genome.fa.s8.2.7.7.80.10.50.1000.153.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_chr9
Parameters: 2 7 7 80 10 50 1000
Length:  91122320

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   

This is table  153  of  279  ( 33431 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)
49919699--49919736	15	2.5	15	91	0	58	26	2	2	68	1.16
49919759--49919790	17	1.9	17	93	6	57	37	3	0	59	1.13
49941832--49941860	3	9.7	3	100	0	58	68	0	0	31	0.89
49957745--49957879	53	2.6	53	91	3	211	27	17	26	28	1.97
49957745--49957910	53	3.1	54	85	9	182	25	15	28	30	1.96
49965263--49965428	53	3.1	53	88	6	221	25	15	28	30	1.96
49982068--49982096	14	2.1	14	100	0	58	58	6	20	13	1.58
49982517--49982543	2	13.5	2	100	0	54	51	48	0	0	1.00
49994503--49994595	36	2.6	36	82	0	105	17	20	48	13	1.81
49994690--49994755	27	2.6	24	75	13	69	27	1	57	13	1.45
50010969--50011002	17	1.9	17	88	5	50	82	0	17	0	0.67
50016042--50016115	23	3.2	23	74	0	67	44	36	5	13	1.67
50017181--50017296	61	1.9	61	92	0	196	48	15	14	21	1.81
50019435--50019512	33	2.4	32	83	10	95	24	25	17	32	1.97
50019384--50019647	103	2.6	97	80	8	249	26	24	17	31	1.97
50019538--50019613	33	2.3	33	78	17	86	26	23	17	32	1.96
50031023--50031091	22	2.9	22	79	16	59	36	2	1	59	1.21
50043110--50044045	78	12.0	78	100	0	1872	26	23	16	33	1.96
50049182--50049291	58	1.9	58	96	0	202	22	17	13	46	1.83
50054845--50055190	173	2.0	173	94	0	611	30	20	17	31	1.96
50058218--50058262	21	2.1	21	87	0	63	40	22	22	15	1.91
50066024--50066509	45	10.8	45	64	12	174	30	20	22	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50066015--50066664	135	4.8	135	92	1	1011	30	21	21	26	1.98
50069252--50069616	46	7.8	49	77	16	382	28	29	20	21	1.98
50069259--50069616	93	3.8	93	98	0	680	28	29	20	22	1.98
50069303--50069625	47	7.0	45	72	19	256	29	29	19	22	1.98
50071279--50071428	67	2.2	67	81	8	171	32	17	28	21	1.96
50071303--50071486	67	2.8	64	77	8	194	29	17	29	22	1.97
50074811--50074854	18	2.5	17	82	7	52	27	4	4	63	1.33
50075111--50075235	63	2.0	63	98	0	241	35	20	13	31	1.91
50077063--50077247	79	2.3	81	80	8	209	24	27	22	24	2.00
50077044--50077247	40	5.1	40	81	8	220	24	27	22	25	2.00
50093253--50093295	18	2.3	18	80	4	50	58	6	0	34	1.25
50094587--50094673	21	4.0	23	80	10	92	37	25	21	14	1.92
50110653--50110687	18	1.9	18	100	0	70	45	8	5	40	1.58
50110655--50110691	18	2.1	18	90	5	58	48	8	2	40	1.47
50114596--50114629	17	2.0	17	88	0	50	23	11	14	50	1.76
50115336--50115360	11	2.3	11	100	0	50	92	0	8	0	0.40
50116898--50116936	19	2.1	19	85	4	53	43	15	2	38	1.60
50117602--50117654	22	2.4	22	87	6	72	41	16	18	22	1.90
50132458--50132498	21	2.0	21	100	0	82	34	0	0	65	0.93
50133644--50133700	15	3.9	15	88	2	89	35	0	12	52	1.39
50134072--50134139	23	3.0	23	72	8	77	19	17	23	39	1.92
50137408--50137440	16	2.1	16	94	0	57	75	0	3	21	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50137464--50137510	11	4.5	10	81	7	58	74	0	4	21	0.99
50137464--50137510	21	2.2	21	85	7	60	74	0	4	21	0.99
50137836--50137885	26	1.9	26	83	0	64	30	2	0	68	1.01
50138897--50138932	18	2.1	17	89	5	54	47	0	0	52	1.00
50139136--50139179	11	3.5	13	76	17	56	65	0	0	34	0.93
50148450--50148491	15	2.8	15	85	0	57	26	19	4	50	1.67
50150830--50150867	18	2.1	18	100	0	76	36	0	10	52	1.36
50167845--50167905	14	4.8	12	75	15	52	34	3	1	60	1.23
50167845--50167905	26	2.3	26	76	15	63	34	3	1	60	1.23
50174630--50174738	38	2.8	40	75	8	107	30	25	20	23	1.98
50176139--50176276	39	3.5	39	76	7	120	28	26	20	24	1.99
50177845--50177907	5	12.6	5	100	0	126	60	0	0	39	0.97
50183993--50184086	39	2.4	39	82	5	111	25	28	22	23	1.99
50189805--50189844	21	2.0	21	90	5	64	52	0	0	47	1.00
50203128--50203174	21	2.2	22	84	3	60	48	2	10	38	1.50
50206306--50206357	21	2.3	23	72	21	56	50	1	3	44	1.31
50229229--50229265	14	2.6	14	86	4	56	35	0	0	64	0.94
50229664--50229707	22	2.0	22	82	13	54	36	9	0	54	1.32
50230353--50230390	20	1.9	20	84	10	51	39	0	2	57	1.12
50235748--50235830	42	2.0	42	92	4	141	39	15	28	15	1.88
50241372--50241523	52	2.9	52	81	2	153	25	17	28	29	1.97
50245264--50245314	18	2.8	18	84	0	66	43	9	7	39	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50246580--50246609	13	2.3	13	94	0	51	0	26	0	73	0.84
50246806--50246838	16	2.1	16	88	5	50	48	3	0	48	1.17
50246964--50247044	27	2.7	30	74	18	80	61	3	0	34	1.14
50250853--50250979	42	3.0	42	81	6	143	29	25	14	30	1.95
50250936--50251063	47	2.7	48	80	9	156	30	25	14	29	1.95
50251086--50251265	31	5.8	31	90	2	263	26	26	19	27	1.99
50258726--50258804	25	3.2	24	82	13	74	24	22	24	29	1.99
50260158--50260242	31	2.8	31	82	3	93	37	10	7	44	1.66
50275090--50275114	11	2.3	11	100	0	50	84	0	0	16	0.63
50282428--50282460	12	2.6	13	85	9	50	0	57	0	42	0.98
50285127--50285182	14	4.0	14	80	13	53	39	17	7	35	1.78
50285127--50285182	28	2.0	28	82	6	69	39	17	7	35	1.78
50285220--50285245	13	2.0	13	100	0	52	23	23	46	7	1.78
50285234--50286537	422	3.1	415	75	8	1168	43	12	18	25	1.85
50292955--50293009	13	4.0	13	75	13	56	25	20	32	21	1.97
50293397--50293450	26	2.1	26	85	0	72	31	25	22	20	1.98
50296860--50296896	9	4.1	9	92	0	65	45	13	10	29	1.77
50297421--50297497	37	2.1	37	97	0	145	28	2	7	61	1.37
50297439--50297501	18	3.4	18	72	20	67	30	3	11	55	1.50
50297421--50297511	37	2.5	37	91	5	134	30	2	7	59	1.38
50297955--50297985	5	6.2	5	96	0	53	16	19	19	45	1.86
50301582--50301846	75	3.5	75	81	3	284	22	22	20	34	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50302765--50302790	9	2.9	9	100	0	52	42	11	0	46	1.40
50303585--50303618	16	2.1	16	89	10	52	32	0	0	67	0.91
50305516--50305613	31	3.2	31	70	13	85	45	7	1	45	1.37
50310964--50311067	41	2.5	41	93	0	172	23	29	21	25	1.99
50310962--50311097	41	3.3	40	80	11	134	26	27	18	27	1.98
50317674--50317717	17	2.7	17	89	6	65	72	2	0	25	0.96
50318340--50318388	20	2.5	20	89	0	71	34	0	6	59	1.22
50324829--50324994	84	2.0	83	95	1	296	35	25	18	21	1.95
50325010--50325177	91	1.9	89	87	7	250	21	26	9	42	1.83
50325102--50325254	76	2.0	78	87	7	224	21	28	10	39	1.86
50331943--50331974	2	16.0	2	100	0	64	50	0	50	0	1.00
50338564--50338633	26	2.7	26	84	2	77	45	11	20	22	1.82
50343712--50343768	27	2.2	26	83	3	69	42	7	21	29	1.79
50343720--50343771	27	2.0	27	88	3	79	42	9	21	26	1.83
50347248--50347277	3	10.0	3	100	0	60	66	0	0	33	0.92
50347742--50347798	27	2.1	28	86	3	80	45	8	5	40	1.58
50348266--50348308	18	2.4	18	88	0	59	69	6	13	9	1.35
50348314--50348480	3	55.7	3	100	0	334	66	0	0	33	0.92
50357131--50357292	80	2.0	81	92	1	272	32	9	14	44	1.76
50360115--50360170	27	2.1	27	100	0	112	25	14	10	50	1.75
50363234--50363269	18	2.0	18	94	0	63	25	52	0	22	1.47
50374028--50374152	43	2.9	42	77	9	126	21	20	28	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50380206--50381182	489	2.0	489	98	0	1900	35	14	22	27	1.93
50385951--50385989	20	1.9	19	85	10	51	64	17	0	17	1.30
50386502--50386552	22	2.5	20	84	9	66	31	23	3	41	1.73
50386504--50386546	22	2.0	21	90	4	68	25	25	4	44	1.73
50386737--50386843	37	2.7	40	76	15	123	37	22	15	24	1.93
50387704--50387759	20	2.7	21	76	15	62	0	30	0	69	0.89
50387693--50387761	32	2.2	32	85	12	90	0	31	0	68	0.90
50387724--50387762	12	3.2	12	92	0	60	0	33	0	66	0.92
50387694--50387762	24	3.0	24	74	19	67	0	30	0	69	0.89
50389902--50389970	27	2.7	25	80	8	84	33	23	27	15	1.95

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