genome.fa.s2.2.7.7.80.10.50.1000.290.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_chr1
Parameters: 2 7 7 80 10 50 1000
Length:  106989029

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   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   319   320   
          321   322   

This is table  290  of  322  ( 38559 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)
96394869--96395223	104	3.4	104	99	0	703	32	16	23	27	1.96
96399982--96400204	48	4.7	47	75	10	168	23	26	21	28	1.99
96400031--96400204	94	1.8	94	84	6	235	23	27	20	28	1.99
96403295--96403440	70	2.1	70	97	1	276	26	13	24	35	1.93
96418305--96418417	59	1.9	59	92	0	190	25	7	38	28	1.84
96440729--96440860	47	2.8	48	89	1	194	23	15	26	34	1.95
96442238--96442283	21	2.1	21	84	11	58	34	2	23	39	1.67
96446540--96446591	27	1.9	27	88	0	77	25	21	19	34	1.96
96449191--96449347	37	4.3	37	82	4	174	29	14	13	42	1.84
96451045--96451187	57	2.5	57	82	4	164	29	15	22	32	1.95
96453401--96453646	40	6.2	40	91	2	388	26	27	22	23	1.99
96454950--96454983	13	2.5	13	90	9	50	47	14	2	35	1.60
96457994--96459033	49	21.2	49	91	4	1428	33	8	28	30	1.86
96457992--96459033	198	5.3	194	87	5	1428	33	8	28	30	1.86
96459203--96459281	37	2.1	37	90	0	122	24	18	31	25	1.98
96465969--96467040	40	26.8	41	83	4	1305	24	21	28	26	1.99
96465973--96467040	120	8.9	120	98	0	1947	24	21	28	26	1.99
96470480--96470792	40	8.2	40	74	15	270	27	27	21	24	1.99
96470480--96470657	80	2.2	80	93	4	308	24	27	23	24	2.00
96470552--96470840	147	2.0	147	93	2	501	29	25	18	25	1.98
96472095--96472128	13	2.5	13	90	9	50	47	14	2	35	1.60
96472808--96472856	21	2.3	21	96	0	89	46	4	16	32	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
96475065--96475224	43	3.7	43	89	1	232	23	15	26	35	1.94
96475065--96475242	43	4.1	44	86	4	229	23	15	26	34	1.94
96475058--96475282	86	2.6	86	80	5	247	25	15	25	33	1.95
96480485--96480529	8	5.5	8	85	12	56	84	0	6	8	0.78
96491759--96492164	200	2.0	201	99	0	796	32	26	15	25	1.95
96495517--96495638	61	2.0	61	96	0	226	24	26	16	32	1.96
96495606--96495669	31	2.1	31	90	0	101	25	23	15	35	1.94
96495881--96496050	24	7.2	23	91	2	241	28	20	21	29	1.98
96495883--96496049	23	7.1	23	93	2	262	29	19	22	28	1.98
96495883--96496050	47	3.6	47	91	3	275	29	19	22	29	1.98
96496108--96496164	9	5.9	9	73	15	51	35	22	8	33	1.85
96496096--96496166	20	3.5	20	90	0	115	32	22	11	33	1.90
96498032--96498246	27	8.0	27	83	3	202	39	18	10	32	1.85
96498034--96498249	81	2.7	81	81	4	231	39	18	11	31	1.85
96498061--96498246	54	3.4	54	85	3	232	39	17	11	32	1.85
96507120--96507204	43	2.0	43	92	0	143	27	18	24	29	1.98
96509172--96509361	94	2.0	94	92	0	317	33	11	22	33	1.89
96516687--96516720	17	1.9	18	94	5	61	20	47	20	11	1.81
96518527--96518580	27	2.0	27	85	7	74	46	3	1	48	1.30
96520964--96521072	37	2.9	37	93	0	182	26	32	18	22	1.97
96521219--96521495	48	5.8	48	77	9	237	28	29	10	32	1.90
96521326--96521705	47	8.1	47	80	8	450	26	27	12	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
96521203--96521683	94	5.1	95	81	9	384	27	28	11	32	1.92
96521267--96521689	142	3.0	141	86	5	502	26	27	12	33	1.93
96521327--96521702	94	4.0	94	86	6	496	26	27	12	32	1.93
96524538--96525707	40	29.3	40	97	0	1991	25	26	24	24	2.00
96525860--96525979	60	2.0	60	98	0	231	40	25	1	32	1.66
96531239--96531312	37	2.0	37	97	0	139	33	5	33	27	1.80
96532726--96532773	19	2.6	19	86	3	71	35	2	12	50	1.52
96536118--96536147	15	1.9	16	93	6	53	20	0	0	80	0.72
96537188--96537311	62	2.0	62	95	0	221	38	11	20	29	1.87
96538276--96538336	24	2.6	23	80	12	70	22	19	18	39	1.92
96538300--96538363	24	2.7	26	79	13	66	21	20	15	42	1.89
96542656--96542718	28	2.2	28	91	0	99	31	28	9	30	1.89
96542827--96542916	27	3.2	27	79	7	101	18	23	24	33	1.97
96542837--96542927	27	3.2	28	78	4	85	20	25	20	32	1.97
96549569--96549716	42	3.5	42	83	3	181	29	13	25	31	1.94
96557837--96557963	27	4.7	27	89	0	173	28	23	9	38	1.86
96557959--96558154	27	7.3	27	83	0	239	36	18	19	25	1.94
96557959--96558138	81	2.2	81	89	0	270	37	19	18	25	1.94
96558705--96558785	6	13.2	6	74	19	69	18	18	16	46	1.84
96558705--96558780	31	2.5	31	89	4	109	18	18	17	46	1.85
96560761--96560885	27	4.6	27	87	0	160	29	22	8	39	1.84
96560881--96561076	27	7.3	27	83	0	239	36	18	19	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
96560881--96561072	81	2.4	81	89	0	278	36	18	19	25	1.94
96562518--96562596	37	2.1	37	90	0	122	25	31	18	24	1.98
96562715--96563125	49	8.6	49	94	3	653	28	29	8	33	1.86
96566379--96566458	31	2.6	31	89	0	115	23	17	12	46	1.82
96576990--96577084	49	2.0	48	87	4	129	16	27	16	37	1.91
96579814--96579863	27	1.9	26	84	8	66	16	22	22	40	1.91
96579915--96579967	24	2.2	25	93	3	90	18	16	22	41	1.90
96579922--96579976	24	2.3	24	90	6	85	16	20	21	41	1.90
96594131--96594197	35	1.9	35	85	11	93	40	20	5	32	1.77
96595375--96595413	18	2.2	18	85	0	51	61	0	10	28	1.28
96597404--96597444	17	2.3	18	83	4	57	19	43	21	14	1.87
96604558--96604591	16	2.1	17	88	5	52	58	8	11	20	1.59
96610289--96610362	38	1.9	39	81	8	89	45	13	1	39	1.52
96610331--96610375	23	2.0	23	82	8	56	48	15	0	35	1.45
96617824--96617999	46	3.8	46	76	12	189	22	19	28	28	1.98
96619306--96619425	39	3.0	39	88	2	159	30	10	11	46	1.75
96621793--96621882	36	2.5	36	83	1	108	25	25	18	30	1.98
96624683--96624944	39	6.7	40	88	7	337	24	27	22	25	2.00
96638887--96638952	33	2.0	33	100	0	132	48	12	3	36	1.56
96640787--96641050	61	4.3	60	84	1	303	35	15	23	25	1.94
96640941--96641143	93	2.2	93	86	0	271	33	14	25	26	1.94
96641009--96641084	32	2.4	32	79	0	80	30	17	25	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
96649868--96649913	23	2.0	23	95	0	83	39	0	15	45	1.46
96649871--96649949	13	6.5	13	71	21	73	39	1	13	45	1.52
96649874--96649949	36	2.1	36	95	0	134	39	1	14	44	1.53
96650079--96650239	79	2.1	79	96	1	297	16	19	7	56	1.63
96653543--96653700	43	3.7	43	75	10	162	25	18	25	30	1.98
96661201--96661338	44	3.2	43	81	11	140	24	13	27	34	1.93
96661201--96661358	43	3.7	43	78	10	171	23	13	29	33	1.93
96667267--96667307	10	3.5	12	77	16	50	58	4	2	34	1.32
96667259--96667308	22	2.3	23	93	6	86	56	4	2	38	1.30
96671633--96671857	40	5.6	40	83	2	281	25	24	27	23	2.00
96671633--96671893	80	3.3	80	82	3	294	25	24	26	23	2.00
96674584--96674617	17	2.0	17	88	0	50	20	14	8	55	1.65
96677114--96677289	46	3.8	45	78	10	194	21	20	28	28	1.98
96677110--96677281	93	1.8	93	92	0	290	21	20	29	27	1.98
96679529--96679895	48	7.6	48	79	4	362	28	16	27	27	1.97
96679529--96679909	96	3.9	96	87	0	528	28	16	28	27	1.97
96679529--96679911	144	2.6	144	80	5	416	28	16	27	27	1.97
96684721--96684753	15	2.2	15	89	10	50	12	6	0	81	0.85
96689323--96689395	25	3.0	25	87	2	103	27	17	9	45	1.80
96690216--96690391	45	4.0	45	91	3	252	23	22	28	24	1.99
96692188--96692345	68	2.3	67	77	13	151	22	27	15	35	1.94
96694806--96694948	47	3.1	45	75	16	134	28	27	20	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
96695351--96695411	30	2.0	30	90	0	95	31	24	8	36	1.85
96699761--96699962	24	8.4	24	91	0	305	29	22	19	28	1.98
96700013--96700078	20	3.3	20	89	0	105	30	21	13	34	1.92
96700123--96700170	25	1.9	25	91	0	78	27	12	25	35	1.92
96707821--96707963	24	5.9	24	88	2	198	29	23	20	26	1.99
96708015--96708080	20	3.3	20	89	0	105	30	21	13	34	1.92
96708117--96708163	24	1.9	25	86	4	69	27	12	23	36	1.91
96710068--96710292	40	5.7	39	87	3	281	25	28	23	23	1.99
96710068--96710292	79	2.8	78	84	4	281	25	28	23	23	1.99
96713185--96713302	49	2.4	47	80	6	121	27	22	25	24	1.99

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   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   319   320   
          321   322