genome.fa.s5.2.7.7.80.10.50.1000.12.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: Gbar_A05
Parameters: 2 7 7 80 10 50 1000
Length:  102776486

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   

This is table  12  of  325  ( 38985 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)
4360823--4360866	15	3.0	15	83	6	63	54	4	0	40	1.21
4364389--4364455	2	33.5	2	100	0	134	50	0	49	0	1.00
4364666--4364692	3	9.0	3	100	0	54	66	0	33	0	0.92
4366461--4366485	13	1.9	13	100	0	50	32	0	0	68	0.90
4366718--4366748	16	1.9	16	93	0	53	29	12	3	54	1.53
4367760--4367793	18	1.9	18	88	5	52	47	11	0	41	1.40
4372661--4372688	6	4.7	6	100	0	56	53	32	0	14	1.41
4388954--4388987	18	1.9	18	88	5	52	55	26	5	11	1.58
4389714--4389868	43	3.6	43	92	0	265	30	33	25	10	1.90
4393137--4393185	25	2.0	26	84	8	66	67	2	0	30	1.02
4393251--4393328	16	4.8	16	80	4	68	65	0	14	20	1.27
4393712--4393756	23	2.0	23	86	8	65	62	0	8	28	1.25
4393944--4393988	23	2.0	23	86	8	65	62	0	8	28	1.25
4395896--4395934	18	2.2	17	86	13	53	33	0	20	46	1.51
4396038--4396066	8	3.6	8	100	0	58	24	13	27	34	1.93
4396152--4396226	23	3.3	23	92	3	134	20	21	26	32	1.97
4403225--4403263	18	2.2	17	86	13	53	33	0	20	46	1.51
4403368--4403396	8	3.6	8	100	0	58	24	13	27	34	1.93
4403483--4403558	23	3.3	23	96	0	143	21	21	26	31	1.98
4405869--4406367	105	4.7	106	80	11	526	34	14	16	35	1.89
4405869--4406367	106	4.7	106	81	9	547	34	14	16	35	1.89
4411596--4411640	22	1.9	22	82	13	54	57	2	0	40	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4411999--4412030	14	2.3	14	100	0	64	31	46	15	6	1.71
4412246--4412335	45	2.0	45	100	0	180	33	15	8	42	1.78
4417161--4417192	14	2.3	14	100	0	64	31	46	15	6	1.71
4418890--4418923	11	3.2	11	87	4	52	35	0	0	64	0.94
4419144--4419184	11	3.7	11	83	0	55	51	9	19	19	1.74
4419145--4419192	22	2.2	22	85	14	64	54	6	20	18	1.65
4419590--4419632	15	2.8	15	83	13	52	60	0	4	34	1.17
4431590--4431750	60	2.7	60	91	1	252	27	16	40	15	1.89
4436676--4436710	18	1.9	18	88	11	54	80	2	2	14	0.95
4440430--4440472	15	2.7	15	78	7	50	67	2	0	30	1.03
4440750--4440877	67	1.9	67	100	0	256	46	18	12	22	1.83
4442396--4442455	30	2.0	30	90	0	93	36	8	25	30	1.85
4442878--4443006	47	2.8	47	90	1	197	21	20	27	30	1.98
4443451--4443500	20	2.5	20	96	0	91	34	10	22	34	1.87
4449052--4449187	47	2.9	46	91	2	218	22	19	27	30	1.97
4449072--4449187	46	2.5	43	92	1	117	20	18	29	31	1.96
4451081--4451119	19	2.1	19	85	4	53	46	15	0	38	1.46
4451629--4451691	31	2.0	31	90	0	99	28	20	0	50	1.48
4451821--4451878	25	2.3	25	90	0	89	43	18	18	18	1.89
4452799--4452831	7	4.7	7	85	14	50	57	3	0	39	1.14
4452816--4452870	29	1.9	28	82	10	67	43	3	3	49	1.37
4463542--4463584	18	2.4	18	84	0	59	55	0	39	4	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4474008--4474070	31	2.1	29	85	5	81	47	6	3	42	1.44
4474184--4474226	19	2.2	20	87	4	61	25	23	0	51	1.49
4476877--4476934	29	2.0	28	90	3	89	29	20	5	44	1.73
4479750--4480086	35	9.6	35	85	0	413	31	11	24	32	1.90
4479750--4480086	105	3.2	105	88	2	455	31	11	24	32	1.90
4482278--4482374	40	2.5	38	75	8	90	17	25	26	29	1.97
4484029--4484068	19	2.0	20	85	4	55	55	0	0	45	0.99
4490598--4490673	38	2.0	38	100	0	152	52	13	7	26	1.67
4490604--4490665	19	3.3	19	64	8	54	56	11	8	24	1.61
4490704--4490937	122	1.9	123	93	0	407	41	16	14	27	1.87
4494973--4495009	18	2.1	18	100	0	74	51	16	10	21	1.74
4517304--4517370	20	3.1	23	73	16	72	56	0	0	43	0.99
4520463--4520542	28	2.8	29	86	3	117	16	3	32	47	1.64
4520727--4520834	21	5.1	21	82	5	110	14	21	25	37	1.92
4521916--4522102	46	3.9	48	74	15	154	26	15	28	29	1.96
4528599--4528711	39	2.9	39	70	18	99	31	25	18	23	1.97
4529613--4529643	12	2.6	12	94	0	53	0	25	0	74	0.82
4534378--4534432	28	2.0	28	89	7	85	49	0	0	50	1.00
4547792--4547860	34	2.0	34	100	0	138	33	8	8	49	1.64
4547949--4547983	18	1.9	18	94	0	61	37	2	14	45	1.59
4559480--4559563	28	3.0	28	85	0	114	19	26	16	38	1.92
4563917--4564047	44	3.0	44	97	0	253	19	27	12	40	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4566023--4566050	14	2.0	14	100	0	56	21	21	21	35	1.96
4576174--4576239	33	2.0	33	90	0	105	21	7	39	31	1.81
4584671--4584728	30	1.9	30	89	0	89	41	3	24	31	1.71
4584940--4584971	13	2.5	13	94	0	55	31	0	12	56	1.37
4585066--4585307	50	4.7	50	86	4	297	26	24	29	19	1.99
4585066--4585315	100	2.4	103	88	6	364	26	24	29	20	1.99
4587984--4588028	22	2.0	23	95	4	83	42	22	17	17	1.89
4588232--4588315	28	3.0	28	89	1	123	46	29	3	20	1.67
4598354--4598512	27	5.9	26	82	7	149	34	21	23	20	1.96
4598372--4598515	54	2.7	54	92	2	227	34	22	23	18	1.96
4600105--4600212	26	4.2	26	93	0	189	36	24	7	32	1.83
4605269--4605308	18	2.2	19	86	13	57	20	10	0	70	1.16
4608447--4608486	19	2.2	19	95	4	73	25	12	10	52	1.70
4617146--4617203	29	1.9	31	86	6	84	41	13	3	41	1.62
4620247--4620291	22	2.0	23	86	4	65	42	0	6	51	1.28
4628302--4628344	16	2.8	15	79	6	50	55	0	4	39	1.20
4628460--4628503	21	2.0	22	86	4	63	43	0	6	50	1.29
4650985--4651028	23	1.9	23	95	0	79	11	29	11	47	1.74
4651645--4651689	23	2.0	23	95	0	81	42	2	31	24	1.67
4659712--4659760	25	2.0	25	100	0	98	67	0	4	28	1.09
4661655--4661728	37	2.0	37	89	0	112	29	21	12	36	1.90
4661616--4661766	83	1.9	80	88	4	230	28	22	13	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4669235--4669345	37	3.0	37	94	0	186	28	20	12	37	1.90
4679608--4679696	47	2.0	45	80	10	101	58	0	3	38	1.15
4712140--4712188	18	2.7	18	75	12	55	53	8	12	26	1.66
4713536--4713578	19	2.3	19	84	15	54	41	2	0	55	1.12
4720462--4720527	21	3.2	21	73	2	62	19	19	16	43	1.88
4720457--4720570	41	2.7	42	76	2	122	18	21	17	42	1.89
4724576--4724695	49	2.4	50	86	4	163	30	27	15	25	1.96
4724677--4724712	17	2.1	17	94	0	63	25	19	22	33	1.97
4727780--4727981	102	2.0	102	98	0	386	35	24	9	29	1.88
4728441--4728620	47	3.8	49	78	15	191	30	28	20	21	1.98
4728449--4728620	94	1.8	93	91	3	283	29	29	20	20	1.98
4729039--4729098	30	2.0	30	87	6	86	28	26	8	36	1.85
4731248--4731277	13	2.3	13	94	0	51	30	20	6	43	1.77
4747808--4747918	47	2.4	47	83	6	145	34	23	17	25	1.96
4755589--4755633	22	2.0	22	95	0	81	26	20	8	44	1.80
4770517--4770557	21	2.0	21	90	0	64	29	21	29	19	1.98
4785799--4785843	18	2.6	16	83	13	54	66	8	0	24	1.20
4785859--4785900	21	2.0	20	86	13	57	64	0	0	35	0.94
4786421--4786446	13	2.0	13	100	0	52	15	0	46	38	1.46
4790999--4791064	23	3.0	22	78	12	82	39	24	21	15	1.91
4791255--4791352	28	3.8	23	78	13	70	46	31	4	17	1.66
4791269--4791352	28	3.0	28	91	1	132	46	30	3	19	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4799242--4799312	31	2.3	29	75	17	72	47	14	0	38	1.44
4801452--4801490	19	1.9	19	85	10	51	25	0	10	64	1.25
4804088--4804151	24	2.7	23	80	4	65	60	3	1	34	1.22
4804105--4804153	13	3.9	13	81	10	57	57	2	2	38	1.22
4819269--4819311	20	2.2	19	87	4	59	58	0	2	39	1.11
4826322--4826415	47	2.0	47	100	0	188	34	12	12	40	1.82
4838140--4838179	17	2.4	16	84	8	53	62	0	0	37	0.95
4844190--4844232	22	2.0	22	95	0	77	46	9	9	34	1.68
4844807--4844869	33	1.9	33	96	0	117	41	12	12	33	1.81
4851493--4851523	6	5.2	6	96	0	53	16	19	16	48	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