genome.fa.s13.2.7.7.80.10.50.1000.146.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_chr11
Parameters: 2 7 7 80 10 50 1000
Length:  102024878

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   

This is table  146  of  310  ( 37082 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)
47657880--47658138	80	3.3	80	85	3	256	25	20	27	25	1.99
47665794--47666056	40	6.6	40	88	3	325	24	20	27	26	1.99
47665833--47666091	80	3.3	80	85	3	256	25	20	27	25	1.99
47672293--47672384	40	2.4	39	85	7	116	14	11	35	38	1.83
47678355--47678389	13	2.7	13	95	0	61	5	31	0	62	1.18
47678334--47678387	13	3.6	16	79	16	53	3	25	0	70	1.04
47681726--47681775	3	16.7	3	100	0	100	34	0	0	66	0.92
47683956--47683983	8	3.5	8	100	0	56	0	10	0	89	0.49
47687458--47687498	22	1.9	22	95	5	75	73	0	7	19	1.07
47687459--47687505	22	2.2	21	84	3	67	74	0	4	21	0.99
47693202--47693228	4	6.8	4	100	0	54	48	25	0	25	1.52
47695354--47695400	22	2.1	23	96	4	87	34	8	4	53	1.51
47697985--47698028	14	3.3	13	81	12	54	27	0	9	63	1.24
47701089--47701134	24	1.9	24	82	8	58	47	0	2	50	1.13
47704900--47704938	20	1.9	21	89	5	62	43	7	17	30	1.77
47708695--47708849	82	1.9	83	82	8	199	25	18	24	30	1.98
47711273--47711620	40	8.7	40	97	0	642	30	20	27	22	1.98
47713280--47713322	22	2.0	22	95	0	77	32	6	11	48	1.66
47713798--47714219	211	2.0	211	98	0	808	22	10	28	38	1.88
47719089--47719176	37	2.4	37	96	0	158	18	15	29	36	1.92
47721023--47721083	13	4.5	13	76	8	59	52	0	14	32	1.42
47721020--47721144	41	3.1	41	87	3	191	46	1	17	34	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47721038--47721144	13	8.1	13	69	17	60	44	1	17	35	1.60
47721078--47721129	26	2.0	27	85	11	72	48	1	15	34	1.56
47728469--47728531	27	2.4	28	78	10	78	34	14	1	49	1.53
47731330--47731368	20	2.1	19	85	9	53	2	25	17	53	1.56
47738789--47739618	414	2.0	414	99	0	1633	30	18	13	37	1.89
47745520--47745577	25	2.2	26	85	11	75	34	3	3	58	1.32
47745728--47745787	27	2.3	25	80	11	59	31	11	3	53	1.53
47749891--47749937	23	2.0	23	100	0	94	42	0	17	40	1.49
47758991--47759030	19	2.1	19	85	0	53	40	15	0	45	1.46
47762729--47763370	336	1.9	330	84	3	840	45	15	16	22	1.84
47766790--47766960	85	2.0	85	91	0	279	32	18	6	42	1.76
47768589--47768656	30	2.3	30	94	0	118	39	8	22	29	1.84
47770640--47770677	19	2.0	19	100	0	76	42	0	10	47	1.38
47772508--47772637	64	2.0	65	96	1	244	23	18	17	40	1.91
47773901--47773937	19	1.9	19	88	0	56	51	5	0	43	1.24
47774744--47774793	8	6.0	8	88	6	55	78	0	20	2	0.86
47774742--47774786	4	11.2	4	95	0	81	77	0	22	0	0.76
47781379--47781407	4	7.2	4	100	0	58	75	0	24	0	0.80
47782171--47782281	47	2.4	47	83	6	145	26	16	22	35	1.95
47785448--47785599	79	1.9	79	86	5	218	25	21	17	34	1.95
47785845--47785878	17	1.9	17	88	5	50	23	20	11	44	1.84
47794226--47794272	21	2.2	22	92	3	78	21	19	38	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47797283--47797312	14	2.1	14	93	0	51	50	3	0	46	1.18
47800041--47800243	112	1.8	112	85	0	289	38	26	7	27	1.83
47802021--47802060	21	1.9	21	89	0	62	60	0	27	12	1.33
47804870--47804957	20	4.4	20	80	8	81	44	4	10	40	1.59
47804971--47805032	20	3.1	21	77	9	58	46	3	8	41	1.49
47805173--47805211	20	2.0	20	89	0	60	46	5	10	38	1.60
47805246--47805308	20	3.2	20	76	13	58	36	4	12	46	1.63
47805365--47805407	19	2.3	19	83	0	59	39	6	6	46	1.58
47805941--47806007	31	2.2	31	89	2	100	35	0	1	62	1.04
47808737--47808937	106	1.9	106	95	0	366	30	19	20	29	1.97
47822959--47822983	7	3.6	7	100	0	50	56	16	0	28	1.41
47823514--47824456	106	8.9	106	99	0	1850	31	19	19	28	1.97
47824946--47824992	18	2.5	19	80	16	53	51	0	17	31	1.46
47824946--47824990	19	2.3	20	81	14	58	53	0	15	31	1.43
47826678--47826734	23	2.5	23	86	8	73	14	7	40	38	1.73
47827944--47828030	11	8.3	11	69	19	51	44	2	28	24	1.66
47827933--47828030	22	4.1	22	68	21	63	45	2	27	24	1.64
47827920--47828019	51	2.0	51	86	4	139	46	2	26	26	1.64
47830795--47830951	83	1.9	83	82	5	201	27	15	12	43	1.83
47832258--47832374	58	2.0	58	96	0	216	27	22	21	29	1.99
47848360--47848510	79	1.9	76	86	4	212	29	21	17	31	1.96
47850647--47850695	21	2.3	22	85	3	64	2	24	4	69	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47850646--47850700	27	2.1	26	83	10	67	1	25	5	67	1.22
47851854--47851894	18	2.3	18	87	4	57	60	21	4	12	1.50
47854683--47854908	43	5.1	44	63	16	108	24	23	25	26	2.00
47854683--47854912	88	2.6	88	88	0	352	24	24	24	26	2.00
47854884--47854941	29	2.0	30	86	3	82	25	17	18	37	1.93
47854951--47855328	88	4.3	88	86	0	524	26	25	25	23	2.00
47854952--47855330	176	2.2	176	98	0	724	26	25	25	23	2.00
47855514--47855628	44	2.6	44	77	2	133	28	24	24	22	1.99
47858912--47858988	29	2.6	30	83	8	86	51	3	2	41	1.34
47859321--47859370	19	2.7	18	81	9	55	70	6	0	24	1.10
47859312--47859379	28	2.4	28	85	7	84	63	4	1	30	1.23
47859826--47859853	8	3.5	8	100	0	56	10	0	0	89	0.49
47860291--47860330	19	2.2	20	83	16	52	27	0	2	70	1.01
47868394--47868477	37	2.2	39	80	16	97	50	8	5	35	1.57
47869561--47869761	101	2.0	101	97	0	375	17	26	39	15	1.90
47870453--47870544	44	2.1	44	87	4	132	36	25	20	17	1.94
47880967--47881010	8	5.5	8	84	10	63	38	0	0	61	0.96
47880967--47881013	16	2.9	17	87	9	71	40	0	0	59	0.97
47880971--47881018	24	2.0	24	84	15	64	41	0	2	56	1.11
47895941--47895980	21	1.9	21	85	10	55	60	30	2	7	1.38
47897433--47897522	45	2.0	45	88	0	135	34	17	12	35	1.87
47901898--47901961	19	3.4	18	74	8	56	32	1	1	64	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47921561--47921600	14	2.8	15	85	11	57	5	20	0	75	0.99
47921564--47921602	13	2.8	14	84	11	53	7	20	0	71	1.10
47921625--47921668	18	2.5	17	79	20	54	11	13	0	75	1.06
47924036--47924185	74	2.0	74	94	0	264	42	5	23	28	1.76
47925425--47925454	10	3.0	10	95	0	51	40	13	26	20	1.89
47933558--47933616	29	2.0	29	96	0	109	38	8	11	40	1.72
47933558--47933629	29	2.5	29	90	0	90	43	6	9	40	1.65
47934931--47934985	17	3.2	17	78	14	60	23	12	7	56	1.61
47936102--47936196	48	2.0	48	83	6	120	23	17	30	28	1.97
47939818--47939959	71	2.0	71	100	0	284	32	15	23	28	1.95
47941441--47941488	21	2.4	19	78	21	53	60	6	0	33	1.22
47941522--47941593	32	2.4	30	83	6	92	56	4	2	36	1.33
47941524--47941599	30	2.5	29	76	18	82	56	5	2	35	1.36
47941519--47941598	26	2.9	27	77	18	83	57	5	2	35	1.34
47949875--47949917	21	2.1	21	84	16	56	37	25	13	23	1.92
47953451--47953494	22	2.0	21	83	12	54	15	9	9	65	1.45
47955046--47955075	14	2.1	15	93	6	53	23	3	6	66	1.30
47964674--47964765	40	2.2	41	82	5	114	26	17	16	40	1.90
47969180--47969218	20	2.0	20	100	0	78	46	10	0	43	1.37
47975593--47975630	18	2.1	18	95	0	67	42	47	2	7	1.46
47975607--47975631	13	1.9	13	100	0	50	40	48	0	12	1.40
47975688--47975756	18	3.8	18	75	12	70	27	8	18	44	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47975688--47975756	27	2.6	27	81	4	86	27	8	18	44	1.79
47978774--47978811	20	1.9	20	100	0	76	55	13	15	15	1.70
47991793--47991826	16	2.1	16	88	0	50	50	14	17	17	1.79
47994625--47994665	21	2.0	21	90	0	64	29	21	29	19	1.98
47996571--47996604	16	2.1	16	88	0	50	50	14	17	17	1.79
47999242--47999379	46	3.0	46	98	0	267	47	15	8	28	1.76
48000516--48000594	34	2.5	33	80	10	92	49	1	1	48	1.17
48000532--48000597	14	4.3	15	73	19	55	45	0	1	53	1.09
48000616--48000652	16	2.3	16	86	13	58	40	0	0	59	0.97
48000664--48000719	22	2.6	22	83	5	62	51	0	0	48	1.00

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