genome.fa.s25.2.7.7.80.10.50.1000.145.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: At_chr12
Parameters: 2 7 7 80 10 50 1000
Length:  101062743

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   

This is table  145  of  297  ( 35593 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)
50093725--50093850	39	3.2	39	89	0	198	19	22	26	30	1.98
50093938--50094055	40	3.0	39	83	3	139	17	22	27	32	1.97
50093637--50094038	213	1.9	215	94	3	713	26	15	24	33	1.95
50093937--50094049	39	2.9	39	85	4	138	19	23	24	31	1.98
50097149--50097259	55	2.0	55	98	0	213	27	23	20	28	1.99
50098997--50099025	14	2.0	15	93	6	51	27	0	20	51	1.47
50100168--50100313	41	3.4	43	78	7	154	26	19	27	26	1.99
50101366--50101400	18	1.9	18	88	11	54	22	0	17	60	1.37
50104619--50104710	28	3.4	28	83	10	120	33	15	26	25	1.95
50104734--50104931	51	3.9	51	88	1	290	33	12	24	29	1.92
50108820--50109035	46	4.7	46	83	11	282	28	18	30	21	1.97
50108817--50109035	92	2.4	92	100	0	438	28	19	30	21	1.98
50108810--50109275	138	3.3	137	78	10	439	27	18	28	24	1.98
50112845--50112897	28	1.9	27	92	3	88	15	18	43	22	1.87
50126727--50127260	27	19.7	27	77	6	213	36	21	9	32	1.86
50126820--50126952	28	4.9	27	82	3	140	38	21	8	31	1.83
50126793--50127041	137	1.8	135	81	1	309	34	21	9	34	1.86
50127981--50128028	25	1.9	25	82	0	60	35	20	14	29	1.93
50128064--50128130	20	3.3	20	93	4	109	38	10	19	31	1.85
50128180--50128316	26	5.3	26	89	5	201	28	21	23	27	1.99
50129477--50129510	17	2.0	17	94	0	59	23	32	23	20	1.98
50131918--50132089	93	1.8	93	93	2	301	29	29	19	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50131911--50132086	46	3.8	46	80	14	209	30	29	19	21	1.97
50141469--50141516	17	2.8	17	87	3	60	77	0	4	18	0.93
50141479--50141516	6	6.5	6	93	6	60	81	0	2	15	0.80
50150678--50150882	58	3.6	57	84	5	243	38	8	20	33	1.82
50153889--50153966	3	26.3	3	76	17	74	34	0	2	62	1.09
50153889--50153966	34	2.2	37	86	11	110	34	0	2	62	1.09
50153889--50153966	37	2.1	37	86	9	106	34	0	2	62	1.09
50154304--50154346	21	2.1	20	87	12	61	76	0	23	0	0.78
50154245--50154345	13	7.9	12	71	17	53	72	3	21	1	1.11
50157093--50157343	69	3.6	69	75	3	236	21	23	23	31	1.98
50157231--50157365	69	2.0	69	85	2	182	23	22	22	31	1.98
50163102--50163141	21	1.9	21	85	10	55	30	30	20	20	1.97
50167473--50167662	94	2.0	94	98	0	371	36	10	10	42	1.73
50168575--50168617	22	2.0	22	90	0	68	23	23	11	41	1.87
50169814--50169871	30	1.9	30	86	6	82	20	31	29	18	1.97
50178003--50178035	12	2.8	12	95	0	57	81	0	0	18	0.68
50178000--50178055	17	3.2	17	75	12	60	76	5	0	17	0.96
50188125--50188172	19	2.6	19	86	3	71	35	2	14	47	1.56
50188192--50188276	42	2.2	37	75	18	98	30	4	16	48	1.67
50189597--50189658	10	6.6	10	73	17	53	64	0	3	32	1.09
50189600--50189731	9	14.0	9	68	21	76	60	1	4	33	1.26
50189589--50189667	10	8.2	10	75	14	51	60	0	2	36	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50189927--50189994	20	3.7	19	69	11	61	36	1	0	61	1.05
50189934--50189984	19	2.7	18	75	19	59	35	1	0	62	1.06
50189861--50189993	47	2.8	46	78	8	126	36	2	2	59	1.22
50189911--50189998	9	9.7	9	72	10	72	37	1	0	61	1.04
50190015--50190202	86	2.2	86	84	2	243	30	8	20	39	1.83
50196568--50196593	12	2.2	12	100	0	52	23	23	26	26	2.00
50201301--50201518	40	5.5	40	87	4	284	22	23	28	25	1.99
50204048--50204188	43	3.3	42	77	6	115	26	19	26	26	1.99
50204096--50204198	42	2.4	42	74	16	95	26	21	27	25	1.99
50207445--50207493	24	2.0	24	100	0	98	38	28	4	28	1.75
50216996--50217178	40	4.6	39	91	2	258	25	28	22	23	1.99
50216996--50217219	40	5.6	39	83	8	249	25	28	22	23	1.99
50229923--50230309	194	2.0	194	95	1	704	31	14	16	37	1.89
50236358--50236462	39	2.6	39	86	5	122	24	22	27	24	2.00
50236318--50236481	40	4.1	40	80	12	169	25	23	27	24	2.00
50236318--50236468	79	1.9	80	82	6	191	25	23	27	23	2.00
50247203--50247318	57	2.0	56	95	4	214	51	20	3	24	1.62
50247579--50247642	24	2.7	24	87	0	83	37	4	9	48	1.56
50251371--50251423	24	2.2	24	83	6	63	35	5	13	45	1.67
50252863--50252923	30	2.1	30	81	3	70	37	16	16	29	1.91
50262059--50262101	15	2.8	16	79	10	54	2	27	0	69	1.00
50263929--50263973	6	7.8	6	90	9	67	26	0	2	71	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50264835--50264864	15	1.9	16	93	6	53	16	23	6	53	1.66
50264957--50264987	8	3.9	8	100	0	62	90	0	9	0	0.46
50267571--50267653	25	3.3	25	68	0	85	18	18	27	36	1.94
50267535--50267682	50	3.0	50	90	2	208	18	18	26	35	1.95
50270200--50270275	3	25.3	3	100	0	152	67	0	0	32	0.91
50269428--50271530	877	2.4	877	85	4	2688	38	16	13	31	1.87
50271927--50271973	15	3.3	14	82	11	60	29	19	19	31	1.96
50271955--50272045	41	2.2	42	88	4	130	28	16	21	32	1.95
50272041--50272218	24	7.5	24	71	9	105	35	14	17	32	1.89
50272047--50272218	47	3.7	47	77	9	147	36	13	18	32	1.89
50272200--50272395	58	3.4	58	79	9	195	38	10	17	33	1.85
50272236--50272419	58	3.2	58	86	0	251	38	9	17	34	1.83
50272410--50272444	18	1.9	18	94	0	61	37	11	20	31	1.88
50274955--50274994	22	1.9	21	90	10	64	65	5	0	30	1.14
50275603--50275640	19	2.1	19	85	9	53	36	0	2	60	1.11
50275843--50275884	22	1.9	22	85	0	57	26	2	9	61	1.39
50276563--50276679	53	2.2	53	96	1	218	51	11	5	31	1.61
50281697--50281721	3	8.3	3	100	0	50	36	64	0	0	0.94
50285801--50285853	26	2.0	27	85	7	74	26	11	22	39	1.88
50287329--50287395	26	2.6	26	90	0	107	35	29	2	31	1.73
50288942--50289040	48	2.1	48	90	0	153	27	31	16	25	1.96
50292909--50292961	26	2.0	27	85	7	74	26	11	22	39	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50294450--50294531	26	3.2	26	96	0	155	36	26	6	30	1.81
50301424--50301652	114	2.0	114	99	0	449	30	13	13	41	1.84
50302371--50302410	19	2.0	20	85	4	55	45	5	7	42	1.54
50304390--50304438	24	2.0	24	92	4	80	53	8	14	24	1.68
50305033--50305120	44	2.0	44	97	0	167	34	17	14	34	1.90
50305561--50305653	43	2.2	43	84	5	125	5	21	20	52	1.66
50314390--50314499	45	2.5	44	77	4	105	24	24	12	38	1.90
50316084--50316165	42	1.9	42	87	7	121	50	3	21	24	1.65
50319463--50319536	36	2.1	36	97	0	139	31	17	4	47	1.66
50320811--50320880	12	6.2	12	73	14	60	2	18	2	75	1.05
50320847--50320886	21	1.9	21	85	10	55	5	15	0	80	0.88
50327393--50327546	70	2.2	70	83	6	188	44	16	7	30	1.76
50327440--50327554	35	3.3	36	81	6	137	44	18	6	30	1.76
50334494--50334518	8	3.1	8	100	0	50	52	24	0	24	1.48
50334714--50334867	35	4.4	35	72	12	104	44	20	7	27	1.79
50337844--50337913	33	2.1	33	82	15	83	40	0	5	54	1.24
50337833--50337935	33	3.0	33	74	9	82	45	0	4	48	1.30
50339166--50339192	6	4.5	6	100	0	54	18	18	14	48	1.82
50339172--50339275	45	2.3	45	90	3	156	23	17	17	42	1.89
50342570--50342607	19	2.0	19	100	0	76	36	5	15	42	1.70
50342686--50342798	29	3.9	30	75	4	88	38	21	15	23	1.92
50349868--50349925	28	2.1	28	96	0	107	31	17	8	43	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50352241--50352313	26	2.8	26	77	4	76	28	16	12	42	1.84
50352461--50352510	6	8.3	6	84	0	55	18	22	2	58	1.49
50352461--50352510	12	4.2	12	81	0	64	18	22	2	58	1.49
50352461--50352510	24	2.1	24	88	0	73	18	22	2	58	1.49
50354487--50354550	27	2.4	27	84	5	67	20	28	18	32	1.96
50354502--50354562	27	2.3	27	85	0	77	21	24	18	36	1.95
50354768--50354857	44	2.1	43	82	2	108	23	23	11	42	1.86
50355613--50355657	18	2.5	19	82	10	58	35	0	4	60	1.17
50361906--50361943	17	2.1	18	85	9	51	52	0	7	39	1.31
50362399--50362454	26	2.1	28	83	6	71	30	3	0	66	1.09

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