genome.fa.s11.2.7.7.80.10.50.1000.12.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  12  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)
4119240--4119302	33	1.9	33	90	6	101	55	6	3	34	1.41
4122160--4122202	22	2.0	22	90	0	68	20	11	9	58	1.61
4135821--4135884	31	2.0	32	82	14	80	43	0	9	46	1.35
4135973--4136019	19	2.5	19	76	13	51	38	0	2	59	1.09
4167259--4167299	12	3.4	12	86	0	55	26	7	21	43	1.79
4175054--4175148	20	4.3	20	67	18	55	35	4	0	60	1.17
4175096--4175136	10	4.1	10	90	6	57	39	7	0	53	1.29
4186733--4186798	9	6.8	9	75	16	53	24	3	3	69	1.16
4189314--4189371	29	2.0	29	96	0	107	50	17	10	22	1.76
4197811--4197837	14	1.9	14	100	0	54	18	0	0	81	0.69
4202197--4202223	14	1.9	14	100	0	54	18	0	0	81	0.69
4213147--4213202	21	2.9	18	80	17	60	62	3	3	30	1.29
4217907--4217942	6	6.0	6	100	0	72	33	0	66	0	0.92
4220323--4220364	19	2.2	20	83	12	52	33	14	4	47	1.65
4221231--4221280	15	3.4	15	77	5	66	36	0	2	62	1.07
4221391--4221421	14	2.2	14	94	0	53	41	0	6	51	1.27
4222229--4222253	10	2.5	10	100	0	50	92	0	8	0	0.40
4246834--4246869	8	4.5	8	93	6	56	86	0	2	11	0.68
4248045--4248082	19	2.0	19	94	0	67	31	23	10	34	1.89
4258788--4258899	24	4.7	24	94	0	188	17	13	29	39	1.88
4266427--4266538	24	4.7	24	89	0	170	19	13	27	39	1.89
4271146--4271279	41	3.0	47	63	24	124	25	15	27	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4271110--4271330	88	2.5	88	91	0	354	26	16	28	28	1.97
4271292--4271784	44	11.4	44	89	3	768	27	17	32	22	1.96
4271278--4271784	128	3.9	129	89	4	722	28	17	32	21	1.96
4271292--4271763	172	2.7	171	93	0	800	27	17	33	21	1.96
4272075--4272099	7	3.6	7	100	0	50	88	0	0	12	0.53
4272087--4272128	9	4.7	9	84	0	57	85	0	9	4	0.72
4273292--4273329	19	2.0	19	94	0	67	31	23	10	34	1.89
4289138--4289167	15	2.0	15	93	0	51	36	33	0	30	1.58
4289992--4290128	29	4.7	30	71	13	108	28	29	18	22	1.98
4289992--4290160	58	2.9	57	92	2	275	28	28	18	23	1.98
4290058--4290157	29	3.4	29	70	10	87	31	24	20	25	1.98
4290336--4290398	27	2.3	28	86	8	94	38	33	20	7	1.82
4290363--4290604	43	5.7	43	92	1	378	32	32	23	11	1.90
4291999--4292112	37	3.1	36	94	5	201	38	18	5	37	1.73
4295887--4295993	35	3.1	35	91	0	178	20	23	11	44	1.83
4296154--4296205	26	2.0	26	100	0	104	19	11	19	50	1.77
4300191--4300305	31	3.9	29	77	14	110	51	11	15	21	1.75
4302066--4302121	17	3.2	17	69	20	53	62	0	1	35	1.06
4302057--4302123	20	3.6	19	71	22	63	61	0	1	37	1.05
4303309--4303334	13	2.0	13	100	0	52	46	0	0	53	1.00
4319269--4319311	24	1.9	24	86	13	65	58	2	0	39	1.11
4319290--4319340	17	2.9	17	81	16	52	45	3	0	50	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4336769--4336846	11	6.9	11	81	10	77	16	1	11	70	1.23
4337559--4337583	11	2.3	11	100	0	50	36	0	28	36	1.58
4354950--4355022	26	2.8	26	77	8	67	49	0	1	49	1.09
4358117--4358161	13	3.7	13	77	14	51	15	0	4	80	0.87
4360646--4360790	52	2.8	52	85	3	175	25	15	26	31	1.96
4360746--4360879	47	2.9	47	82	4	139	25	13	26	35	1.93
4364127--4364169	18	2.4	18	100	0	86	0	55	0	44	0.99
4365265--4365330	34	1.9	34	90	3	105	42	15	10	31	1.81
4365300--4365339	14	2.9	14	84	0	53	42	17	7	32	1.77
4369698--4369729	16	2.0	16	93	0	55	37	0	9	53	1.34
4378171--4378207	19	2.0	19	89	5	58	56	0	5	37	1.22
4378375--4378407	10	3.4	10	91	4	50	81	3	0	15	0.80
4378518--4378587	27	2.7	26	75	14	63	35	2	0	61	1.11
4378525--4378586	18	3.4	18	78	10	56	37	1	0	61	1.06
4378555--4378607	20	2.8	20	75	16	58	43	0	0	56	0.99
4381268--4381319	6	8.7	6	82	0	50	71	5	13	9	1.30
4381275--4381319	18	2.5	18	88	0	63	73	6	11	8	1.25
4386606--4386633	8	3.5	8	100	0	56	10	0	0	89	0.49
4391565--4391594	13	2.4	12	94	5	51	73	0	0	26	0.84
4398606--4398662	24	2.5	22	76	13	62	47	10	17	24	1.79
4403288--4403380	18	5.2	18	85	0	132	32	15	23	29	1.95
4404278--4404337	27	2.2	27	96	0	111	50	10	0	40	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4410008--4410236	114	2.0	114	100	0	458	46	4	7	41	1.52
4424287--4424323	19	1.9	19	100	0	74	59	13	5	21	1.54
4429344--4429385	20	2.0	22	86	9	61	54	0	4	40	1.21
4429514--4429569	19	2.9	19	71	12	51	33	1	1	62	1.16
4429521--4429571	9	5.6	9	75	11	50	33	1	1	62	1.17
4429492--4429576	28	3.0	28	71	19	70	34	2	3	60	1.27
4431025--4431081	30	1.9	29	85	3	78	66	0	1	31	1.02
4431232--4431276	11	4.3	11	73	21	51	44	8	4	42	1.56
4432219--4432253	17	2.0	18	88	5	54	71	0	0	28	0.86
4434032--4434070	20	2.0	20	89	0	60	53	2	0	43	1.14
4435301--4435340	3	13.0	3	94	5	71	35	0	0	65	0.93
4438757--4438822	20	3.4	19	85	8	71	51	9	1	37	1.43
4438757--4438822	19	3.4	19	83	8	71	51	9	1	37	1.43
4438791--4438848	27	2.1	27	84	6	73	58	6	0	34	1.25
4438773--4438828	19	3.0	19	87	7	71	55	7	0	37	1.27
4443657--4443747	46	2.0	46	100	0	182	29	13	13	43	1.81
4444514--4444548	17	2.1	17	100	0	70	17	17	28	37	1.92
4450685--4450727	22	2.0	22	81	9	52	27	4	11	55	1.55
4452707--4452773	3	22.3	3	72	17	50	56	1	1	40	1.17
4452706--4452767	13	4.9	13	77	16	60	56	1	1	40	1.19
4455066--4455103	16	2.2	18	86	9	53	55	0	2	42	1.14
4461714--4461744	16	1.9	16	93	0	53	41	0	3	54	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4468094--4468171	30	2.6	32	74	17	85	34	21	15	28	1.94
4472621--4472652	14	2.3	14	100	0	64	6	15	46	31	1.71
4476894--4477142	50	4.8	50	85	4	284	20	29	24	26	1.99
4476893--4477142	100	2.4	104	88	6	357	20	29	24	26	1.99
4477237--4477268	13	2.5	13	94	0	55	56	12	0	31	1.37
4477480--4477537	30	1.9	30	89	0	89	31	24	3	41	1.71
4480018--4480075	30	1.9	30	89	0	89	41	3	24	31	1.71
4480287--4480318	13	2.5	13	94	0	55	31	0	12	56	1.37
4480413--4480654	50	4.7	50	86	4	297	26	24	28	19	1.99
4480413--4480662	100	2.4	103	87	6	355	26	24	28	20	1.99
4485187--4485244	30	1.9	30	89	0	89	41	3	24	31	1.71
4485456--4485487	13	2.5	13	94	0	55	31	0	12	56	1.37
4485586--4485822	50	4.6	50	83	6	271	26	24	28	20	1.99
4485585--4485830	100	2.4	105	87	6	360	26	24	28	21	1.99
4490796--4490827	14	2.3	14	100	0	64	6	15	46	31	1.71
4493401--4493441	17	2.4	17	88	11	66	31	9	9	48	1.69
4495397--4495471	24	3.2	24	63	30	61	18	25	14	41	1.89
4495366--4495629	46	5.7	47	90	2	349	20	24	13	41	1.88
4497761--4497828	28	2.4	29	80	11	79	44	4	0	51	1.21
4497798--4497847	21	2.5	20	84	9	75	46	4	0	50	1.20
4498879--4498939	31	2.0	31	93	0	104	49	9	6	34	1.62
4504912--4504943	5	6.6	5	92	7	57	18	0	0	81	0.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4504912--4504942	9	3.3	9	91	8	53	19	0	0	80	0.71
4507859--4507883	2	12.5	2	100	0	50	52	48	0	0	1.00
4510594--4510656	33	1.9	32	84	9	83	53	1	6	38	1.36
4512502--4512539	16	2.4	17	86	13	62	71	0	0	28	0.87
4512503--4512531	8	3.6	8	100	0	58	75	0	0	24	0.80
4513174--4513213	20	2.0	20	90	9	64	60	7	2	30	1.38
4513180--4513220	21	2.0	21	86	9	59	63	4	4	26	1.35
4514625--4514659	13	2.7	13	90	0	61	40	25	8	25	1.84
4515305--4515350	19	2.3	19	85	7	56	54	2	6	36	1.39
4515398--4515431	16	2.1	17	88	5	52	61	0	2	35	1.11

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