genome.fa.s11.2.7.7.80.10.50.1000.179.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  179  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)
58170297--58170404	26	4.2	26	92	0	180	36	23	7	33	1.83
58171372--58171411	21	2.0	21	90	5	64	20	27	40	12	1.88
58172748--58172916	48	3.6	47	82	4	196	24	28	20	26	1.99
58178206--58178244	21	1.9	21	89	5	62	43	2	25	28	1.68
58188815--58188840	13	2.0	13	100	0	52	30	15	38	15	1.88
58191355--58191451	41	2.3	42	80	8	106	24	19	26	28	1.99
58193864--58193902	20	2.0	20	85	10	53	7	7	35	48	1.61
58194403--58194476	23	3.2	23	78	5	78	21	18	18	40	1.91
58194411--58194492	23	3.6	23	84	0	101	20	15	20	42	1.89
58194601--58194791	96	2.0	96	84	2	249	28	15	22	33	1.94
58198002--58198220	46	4.7	46	78	10	184	27	19	29	23	1.98
58199276--58199319	16	2.8	16	78	0	52	22	6	29	40	1.80
58202621--58202789	46	3.7	46	78	13	202	22	20	27	28	1.99
58202614--58202784	93	1.8	93	94	0	306	22	21	28	28	1.99
58208036--58208208	46	3.7	46	80	4	195	26	20	28	23	1.99
58208036--58208251	46	4.7	45	75	13	163	27	20	27	24	1.99
58221063--58221222	32	5.0	32	89	0	239	31	12	10	45	1.76
58223225--58223277	21	2.5	21	93	0	88	30	37	9	22	1.86
58224392--58224426	18	2.1	17	89	10	54	54	0	0	45	0.99
58233071--58233158	27	3.3	27	83	13	110	38	19	23	18	1.93
58233064--58233175	55	2.1	54	84	5	145	36	21	23	18	1.95
58233077--58233175	28	3.6	28	79	5	112	34	22	24	19	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58235689--58235715	14	1.9	14	100	0	54	59	14	3	22	1.51
58236517--58236576	26	2.3	26	85	5	77	41	10	15	33	1.80
58239734--58239770	18	2.1	18	89	0	56	72	0	21	5	1.04
58246208--58246276	26	2.7	26	88	0	93	27	20	28	23	1.99
58248851--58248884	12	2.8	12	90	4	50	26	8	20	44	1.81
58251374--58251495	22	5.3	22	62	21	61	25	29	11	33	1.91
58251346--58251606	47	5.5	47	89	2	346	27	30	9	32	1.88
58251576--58251637	31	2.0	31	100	0	124	32	25	6	35	1.82
58251529--58251684	80	2.0	76	91	5	249	29	28	8	33	1.86
58252344--58252382	17	2.3	17	100	0	78	15	28	15	41	1.87
58253023--58253142	56	2.1	56	96	0	222	23	22	9	45	1.81
58265056--58265081	3	8.7	3	100	0	52	30	0	0	69	0.89
58265388--58265449	31	2.0	32	84	9	83	30	11	0	58	1.33
58265425--58265478	25	2.2	25	90	3	83	31	5	0	62	1.18
58267649--58267781	19	6.7	19	69	20	78	53	0	2	44	1.13
58267688--58267771	9	9.8	8	71	26	50	54	0	2	42	1.13
58267630--58267752	27	4.6	27	78	4	149	52	0	3	43	1.17
58276955--58277030	25	2.9	24	84	9	80	59	1	1	38	1.14
58277646--58277698	24	2.2	24	90	3	81	45	0	1	52	1.11
58283212--58283249	16	2.4	17	82	8	53	10	13	15	60	1.59
58283335--58283393	24	2.5	24	84	13	77	16	28	0	54	1.43
58286227--58286266	19	2.1	19	90	0	62	42	7	10	40	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58300346--58300625	47	5.9	47	70	12	189	25	31	16	27	1.96
58300542--58300657	47	2.5	45	80	13	128	22	30	18	28	1.98
58307841--58307865	13	1.9	13	100	0	50	20	32	40	8	1.81
58311441--58311533	28	3.3	28	65	19	75	37	7	12	41	1.72
58311428--58311540	57	2.0	57	98	1	219	38	7	13	40	1.71
58313206--58313309	53	2.0	53	100	0	208	28	20	19	31	1.97
58322867--58322985	27	4.4	27	74	6	80	36	13	27	21	1.91
58325458--58325572	26	4.3	26	76	5	88	39	21	11	27	1.88
58325458--58325526	27	2.6	25	82	11	75	42	24	8	24	1.83
58325551--58325720	27	6.3	27	81	4	191	30	22	7	39	1.82
58325565--58325720	53	2.9	54	85	4	192	31	22	6	39	1.79
58325551--58325720	80	2.1	81	90	5	265	30	22	7	39	1.82
58325630--58325740	53	2.1	53	79	3	116	33	23	6	36	1.80
58325712--58325817	27	4.0	27	76	14	103	37	22	11	28	1.89
58325733--58326062	27	12.3	27	81	6	321	34	20	18	26	1.96
58326507--58326571	22	3.0	22	75	8	69	21	23	21	33	1.97
58326730--58326831	27	3.8	27	85	5	116	19	23	20	36	1.95
58326730--58326831	54	1.9	53	83	2	132	19	23	20	36	1.95
58326969--58327048	6	12.8	6	73	16	65	20	15	15	50	1.79
58326969--58327078	31	3.5	31	87	1	148	20	15	13	50	1.77
58328634--58328905	48	5.7	48	75	14	183	26	19	29	25	1.98
58335075--58335108	15	2.3	15	100	0	68	41	5	23	29	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58338570--58338886	48	6.7	47	75	11	172	27	18	30	23	1.98
58338531--58338708	46	3.8	45	71	15	130	29	19	27	23	1.98
58338570--58338886	96	3.3	95	75	13	239	27	18	30	23	1.98
58344695--58344754	15	4.0	15	93	0	102	13	16	13	56	1.67
58349412--58349449	18	2.0	19	85	10	51	28	7	23	39	1.83
58359857--58359913	26	2.2	26	81	6	71	43	22	19	14	1.86
58359962--58360026	26	2.5	26	80	7	71	38	16	20	24	1.93
58361050--58361105	28	2.0	28	100	0	112	25	10	21	42	1.85
58368685--58368728	17	2.5	17	81	3	52	65	2	0	31	1.05
58377102--58377132	11	2.8	11	95	0	53	19	48	3	29	1.64
58377682--58377772	18	5.1	18	93	0	146	30	23	14	31	1.94
58381822--58381852	11	2.8	11	100	0	62	19	48	0	32	1.49
58386367--58386410	22	2.0	22	100	0	88	36	4	9	50	1.55
58394932--58394964	3	11.0	3	100	0	66	33	0	66	0	0.92
58396653--58396700	18	2.7	18	80	0	60	70	0	2	27	0.98
58396659--58396855	10	20.5	10	62	19	53	63	4	2	30	1.24
58396679--58396863	19	9.7	19	64	19	64	63	4	1	30	1.23
58396693--58396769	31	2.6	29	81	6	82	63	6	1	28	1.27
58396703--58396767	29	2.2	28	79	12	69	61	7	1	29	1.33
58396813--58396901	43	2.0	45	82	6	110	64	1	3	31	1.17
58397237--58397278	19	2.3	19	87	4	59	50	2	9	38	1.48
58400262--58400448	93	2.0	93	100	0	374	30	16	20	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58401258--58401323	20	3.4	20	68	16	66	37	21	9	31	1.85
58401257--58401333	38	2.0	38	100	0	154	33	24	10	31	1.89
58402565--58402718	42	3.7	42	82	1	175	47	15	17	19	1.83
58402546--58402752	21	10.0	21	77	1	130	46	16	18	17	1.85
58402581--58402739	84	1.9	84	81	2	194	45	15	19	19	1.85
58402715--58402760	21	2.2	21	92	0	74	52	15	21	10	1.73
58404891--58404967	11	7.8	10	70	20	56	29	0	3	66	1.10
58404860--58404981	30	4.2	28	73	12	111	31	0	3	63	1.16
58405026--58405064	18	2.1	19	86	13	55	38	2	0	58	1.12
58404914--58405056	77	1.9	77	81	11	177	32	1	2	62	1.18
58405035--58405088	18	2.9	18	76	12	56	38	0	0	61	0.96
58414305--58414363	31	1.9	30	83	10	75	27	23	0	49	1.51
58415604--58415642	17	2.3	17	86	8	53	48	0	0	51	1.00
58429693--58429864	79	2.2	79	84	3	220	25	21	27	25	1.99
58429640--58429862	40	5.6	39	81	8	209	25	21	27	25	1.99
58429720--58429897	79	2.2	80	80	3	191	25	21	28	24	1.99
58433148--58433190	6	7.0	6	91	2	50	16	25	0	58	1.38
58433148--58433190	12	3.5	12	87	3	59	16	25	0	58	1.38
58433148--58433189	18	2.3	19	87	4	59	16	26	0	57	1.40
58434904--58434995	43	2.1	43	93	0	157	28	28	26	17	1.98
58435884--58436014	47	2.8	47	88	0	181	34	28	14	22	1.94
58437157--58437181	13	1.9	13	100	0	50	40	24	4	32	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58445981--58446021	21	2.0	21	85	9	57	75	9	9	4	1.17
58446048--58446081	15	2.2	16	89	5	52	82	0	17	0	0.67
58446784--58446820	18	2.1	18	94	0	65	51	0	24	24	1.49
58446784--58446820	12	3.1	12	84	0	56	51	0	24	24	1.49
58446784--58446833	18	2.8	19	82	11	61	48	0	24	28	1.52
58460874--58460902	14	2.1	14	100	0	58	27	20	20	31	1.98
58465299--58465369	37	1.9	36	83	8	90	64	4	1	29	1.20
58468252--58468307	21	2.8	21	81	5	71	35	26	0	37	1.57
58470804--58470850	24	2.0	24	95	0	85	23	25	14	36	1.93
58477585--58477617	17	2.0	17	94	5	59	36	15	0	48	1.45

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