genome.fa.s7.2.7.7.80.10.50.1000.109.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_chr3
Parameters: 2 7 7 80 10 50 1000
Length:  100348136

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   

This is table  109  of  290  ( 34714 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)
37201787--37201907	13	9.3	13	73	7	84	39	17	2	40	1.63
37204662--37204689	14	2.0	14	100	0	56	42	21	7	28	1.79
37205622--37205741	6	19.3	6	71	21	88	50	14	15	20	1.78
37205631--37205741	31	3.5	31	87	6	152	50	13	16	19	1.78
37205878--37205977	27	3.7	27	81	5	103	37	19	23	21	1.95
37206138--37206203	22	3.0	22	76	8	71	36	22	21	19	1.95
37206654--37207017	27	13.4	27	92	0	566	23	22	21	32	1.98
37206654--37207133	54	8.6	54	86	6	611	24	22	20	32	1.98
37206654--37207133	81	5.8	81	87	5	627	24	22	20	32	1.98
37206977--37207054	37	2.1	37	90	2	122	24	23	19	33	1.97
37207021--37207133	27	4.2	27	91	0	181	27	20	17	34	1.95
37206950--37207081	64	2.1	64	91	1	212	24	23	19	32	1.98
37206923--37207108	91	2.1	91	91	1	302	23	23	20	32	1.98
37206896--37207133	118	2.0	117	90	0	377	24	23	20	32	1.98
37207117--37207410	27	10.9	27	79	6	96	31	9	20	38	1.84
37206869--37207162	145	2.0	145	84	4	389	25	22	20	31	1.98
37207172--37207404	27	8.6	27	84	0	245	30	9	20	40	1.84
37211875--37212289	219	1.9	217	92	2	697	30	14	26	28	1.95
37216243--37216396	42	3.6	42	83	3	184	31	14	24	29	1.95
37231420--37231523	37	2.8	39	76	15	94	41	2	2	52	1.31
37232545--37232577	9	3.7	9	100	0	66	42	0	0	57	0.98
37232960--37233052	45	2.0	46	93	2	161	39	11	13	34	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37240234--37240386	27	5.7	27	79	3	137	24	15	17	42	1.88
37240234--37240386	54	2.8	54	76	5	157	24	15	17	42	1.88
37240234--37240386	81	1.9	81	86	0	216	24	15	17	42	1.88
37240716--37240752	18	2.1	18	89	0	56	16	27	16	40	1.89
37244522--37244552	16	1.9	16	93	0	53	9	9	9	70	1.33
37259505--37259572	16	4.2	16	68	20	52	38	1	1	58	1.16
37259616--37259642	11	2.5	11	100	0	54	37	0	0	62	0.95
37259708--37259768	30	2.0	30	96	0	113	37	11	9	40	1.75
37263479--37263699	40	5.6	40	81	4	243	24	27	22	25	2.00
37266644--37266801	42	3.7	42	75	8	115	31	12	25	31	1.92
37268766--37268830	22	2.8	23	74	17	62	41	0	4	53	1.21
37268783--37268861	22	3.7	22	82	12	85	41	1	3	53	1.27
37268801--37268867	20	3.2	21	80	16	68	46	1	1	50	1.19
37268907--37268953	22	2.2	21	84	3	58	36	2	4	57	1.30
37271197--37271238	22	1.9	22	90	0	66	19	11	35	33	1.88
37276911--37276974	26	2.4	26	80	14	69	21	25	17	35	1.95
37276997--37277122	24	5.2	25	70	15	77	15	23	21	38	1.92
37281927--37281971	5	8.8	5	82	4	54	71	0	28	0	0.87
37293227--37293369	26	5.7	26	73	11	111	20	26	18	34	1.96
37293288--37293366	25	3.2	25	77	7	74	24	27	17	30	1.97
37293372--37293483	25	4.6	24	76	5	82	22	25	17	33	1.96
37293350--37293512	48	3.3	49	77	10	125	22	25	19	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37293418--37293484	25	2.7	25	83	0	89	25	26	16	31	1.96
37298571--37298673	31	3.4	29	78	8	98	41	0	5	51	1.32
37298562--37298676	61	1.9	61	88	0	176	43	0	5	50	1.30
37299940--37299981	17	2.3	19	88	8	61	52	7	4	35	1.50
37301699--37301795	32	2.8	33	74	14	81	38	2	2	57	1.22
37301708--37301791	40	2.1	40	82	4	98	38	2	1	58	1.19
37305320--37305544	40	5.6	40	83	2	281	25	23	27	24	2.00
37305320--37305580	80	3.3	80	81	3	294	25	23	26	24	2.00
37305320--37305544	120	1.9	121	85	4	312	25	23	27	24	2.00
37310701--37310742	21	2.0	21	86	9	59	0	7	33	59	1.25
37314647--37314760	35	3.0	40	66	23	100	25	19	21	34	1.96
37314646--37314854	75	2.8	75	89	1	312	27	20	19	32	1.97
37316824--37316853	12	2.5	12	100	0	60	70	6	13	10	1.34
37322010--37322034	11	2.3	11	100	0	50	84	0	0	16	0.63
37323208--37323277	3	23.7	3	72	13	56	38	0	4	57	1.19
37323374--37323426	27	2.0	27	81	7	63	47	0	3	49	1.19
37323814--37323844	12	2.6	12	94	0	53	74	0	25	0	0.82
37348538--37348602	31	2.1	31	82	0	76	41	9	10	38	1.72
37349500--37349535	7	5.1	7	90	10	56	61	0	0	38	0.96
37349500--37349535	13	2.6	13	91	8	54	61	0	0	38	0.96
37352044--37352107	22	2.7	23	77	18	69	51	6	9	32	1.59
37353153--37353199	24	2.0	24	83	8	60	12	23	4	59	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37355994--37356627	70	9.1	70	83	3	675	28	17	22	31	1.96
37355994--37356601	210	2.9	209	85	1	763	28	17	23	31	1.97
37361735--37361794	23	2.7	22	72	20	54	35	0	1	63	1.05
37361725--37361790	31	2.1	31	86	5	89	36	0	3	60	1.12
37364826--37364878	28	1.9	28	92	3	90	60	1	11	26	1.41
37367612--37367667	19	3.1	18	80	10	60	58	5	0	35	1.21
37369566--37369609	22	2.0	22	86	0	61	47	0	0	52	1.00
37370960--37371018	30	2.0	30	89	0	91	23	18	30	27	1.98
37382680--37382923	50	4.8	50	81	2	254	25	15	25	33	1.95
37382731--37382931	101	2.0	101	88	0	294	25	16	25	31	1.97
37384092--37384186	45	2.1	45	94	0	163	21	11	26	41	1.87
37385791--37385846	29	1.9	29	96	0	103	35	8	16	39	1.80
37387773--37387809	13	2.8	13	83	0	56	62	8	13	16	1.54
37394781--37394828	26	1.9	25	84	16	64	37	22	8	31	1.84
37406922--37407097	54	3.3	54	81	6	173	25	27	28	18	1.98
37413225--37413272	24	2.0	24	83	0	60	18	45	14	20	1.85
37415528--37415587	30	2.0	30	100	0	120	36	13	13	36	1.84
37417026--37417054	15	1.9	15	100	0	58	58	0	0	41	0.98
37417133--37417209	36	2.1	36	95	0	145	45	7	0	46	1.32
37423867--37424137	46	5.7	45	74	10	170	23	30	20	25	1.99
37428097--37428142	23	2.0	23	100	0	92	34	13	13	39	1.83
37430753--37430785	17	1.9	17	93	0	57	57	9	12	21	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37435777--37435984	27	7.7	27	76	4	168	41	21	7	30	1.80
37435817--37436042	54	4.1	55	75	7	194	41	19	7	31	1.79
37435831--37436039	81	2.5	84	76	6	214	43	18	6	31	1.76
37435817--37436040	27	8.2	27	76	9	159	41	19	6	31	1.77
37435817--37436069	110	2.3	108	84	1	299	40	20	7	31	1.81
37436087--37436149	27	2.3	27	76	15	67	38	23	15	22	1.93
37436793--37436880	43	2.0	43	97	0	167	13	14	32	38	1.86
37436955--37436985	16	1.9	16	93	0	53	29	19	16	35	1.93
37437023--37437089	26	2.5	27	90	2	100	26	25	22	25	2.00
37437023--37437092	27	2.7	26	90	2	104	25	24	22	27	2.00
37437237--37437327	41	2.2	42	92	4	157	29	10	21	37	1.88
37437351--37437429	31	2.5	31	93	0	131	31	18	22	26	1.97
37441037--37441098	31	2.0	31	96	0	115	43	20	9	25	1.83
37443135--37443754	48	12.9	48	78	3	613	25	27	19	27	1.99
37443135--37443751	96	6.4	96	94	0	1024	25	27	19	27	1.99
37450032--37450350	48	6.6	48	81	3	363	25	27	18	28	1.98
37450032--37450353	96	3.3	96	93	1	520	24	27	18	28	1.98
37457437--37457467	7	4.4	7	91	0	53	29	0	51	19	1.47
37473159--37473199	12	3.6	12	77	12	50	46	9	0	43	1.36
37476172--37476325	38	4.0	38	82	4	139	34	27	17	20	1.95
37476217--37476331	41	2.9	40	83	6	135	35	27	16	20	1.94
37476277--37476380	55	1.9	55	89	0	163	36	28	15	19	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37479745--37479840	27	3.6	27	85	2	122	19	23	22	33	1.97
37491551--37491628	39	2.0	38	92	2	129	29	0	29	39	1.57
37491880--37491971	27	3.4	27	81	3	87	18	22	34	23	1.96
37495014--37495161	72	2.0	76	85	7	205	56	4	8	30	1.49
37495374--37495448	33	2.3	34	76	6	82	25	9	48	17	1.77
37497710--37497832	31	4.0	31	89	1	194	29	26	15	29	1.96
37497856--37497947	42	2.2	42	94	0	157	33	19	14	32	1.92
37498095--37498164	25	2.8	25	89	4	97	25	24	25	24	2.00
37499091--37499286	27	7.2	27	78	12	111	32	11	18	37	1.86
37499089--37499252	56	3.0	54	78	8	163	32	9	18	39	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