genome.fa.s25.2.7.7.80.10.50.1000.173.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  173  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)
58283339--58283440	44	2.3	43	81	8	109	24	19	26	29	1.98
58283339--58283502	43	3.8	43	73	11	147	23	18	28	29	1.98
58292570--58292649	29	2.8	29	84	3	90	42	16	15	26	1.87
58293802--58293863	20	3.3	19	69	17	58	35	24	8	32	1.85
58293795--58293875	36	2.2	36	95	0	144	33	24	6	35	1.81
58294018--58294276	140	1.8	140	82	4	333	22	28	18	30	1.98
58295770--58295831	20	3.3	19	69	17	58	35	24	8	32	1.85
58295763--58295843	36	2.2	36	95	0	144	33	24	6	35	1.81
58295986--58296244	140	1.8	140	82	4	333	22	28	18	30	1.98
58302413--58302616	27	7.6	27	83	1	203	29	13	17	39	1.88
58302937--58302994	30	1.9	30	89	0	89	22	24	10	43	1.84
58302960--58303000	18	2.3	18	100	0	82	21	21	9	46	1.80
58305950--58306002	21	2.5	21	100	0	106	20	30	18	30	1.97
58312204--58312264	30	2.0	30	83	0	77	31	22	8	37	1.84
58317717--58318415	140	5.1	137	83	7	699	45	5	8	41	1.57
58318006--58318221	71	3.1	71	64	22	182	43	4	9	42	1.57
58335948--58336197	124	2.0	124	87	1	358	44	5	7	42	1.55
58336072--58336514	140	3.2	138	90	0	661	45	4	7	41	1.54
58344269--58344443	46	3.8	46	96	0	314	29	29	21	20	1.98
58352418--58352464	6	7.5	6	90	9	76	80	2	0	17	0.80
58352418--58352458	20	2.0	20	90	0	64	80	2	0	17	0.82
58352484--58352532	9	5.6	9	87	4	73	28	10	16	44	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58352483--58352532	26	1.9	26	95	0	91	30	10	16	44	1.80
58352493--58352525	17	1.9	17	100	0	66	27	12	18	42	1.85
58385644--58385747	50	2.1	50	96	1	192	37	25	3	32	1.74
58391795--58391900	29	3.7	29	93	0	167	28	30	18	22	1.98
58396313--58396427	29	4.0	29	82	2	135	28	28	15	26	1.96
58396304--58396414	58	1.9	57	85	1	150	27	29	16	26	1.97
58398878--58399051	47	3.7	46	74	11	140	26	26	18	28	1.98
58398877--58399050	94	1.9	94	86	4	253	26	26	18	28	1.98
58415980--58416156	47	3.8	48	81	10	222	23	30	19	26	1.98
58415981--58416200	94	2.3	92	83	8	248	24	29	19	27	1.98
58415980--58416202	47	4.7	47	76	13	178	23	29	19	27	1.98
58419735--58419762	14	2.0	14	100	0	56	50	7	7	35	1.57
58422347--58422386	4	10.0	4	100	0	80	25	0	0	75	0.81
58423501--58423546	22	2.1	21	84	4	56	54	4	0	41	1.20
58425885--58425946	25	2.5	25	86	0	88	19	22	22	35	1.96
58427193--58427239	17	2.8	17	90	0	76	36	21	19	23	1.95
58427436--58427549	44	2.6	44	88	0	156	30	23	21	23	1.99
58428524--58428580	30	1.9	30	89	7	89	40	7	22	29	1.80
58435900--58435967	20	3.4	20	89	0	109	13	30	35	20	1.91
58440068--58440102	10	3.4	10	84	7	52	54	0	0	45	0.99
58440293--58440330	16	2.3	17	95	4	69	26	5	13	55	1.59
58440479--58440520	20	2.1	20	86	0	57	40	7	0	52	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58441175--58441227	4	13.2	4	91	0	88	50	22	1	24	1.59
58441661--58441699	2	19.5	2	100	0	78	51	0	48	0	1.00
58469480--58469664	79	2.3	81	84	7	236	24	22	27	25	2.00
58469481--58469664	40	4.6	40	83	9	216	24	22	27	25	2.00
58469533--58469697	79	2.1	79	84	6	210	26	21	27	25	1.99
58474232--58474490	40	6.5	39	89	4	351	25	28	22	23	2.00
58480818--58481081	40	6.7	40	89	5	360	25	27	21	25	1.99
58488833--58489094	39	6.7	40	88	7	337	24	27	22	25	2.00
58490378--58490402	11	2.3	11	100	0	50	28	40	8	24	1.83
58494424--58494466	11	3.6	11	77	17	50	32	23	0	44	1.54
58494417--58494469	25	2.1	25	100	0	106	33	18	0	47	1.49
58506993--58507301	46	6.7	46	90	1	449	37	15	24	21	1.93
58511519--58511610	46	2.0	46	97	0	175	33	30	5	30	1.80
58514601--58514756	43	3.6	43	72	9	131	30	24	17	26	1.97
58518214--58518260	24	2.0	24	87	8	69	55	17	0	27	1.42
58524443--58524508	28	2.4	28	82	5	80	28	22	22	25	1.99
58524664--58524723	27	2.3	27	79	2	68	41	20	20	18	1.90
58529957--58530000	18	2.3	19	81	18	56	15	27	40	15	1.88
58530240--58530314	27	2.8	27	78	8	80	38	17	17	26	1.92
58530441--58530492	27	2.0	26	84	3	68	23	23	17	36	1.95
58530655--58530752	28	3.3	28	77	9	79	27	23	22	26	1.99
58538938--58539114	40	4.4	40	97	2	322	23	23	29	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58542707--58542744	19	2.0	19	85	10	51	21	23	36	18	1.95
58542980--58543043	27	2.4	27	84	7	78	37	17	18	26	1.93
58543386--58543485	33	3.2	30	75	18	89	26	23	23	28	1.99
58543407--58543485	33	2.6	28	80	17	104	25	25	25	24	2.00
58545444--58545560	42	2.7	41	83	9	119	24	15	24	35	1.94
58545418--58545576	43	3.7	42	79	5	158	23	16	27	33	1.96
58548041--58548133	25	3.8	25	80	9	93	33	21	15	30	1.94
58555307--58555505	51	3.9	51	89	1	301	28	27	14	29	1.95
58555529--58555646	52	2.3	52	92	0	200	27	22	14	36	1.92
58555529--58555644	24	4.4	27	81	15	145	26	22	14	36	1.93
58559270--58559318	24	1.9	26	88	12	75	48	10	4	36	1.56
58561697--58561779	25	3.3	25	75	0	103	27	21	21	28	1.99
58561697--58561811	50	2.3	50	84	0	158	26	20	23	29	1.98
58563627--58563670	22	2.0	22	100	0	88	45	13	13	27	1.81
58571536--58571587	24	2.2	24	96	0	95	21	5	32	40	1.77
58574623--58574654	15	2.0	17	88	11	50	25	0	31	43	1.55
58576394--58576424	15	2.1	15	93	0	53	35	9	25	29	1.88
58588366--58588405	20	2.0	20	100	0	80	20	10	20	50	1.76
58604215--58604259	19	2.4	19	100	0	90	26	26	20	26	1.99
58605075--58605119	2	22.5	2	86	0	63	57	42	0	0	0.98
58606678--58606935	114	2.3	114	83	3	317	38	10	30	20	1.86
58617143--58617240	40	2.4	40	82	5	115	30	25	18	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58621544--58621582	10	3.9	10	83	9	53	0	17	0	82	0.68
58623077--58623121	24	1.9	23	86	4	63	20	24	24	31	1.98
58628856--58628925	5	12.8	5	74	16	52	7	18	0	74	1.04
58628856--58628926	17	3.9	17	83	16	97	7	18	0	74	1.03
58628858--58628950	40	2.3	40	96	1	170	8	19	0	72	1.10
58628883--58628946	18	3.3	18	75	12	65	10	18	0	70	1.16
58628883--58628947	19	3.3	19	73	14	69	10	18	0	70	1.15
58630472--58630497	13	2.0	13	100	0	52	30	38	23	7	1.83
58631816--58631905	29	3.1	29	87	1	119	32	27	11	28	1.91
58640199--58640281	43	1.9	43	82	0	103	20	19	32	27	1.97
58642035--58642075	21	2.0	21	85	0	55	36	9	0	53	1.34
58642701--58642877	48	3.7	47	91	5	277	22	31	18	27	1.97
58642701--58642877	94	1.9	95	91	3	295	22	31	18	27	1.97
58642901--58643014	46	2.5	46	84	8	137	23	30	17	28	1.97
58645837--58645913	36	2.1	37	97	2	147	16	22	32	28	1.96
58660864--58660912	3	16.3	3	95	0	89	2	0	63	34	1.06
58675474--58675747	28	9.8	28	76	3	214	24	24	12	38	1.89
58689951--58690366	213	2.0	213	94	0	733	36	17	7	37	1.79
58692256--58692671	213	2.0	213	93	0	715	35	18	8	37	1.81
58701548--58701573	13	2.0	13	100	0	52	7	7	61	23	1.49
58702619--58702736	25	4.6	25	77	5	119	36	27	13	22	1.92
58708573--58708803	28	8.3	28	77	8	148	27	25	12	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58708614--58708969	28	12.6	28	78	5	333	26	26	12	34	1.92
58708970--58709033	28	2.3	28	91	0	101	18	29	14	37	1.90
58714261--58714289	10	2.9	10	100	0	58	51	6	0	41	1.28
58726512--58726553	20	2.0	21	90	4	68	50	0	19	30	1.48
58727041--58727149	32	3.3	32	80	8	121	32	11	25	31	1.90
58727054--58727151	33	3.0	33	78	12	112	32	11	25	30	1.91
58737889--58737929	21	2.0	21	85	0	55	36	21	21	19	1.95
58738766--58738869	38	2.8	37	75	15	97	37	27	18	16	1.92
58738853--58738962	39	2.8	39	90	0	166	30	26	21	20	1.98
58738846--58738985	39	3.6	39	83	2	131	30	26	23	19	1.98

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