genome.fa.s3.2.7.7.80.10.50.1000.13.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_A03
Parameters: 2 7 7 80 10 50 1000
Length:  105315579

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  13  of  325  ( 38900 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)
3977239--3977279	21	2.0	21	85	9	57	19	9	29	41	1.83
3977498--3977557	18	3.3	17	80	19	68	45	5	0	50	1.23
3977767--3977851	44	2.0	44	97	2	163	35	7	3	54	1.45
3977884--3977927	23	2.0	21	86	8	61	36	6	2	54	1.40
3979996--3980074	39	2.0	39	100	0	158	12	15	7	64	1.48
3980984--3981045	19	3.3	19	70	17	56	37	1	3	58	1.24
3980990--3981064	38	2.0	38	86	5	107	37	1	4	57	1.26
3986476--3986521	21	2.2	21	84	0	56	63	10	2	23	1.38
3986640--3986675	10	3.6	10	84	0	54	63	0	2	33	1.08
3986718--3986747	10	2.9	10	95	5	51	20	16	0	63	1.31
3986785--3986838	20	2.7	20	80	13	65	25	7	0	66	1.17
3992336--3992370	15	2.2	16	90	5	54	34	2	0	62	1.10
3992478--3992541	24	2.7	24	80	7	67	37	9	4	48	1.56
3993790--3993847	28	2.1	28	93	0	98	37	17	12	32	1.86
4001775--4001816	21	2.0	20	82	13	50	28	11	33	26	1.92
4005255--4005444	76	2.5	76	93	1	310	33	16	18	30	1.94
4005255--4005469	76	2.8	77	90	3	301	32	17	20	29	1.95
4005386--4005799	88	4.6	89	81	8	412	27	15	18	38	1.91
4007484--4007518	15	2.2	16	90	5	54	34	2	0	62	1.10
4008094--4008161	25	2.8	24	80	6	73	33	8	7	50	1.61
4010099--4010127	15	1.9	15	100	0	58	55	3	13	27	1.55
4014277--4014303	12	2.2	12	100	0	54	85	0	0	14	0.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4016979--4017072	28	3.4	27	66	16	75	30	25	13	29	1.94
4016939--4017072	56	2.4	56	88	5	198	31	28	12	27	1.93
4030165--4030231	22	2.8	24	82	13	84	19	1	25	53	1.53
4038747--4038775	3	9.7	3	100	0	58	68	0	0	31	0.89
4039870--4039908	20	1.9	21	85	15	55	53	0	2	43	1.14
4040975--4041060	30	2.9	30	92	0	136	27	3	12	55	1.53
4045329--4045397	31	2.1	31	84	7	84	40	5	8	44	1.59
4047732--4047756	13	1.9	13	100	0	50	32	8	8	52	1.60
4055557--4055653	45	2.2	45	83	3	115	28	18	8	44	1.79
4057076--4057129	25	2.2	25	89	0	81	38	22	14	24	1.91
4059281--4059373	43	2.2	44	92	3	154	51	13	6	27	1.66
4059395--4059434	19	2.2	18	90	4	62	42	17	2	37	1.63
4066139--4066231	43	2.2	44	92	3	154	51	13	6	27	1.66
4066253--4066292	19	2.2	18	90	4	62	42	17	2	37	1.63
4067292--4067329	18	2.2	18	85	4	51	52	0	13	34	1.40
4068287--4068408	61	2.0	61	95	0	217	23	13	31	31	1.93
4075140--4075174	17	2.1	17	100	0	70	48	11	5	34	1.63
4076657--4076692	17	2.1	18	94	5	65	27	5	0	66	1.13
4081200--4081226	2	13.5	2	100	0	54	0	48	0	51	1.00
4081451--4081497	6	7.8	6	90	0	58	40	2	53	4	1.32
4082338--4082393	2	28.0	2	100	0	112	0	50	0	50	1.00
4085607--4085819	9	22.3	9	68	18	87	60	4	3	31	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4085604--4085750	19	7.7	19	71	15	72	59	3	4	32	1.32
4085679--4085734	29	1.9	29	85	0	76	58	1	3	35	1.26
4089582--4089632	20	2.5	21	83	3	68	66	3	19	9	1.36
4091610--4091839	116	2.0	116	83	5	295	29	11	22	36	1.89
4094533--4094569	16	2.4	16	86	13	51	35	0	5	59	1.20
4094858--4094892	18	1.9	18	88	11	54	37	2	0	60	1.12
4096946--4097220	139	1.9	143	81	5	326	39	9	10	40	1.72
4120058--4120184	64	2.0	64	98	0	245	25	18	17	39	1.92
4121227--4121258	16	2.0	16	100	0	64	31	18	12	37	1.88
4126502--4126544	20	2.1	21	86	4	61	46	0	0	53	1.00
4127531--4127600	25	3.0	25	80	14	78	44	2	0	52	1.15
4127584--4127651	26	2.8	23	78	12	66	36	0	2	60	1.12
4127586--4127707	25	4.8	26	70	21	80	34	3	3	59	1.30
4127663--4127718	13	4.4	12	78	12	51	33	0	1	64	1.04
4127586--4127709	27	4.8	27	70	22	97	33	3	3	59	1.29
4133475--4133516	22	1.9	22	85	0	57	47	2	2	47	1.28
4134485--4134526	18	2.3	18	84	11	59	66	2	0	30	1.04
4134551--4134592	22	2.0	21	86	13	59	7	4	14	73	1.21
4137022--4137058	17	2.1	18	90	5	58	24	0	10	64	1.25
4148911--4148944	13	2.6	13	85	0	50	41	11	2	44	1.56
4148911--4148960	26	1.9	26	84	8	66	44	18	2	36	1.61
4154275--4154315	15	2.5	17	80	11	59	63	0	2	34	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4154266--4154315	24	2.0	26	84	7	68	60	0	2	38	1.09
4164925--4164982	31	2.0	27	83	12	71	36	3	8	51	1.49
4167934--4168017	31	2.8	29	81	7	78	40	2	10	46	1.52
4168923--4168963	17	2.3	18	80	12	50	70	9	4	14	1.30
4170899--4170926	14	2.0	14	100	0	56	42	7	21	28	1.79
4175135--4175165	15	2.1	15	100	0	62	35	19	6	38	1.77
4181040--4181106	33	2.0	33	100	0	134	41	16	8	32	1.79
4182908--4182970	20	3.2	20	76	0	72	52	19	1	26	1.55
4182953--4183049	48	2.0	49	82	6	117	45	14	5	35	1.67
4187514--4187603	44	2.0	44	97	0	171	33	13	14	38	1.85
4196128--4196155	6	4.7	6	100	0	56	85	0	0	14	0.59
4201870--4201912	19	2.2	20	84	8	54	74	0	0	25	0.82
4201898--4201996	10	10.3	10	70	12	55	54	2	1	42	1.18
4201926--4201997	37	1.9	37	82	0	90	56	2	1	38	1.22
4202267--4202337	29	2.4	30	81	11	85	33	5	2	57	1.37
4204595--4204659	22	3.0	21	75	8	60	53	3	4	38	1.37
4204595--4204686	42	2.1	43	82	4	105	51	4	5	39	1.45
4217361--4217390	15	2.0	15	93	0	51	33	16	3	46	1.64
4223928--4223966	20	2.0	20	84	0	51	41	7	2	48	1.45
4226982--4227138	80	2.0	80	96	0	287	47	4	7	40	1.52
4229236--4229279	21	2.1	21	100	0	88	52	4	0	43	1.22
4230003--4230058	29	2.0	29	89	6	89	48	10	10	30	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4230004--4230071	29	2.3	29	84	5	82	50	10	11	27	1.71
4245637--4245664	11	2.5	11	100	0	56	64	7	0	28	1.20
4253261--4253291	12	2.6	12	94	0	53	32	22	0	45	1.53
4259089--4259146	30	1.9	30	89	0	89	41	3	24	31	1.71
4259358--4259389	13	2.5	13	94	0	55	31	0	12	56	1.37
4259484--4259725	50	4.7	50	86	4	297	26	24	29	19	1.99
4259484--4259733	100	2.4	103	88	6	364	26	24	29	20	1.99
4266342--4266399	30	1.9	30	89	0	89	41	3	24	31	1.71
4266611--4266642	13	2.5	13	94	0	55	31	0	12	56	1.37
4266737--4266978	50	4.7	50	86	4	297	26	24	29	19	1.99
4266737--4266986	100	2.4	103	88	6	364	26	24	29	20	1.99
4271066--4271098	12	2.8	12	95	0	57	30	21	0	48	1.50
4280763--4280809	19	2.5	20	89	6	71	42	8	21	27	1.81
4283493--4283545	12	4.5	13	73	20	53	62	5	1	30	1.29
4283620--4283710	3	30.3	3	70	18	57	65	1	4	28	1.18
4283620--4283700	12	6.8	12	72	12	69	64	1	4	29	1.22
4284119--4284178	13	4.7	13	68	4	50	20	15	50	15	1.79
4284117--4284237	38	3.2	38	98	0	233	21	12	49	16	1.78
4289510--4289571	25	2.4	26	81	8	72	61	14	12	11	1.57
4292990--4293017	10	2.8	10	100	0	56	50	0	17	32	1.47
4297136--4297236	39	2.6	39	90	0	148	12	23	23	39	1.90
4297149--4297218	21	3.5	20	75	13	72	11	22	22	42	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4300153--4300182	12	2.4	13	94	5	53	36	6	0	56	1.26
4301039--4301077	17	2.4	17	82	4	53	25	0	10	64	1.25
4313356--4313413	25	2.3	25	80	11	73	55	12	13	18	1.69
4314260--4314305	20	2.3	20	85	3	58	50	2	6	41	1.40
4314298--4314562	120	2.2	120	77	6	259	35	18	8	37	1.82
4314593--4314660	20	3.4	19	78	8	73	38	14	4	42	1.66
4314685--4314745	20	3.0	20	71	17	54	44	8	3	44	1.50
4319230--4319287	15	3.8	15	83	2	80	53	10	0	36	1.35
4319233--4319290	30	2.0	29	96	3	107	56	10	0	32	1.33
4321323--4321448	33	3.8	33	87	5	148	34	22	7	35	1.83

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