genome.fa.s12.2.7.7.80.10.50.1000.169.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_chr13
Parameters: 2 7 7 80 10 50 1000
Length:  91551117

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   

This is table  169  of  276  ( 33102 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)
55380019--55380331	89	3.5	88	74	6	263	29	19	16	34	1.94
55380012--55380327	134	2.4	134	87	1	481	28	18	16	35	1.93
55380517--55380653	47	3.1	43	76	10	116	27	18	17	35	1.94
55388447--55388518	21	3.7	20	74	12	51	36	22	25	16	1.94
55407181--55407218	19	2.0	19	85	10	51	60	0	15	23	1.35
55407475--55407503	13	2.1	14	93	6	51	75	0	3	20	0.94
55407451--55407514	30	2.0	33	82	8	80	70	3	4	21	1.20
55407583--55407612	14	2.1	14	93	0	51	73	3	0	23	0.98
55410273--55410332	31	1.9	31	89	0	93	28	3	8	60	1.42
55410500--55410540	19	2.2	18	91	4	64	14	0	9	75	1.04
55419780--55419807	8	3.5	8	100	0	56	14	0	21	64	1.29
55425393--55425447	28	2.0	28	85	7	76	40	0	14	45	1.45
55425621--55425676	23	2.4	24	81	3	69	25	21	19	33	1.97
55425857--55425947	20	4.6	20	79	2	85	35	10	17	36	1.85
55425851--55425957	40	2.7	38	78	9	115	35	10	15	38	1.82
55428300--55428341	13	2.9	14	80	13	50	54	0	0	45	0.99
55428304--55428340	16	2.3	16	86	13	58	59	0	0	40	0.97
55428373--55428429	15	3.5	15	71	17	51	49	1	1	47	1.22
55428886--55428924	14	2.8	13	92	7	60	33	20	7	38	1.81
55432796--55432849	2	27.0	2	88	0	72	50	44	1	3	1.30
55437009--55437038	10	3.1	10	90	9	53	20	40	6	33	1.78
55442122--55442147	13	2.0	13	100	0	52	7	15	46	30	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55446189--55446354	36	4.6	36	87	2	226	41	31	11	15	1.83
55448678--55448718	17	2.4	18	88	8	59	46	14	0	39	1.45
55448882--55448932	19	2.7	19	84	0	57	15	31	35	17	1.92
55449851--55449941	37	2.5	37	78	7	103	29	16	13	40	1.86
55449990--55450040	13	3.7	14	79	12	61	58	3	9	27	1.47
55450021--55450089	34	2.0	34	94	0	120	52	7	13	27	1.66
55450029--55450092	18	3.7	18	70	17	64	53	6	12	28	1.62
55452026--55452063	19	2.0	19	89	0	58	78	7	5	7	1.07
55456488--55456524	18	2.1	18	89	0	56	21	24	0	54	1.45
55464964--55465124	43	3.7	43	94	0	277	22	20	29	27	1.99
55465276--55465312	18	2.1	18	94	0	65	0	51	18	29	1.47
55465276--55465321	15	2.8	16	87	12	58	0	52	17	30	1.45
55465730--55465758	14	2.1	14	93	6	51	58	6	0	34	1.25
55467208--55467540	114	2.9	114	84	5	406	34	23	14	27	1.94
55468412--55468444	16	2.0	17	94	5	59	12	0	42	45	1.41
55468412--55468491	16	5.2	16	70	19	55	13	0	36	50	1.42
55468498--55468636	41	3.4	41	83	4	172	20	22	20	35	1.96
55468599--55468689	41	2.2	41	82	5	103	21	21	21	34	1.97
55468499--55468677	82	2.2	82	80	2	198	20	20	21	37	1.95
55468622--55468740	41	2.9	41	80	6	116	21	18	18	41	1.91
55469701--55469742	19	2.2	19	91	0	66	40	2	7	50	1.43
55472149--55472200	26	2.0	26	96	0	95	30	5	3	59	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55472623--55472665	19	2.2	20	87	4	61	72	0	0	27	0.85
55476924--55476996	36	2.0	36	97	0	137	27	15	19	38	1.91
55477580--55477631	20	2.8	18	78	21	63	51	3	1	42	1.31
55488320--55488563	121	2.0	121	95	0	434	34	17	10	37	1.85
55489960--55490007	20	2.4	20	92	0	78	20	12	54	12	1.70
55496971--55497205	117	2.0	118	85	0	319	44	15	14	25	1.85
55497259--55497312	27	2.0	27	92	0	90	37	3	12	46	1.60
55499290--55499575	141	2.0	141	98	0	554	41	13	21	22	1.89
55514824--55514863	20	2.0	21	85	5	55	35	22	20	22	1.96
55515420--55515444	10	2.5	10	100	0	50	28	0	8	64	1.22
55526567--55526626	30	2.0	30	96	0	111	36	31	13	18	1.89
55529048--55529215	7	24.0	7	77	4	110	29	24	2	43	1.67
55529049--55529215	14	11.9	14	77	5	122	29	23	2	43	1.67
55529056--55529201	21	7.0	21	75	6	143	28	24	2	44	1.65
55530868--55531032	42	3.9	42	77	6	156	30	15	24	29	1.95
55533383--55533449	33	2.0	33	94	0	116	28	10	38	22	1.87
55534186--55534258	25	2.9	25	80	9	78	24	19	6	49	1.72
55540650--55540695	19	2.4	19	96	0	83	30	19	13	36	1.90
55541882--55541931	10	5.0	10	81	13	59	68	2	8	22	1.26
55542615--55542802	97	1.9	97	88	4	281	31	24	13	30	1.94
55543513--55543577	10	6.8	9	86	13	78	76	0	3	20	0.91
55543513--55543578	29	2.3	30	82	12	93	77	0	3	19	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55543513--55543578	5	13.6	5	76	23	70	77	0	3	19	0.90
55543513--55543577	19	3.4	18	86	14	78	76	0	3	20	0.91
55547187--55547239	11	4.9	11	79	4	54	33	0	1	64	1.05
55547629--55547711	21	3.6	21	67	22	58	55	0	28	15	1.41
55547627--55547726	50	2.0	50	100	0	200	54	0	28	18	1.44
55552106--55552139	10	3.4	10	91	0	50	67	0	5	26	1.13
55555614--55555675	31	2.0	31	90	0	97	38	12	8	40	1.73
55556732--55556780	24	2.0	25	88	4	73	55	20	16	8	1.66
55556766--55556854	41	2.2	40	82	8	108	42	16	14	25	1.87
55556830--55556886	24	2.4	23	74	8	60	33	19	7	40	1.78
55557820--55557967	73	2.0	73	94	0	260	27	16	18	37	1.92
55560781--55560846	34	1.9	35	84	9	91	39	1	3	56	1.24
55560983--55561083	42	2.3	43	83	5	123	29	17	24	27	1.98
55561628--55561871	41	6.0	41	86	1	276	33	20	22	23	1.97
55561650--55561871	123	1.8	122	85	2	311	34	20	22	22	1.97
55561930--55561975	16	2.9	16	78	18	51	50	32	0	17	1.47
55562186--55562240	28	2.0	28	85	0	74	16	0	41	41	1.48
55562175--55562253	7	11.1	7	74	12	54	17	0	40	41	1.50
55562182--55562253	14	5.1	14	76	8	65	16	0	41	41	1.48
55562255--55562306	20	2.5	21	84	6	70	26	0	28	44	1.55
55562182--55562297	14	8.2	14	68	13	51	19	0	36	43	1.58
55563152--55563286	60	2.2	59	79	16	143	26	27	20	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55565313--55565380	21	3.2	22	81	10	79	19	1	36	42	1.60
55565689--55565732	19	2.2	20	88	4	63	68	4	4	22	1.27
55570817--55570872	22	2.6	20	81	15	67	57	1	3	37	1.27
55570845--55570967	61	2.0	61	96	0	228	43	4	13	39	1.62
55570944--55571108	43	3.8	43	83	3	188	29	12	27	30	1.93
55570944--55571108	86	1.9	86	83	0	213	29	12	27	30	1.93
55577039--55577119	26	3.2	26	81	13	89	33	6	16	44	1.72
55579931--55580357	213	2.0	213	99	0	836	26	26	9	37	1.87
55594499--55594533	12	2.9	12	82	0	52	65	2	2	28	1.21
55595719--55595752	15	2.2	16	94	5	61	14	0	11	73	1.10
55595949--55596206	44	5.8	44	75	9	195	29	23	17	29	1.97
55608555--55608597	14	3.0	14	75	3	50	67	4	4	23	1.28
55608618--55608654	3	12.3	3	88	0	56	64	2	2	29	1.21
55610071--55610103	16	2.1	16	94	5	59	15	0	12	72	1.12
55613603--55613635	16	1.9	18	88	11	52	60	0	9	30	1.27
55614817--55614858	15	2.9	14	89	3	66	23	0	30	45	1.53
55614814--55614864	22	2.3	22	82	0	66	27	0	29	43	1.55
55614815--55614864	15	3.4	15	75	5	57	28	0	30	42	1.56
55614827--55614872	22	2.1	22	84	4	58	26	0	30	43	1.55
55614861--55614959	22	4.6	21	74	9	74	21	1	36	41	1.60
55618113--55618198	27	3.2	26	88	6	111	18	24	20	36	1.95
55631704--55631771	34	2.0	34	91	0	109	30	8	16	44	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55636699--55636775	13	5.9	13	79	0	82	35	23	7	33	1.84
55636705--55636773	26	2.7	26	83	0	93	37	23	8	30	1.85
55639368--55639410	21	2.0	21	95	0	77	32	16	9	41	1.80
55641861--55641913	23	2.4	22	76	20	56	9	18	1	69	1.25
55647282--55647326	18	2.5	17	82	13	54	0	26	0	73	0.84
55651093--55651124	14	2.4	14	90	10	50	90	0	9	0	0.45
55651087--55651122	18	2.0	18	89	10	56	88	2	8	0	0.59
55652646--55652703	29	2.0	29	100	0	116	37	17	10	34	1.84
55656268--55656411	72	2.0	72	100	0	288	37	23	11	27	1.89
55657366--55657442	24	3.2	25	71	17	63	18	5	6	70	1.28

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