	100	0	56	25	25	35	14	1.93
39953482--39953708	40	5.7	40	89	0	350	25	21	27	25	1.99
39956126--39956169	19	2.4	19	85	7	56	50	0	9	40	1.34
39963047--39963087	8	5.1	8	84	0	55	48	14	29	7	1.71
39963318--39963378	27	2.3	27	97	0	113	26	22	32	18	1.97
39967015--39967144	47	2.8	47	83	2	145	26	14	26	32	1.95
39972855--39972893	18	2.1	19	86	13	55	41	0	28	30	1.57
39976390--39976542	43	3.6	43	81	5	175	26	13	26	33	1.94
39997774--39997981	69	3.1	62	65	19	166	35	8	19	36	1.83
39997763--39998021	138	1.9	138	100	0	518	35	7	18	37	1.80
39997806--39998019	69	3.1	69	66	22	203	37	7	18	36	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39999359--39999449	45	2.0	45	95	0	164	38	16	5	39	1.72
40000230--40000289	25	2.4	25	82	0	75	28	23	16	31	1.96
40005019--40005192	89	2.0	89	94	0	303	31	14	28	25	1.95
40007167--40007213	21	2.3	20	85	3	58	38	17	0	44	1.48
40008652--40008688	18	2.1	18	90	10	58	29	2	45	21	1.65
40009112--40009177	16	4.1	16	88	0	96	42	4	27	25	1.74
40009356--40009502	59	2.5	59	88	5	217	53	2	0	44	1.15
40014017--40014042	6	4.3	6	100	0	52	34	15	15	34	1.89
40016058--40016181	46	2.7	46	93	0	203	20	20	28	30	1.98
40023119--40023288	93	1.8	92	93	1	295	21	21	28	27	1.99
40023123--40023293	46	3.7	46	77	14	199	22	21	28	28	1.99
40027420--40027545	46	2.8	45	83	8	148	28	18	28	24	1.98
40030778--40031039	93	2.8	93	82	7	309	27	21	28	22	1.99
40030778--40031035	47	5.6	45	77	14	233	27	21	28	22	1.99
40038320--40038398	37	2.1	37	86	4	106	26	30	17	25	1.97
40038517--40038992	47	10.1	47	94	0	808	28	30	9	32	1.88
40042817--40042988	49	3.5	49	86	1	220	26	20	30	23	1.98
40046452--40046730	40	7.0	40	87	0	369	28	26	20	24	1.99
40058267--40058491	40	5.6	41	78	1	215	25	23	26	24	2.00
40064177--40064215	8	4.5	8	84	15	51	25	2	2	69	1.14
40075546--40075716	31	5.5	31	91	0	272	30	25	12	30	1.93
40075739--40075830	42	2.2	42	88	0	130	33	20	15	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40075976--40076047	26	2.8	26	93	2	119	26	23	23	26	2.00
40076095--40076147	20	2.7	20	96	0	97	30	16	11	41	1.84
40076872--40076935	27	2.4	27	81	5	76	21	25	17	35	1.95
40076989--40077096	27	3.9	27	75	13	94	30	8	19	41	1.81
40077052--40077202	27	5.6	27	87	4	191	27	7	22	41	1.81
40077077--40077235	54	2.9	54	84	3	205	28	10	21	38	1.87
40077053--40077202	81	1.9	81	87	5	223	28	8	22	42	1.81
40077052--40077235	81	2.3	81	82	7	214	28	10	21	40	1.86
40077073--40077242	27	6.3	27	78	13	136	28	11	22	37	1.88
40077234--40077431	27	7.3	27	86	2	254	39	7	23	29	1.81

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